[nco] 07/32: Imported Upstream version 4.4.3
Bas Couwenberg
sebastic at xs4all.nl
Mon Jan 19 00:00:30 UTC 2015
This is an automated email from the git hooks/post-receive script.
sebastic-guest pushed a commit to branch master
in repository nco.
commit 0e65da8ef803ec187ce960f4791d7f8669c36585
Author: Bas Couwenberg <sebastic at xs4all.nl>
Date: Sun Jan 18 16:39:11 2015 +0100
Imported Upstream version 4.4.3
---
Makefile.in | 10 +-
bld/Makefile | 39 +-
bld/nco.spec | 11 +-
bld/nco_dst.pl | 34 +-
bm/NCO_rgr.pm | 996 ++-
configure | 27 +-
configure.ac | 11 +-
data/Makefile.am | 32 +-
data/Makefile.in | 27 +-
data/cmip5.cdl | 18 +-
data/in_grp_1.cdl | 12 +-
data/in_grp_2.cdl | 14 +-
data/in_grp_3.cdl | 11 +-
data/in_grp_4.cdl | 71 +
data/in_grp_5.cdl | 71 +
data/in_grp_6.cdl | 76 +
data/in_grp_7.cdl | 119 +
data/{mdl.cdl => mdl_1.cdl} | 10 +-
data/{mdl2.cdl => mdl_2.cdl} | 4 +-
data/{mdl.cdl => mdl_3.cdl} | 25 +-
data/obs.cdl | 6 +-
doc/ANNOUNCE | 100 +-
doc/ChangeLog | 133 +-
doc/MANIFEST | 11 +-
doc/TAG | 2 +-
doc/VERSION | 2 +-
doc/debian.txt | 170 +-
doc/index.shtml | 85 +-
doc/nco.dvi | Bin 1295552 -> 1299864 bytes
doc/nco.html | 350 +-
doc/nco.pdf | Bin 1201173 -> 1203921 bytes
doc/nco.ps | 12234 ++++++++++++++++++------------------
doc/nco.texi | 155 +-
doc/nco.txt | 3442 +++++-----
doc/nco.xml | 3381 +++++-----
doc/opendap.sh | 3 +-
doc/xmp/mcc_grp.sh | 4 +-
man/Makefile.in | 2 +-
qt/ncap2/ncap2.pro | 8 +-
src/Makefile.in | 2 +-
src/nco++/Makefile.in | 2 +-
src/nco++/fmc_all_cls.cc | 393 +-
src/nco++/fmc_all_cls.hh | 11 -
src/nco++/ncap2.cc | 10 +-
src/nco++/ncoEnumTokenTypes.hpp | 2 +-
src/nco++/ncoLexer.cpp | 2 +-
src/nco++/ncoLexer.hpp | 4 +-
src/nco++/ncoParser.cpp | 2 +-
src/nco++/ncoParser.hpp | 4 +-
src/nco++/ncoParserTokenTypes.hpp | 2 +-
src/nco++/ncoTree.cpp | 2 +-
src/nco++/ncoTree.hpp | 4 +-
src/nco/Makefile.in | 2 +-
src/nco/ncap.h | 8 +-
src/nco/ncatted.c | 10 +-
src/nco/ncbo.c | 26 +-
src/nco/ncecat.c | 10 +-
src/nco/ncflint.c | 8 +-
src/nco/ncks.c | 8 +-
src/nco/nco.h | 27 +-
src/nco/nco_cnk.c | 45 +-
src/nco/nco_cnv_csm.c | 17 +-
src/nco/nco_ctl.c | 6 +-
src/nco/nco_grp_trv.c | 140 +-
src/nco/nco_grp_trv.h | 18 +-
src/nco/nco_grp_utl.c | 3784 +++++++----
src/nco/nco_grp_utl.h | 263 +-
src/nco/nco_msa.c | 45 +-
src/nco/nco_omp.c | 4 +-
src/nco/nco_prn.c | 6 +-
src/nco/nco_scm.c | 10 +-
src/nco/nco_var_lst.c | 143 +-
src/nco/nco_var_lst.h | 8 +-
src/nco/nco_var_utl.c | 14 +-
src/nco/ncpdq.c | 8 +-
src/nco/ncra.c | 64 +-
src/nco/ncrename.c | 8 +-
src/nco/ncwa.c | 8 +-
src/nco_c++/Makefile.in | 2 +-
79 files changed, 14181 insertions(+), 12657 deletions(-)
diff --git a/Makefile.in b/Makefile.in
index cf8fd0f..4ec2faa 100644
--- a/Makefile.in
+++ b/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/Makefile.in,v 1.143 2014/01/30 07:10:11 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/Makefile.in,v 1.145 2014/04/02 05:40:21 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
am__is_gnu_make = test -n '$(MAKEFILE_LIST)' && test -n '$(MAKELEVEL)'
am__make_running_with_option = \
@@ -84,10 +84,10 @@ subdir = .
DIST_COMMON = $(srcdir)/Makefile.in $(srcdir)/Makefile.am \
$(top_srcdir)/configure $(am__configure_deps) \
$(srcdir)/config.h.in $(top_srcdir)/autobld/mkinstalldirs \
- AUTHORS COPYING ChangeLog INSTALL NEWS README \
- autobld/config.guess autobld/config.sub autobld/depcomp \
- autobld/install-sh autobld/missing autobld/mkinstalldirs \
- autobld/texinfo.tex autobld/ylwrap autobld/ltmain.sh \
+ AUTHORS COPYING INSTALL autobld/config.guess \
+ autobld/config.sub autobld/depcomp autobld/install-sh \
+ autobld/missing autobld/mkinstalldirs autobld/texinfo.tex \
+ autobld/ylwrap autobld/ltmain.sh \
$(top_srcdir)/autobld/config.guess \
$(top_srcdir)/autobld/config.sub \
$(top_srcdir)/autobld/install-sh \
diff --git a/bld/Makefile b/bld/Makefile
index 1889dbb..d7fe525 100644
--- a/bld/Makefile
+++ b/bld/Makefile
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/bld/Makefile,v 1.691 2014/02/20 16:43:22 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/bld/Makefile,v 1.701 2014/04/02 19:23:46 zender Exp $ -*-makefile-*-
# Purpose: GNU Makefile for NCO module nco
# Requires GNU Make---AT&T Make chokes on GNU syntax
@@ -85,9 +85,14 @@
# 64-bit ABI netCDF4 on NCAR AIX systems (bluefire):
# cd ~/nco/bld;ANTLR='/contrib/antlr-2.7.7/bin/antlr' ANTLR_ROOT='/contrib/antlr-2.7.7' CURL_LIB='/contrib/curl/7.21.2/lib' GSL_INC='/contrib/gsl-1.12/include' GSL_LIB='/contrib/gsl-1.12/lib' HDF5_ROOT='/contrib/hdf5-1.8.7_seq' LDFLAGS='-lnetcdf -lhdf5_hl -lhdf5 -lz' NETCDF_ROOT='/contrib/netcdf/4.1.3_seq' SZ_LIB='/contrib/szip/lib' UDUNITS_LIB='/contrib/zlib/lib' make --jobs=1 OPTS=D SZ=Y allinone ABI=64;cd -
# 64-bit ABI netCDF4 on NCAR AIX systems (bluefire):
-# cd ~/bin/AIX;/usr/local/bin/tar cvzf ~/nco-4.4.2.aix53.tar.gz nc*;scp ~/nco-4.4.2.aix53.tar.gz zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
+# cd ~/bin/AIX;/usr/local/bin/tar cvzf ~/nco-4.4.3.aix53.tar.gz nc*;scp ~/nco-4.4.3.aix53.tar.gz zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
# netCDF4 on NCAR Linux cluster systems (mirage):
# cd ~/nco/bld;make OPTS=D allinone;cd -
+# netCDF4 on ORNL Linux cluster systems (titan, rhea):
+# module avail
+# . ~/.bashrc
+# module add intel netcdf udunits gsl
+# cd ~/nco/bld;make NETCDF_ROOT='/sw/redhat6/netcdf/4.1.3/rhel6.4_intel13.1.3' UDUNITS_INC='/sw/redhat6/udunits/2.1.24/rhel6.4_intel13.1.3/include' UDUNITS_LIB='/sw/redhat6/udunits/2.1.24/rhel6.4_intel13.1.3/lib' OPTS=D allinone;cd -
# netCDF4 on NCAR Linux cluster systems (yellowstone):
# /ncar/opt/hpss/hsi # Starts HPSS session
# export PATH=${PATH}\:/ncar/opt/hpss
@@ -101,9 +106,9 @@
# cd ~/nco/bld;make NETCDF_ROOT='/glade/apps/opt/netcdf/4.3.0-rc4/intel/default' UDUNITS_INC='/glade/apps/opt/udunits/2.1.24/intel/12.1.4/include' UDUNITS_LIB='/glade/apps/opt/udunits/2.1.24/intel/12.1.4/lib' OPTS=D allinone;cd -
# Cygwin on Windows Vista systems:
# cd ~/nco/bld;ANTLR='antlr' make --jobs=1 GSL=Y OPTS=D NETCDF4=Y UDUNITS2=Y allinone;cd -
-# cd ~/bin/WIN32;tar cvzf ~/nco-4.4.2.win32.cygwin.tar.gz nc* ; scp ~/nco-4.4.2.win32.cygwin.tar.gz zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
+# cd ~/bin/WIN32;tar cvzf ~/nco-4.4.3.win32.cygwin.tar.gz nc* ; scp ~/nco-4.4.3.win32.cygwin.tar.gz zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
# Data files to dust
-# cd ~/nco/data;scp cmip5.nc obs.nc mdl.nc mdl2.nc in_grp*.nc in.nc dust.ess.uci.edu:/var/www/html/nco
+# cd ~/nco/data;scp cmip5.nc obs.nc mdl_1.nc mdl_2.nc in_grp*.nc in.nc dust.ess.uci.edu:/var/www/html/nco
# Top-level tokens defining directory structure
# These tokens may be over-ridden by environment variables or when invoking make, e.g., make DAP_OPENDAP=Y
@@ -1761,7 +1766,7 @@ libnco_c++_tst: ${MY_BLD_DIR}/libnco_c++_tst
${MY_BLD_DIR}/libnco_c++_tst: ${MY_BLD_DIR}/libnco_c++_tst.o lib
${CXX} -o $@${BNR_SFX} $< ${LDFLAGS}
chmod 755 $@${BNR_SFX}
-rpm: ${MY_BLD_DIR}/nco.spec # Building rpm requires root priveleges, e.g., sudo make NCO_VRS=4.4.2 rpm
+rpm: ${MY_BLD_DIR}/nco.spec # Building rpm requires root priveleges, e.g., sudo make NCO_VRS=4.4.3 rpm
# Building NCO RPM requires following packages
# rpm -q bison flex netcdf-devel libtool automake autoconf udunits udunits-devel curl-devel libxml2 libxml2-devel librx-devel
# sudo yum install bison flex netcdf-devel libtool automake autoconf udunits udunits-devel curl-devel libxml2 libxml2-devel librx-devel
@@ -1816,7 +1821,7 @@ ${MY_DAT_DIR}/buggy.nc: ${MY_DAT_DIR}/buggy.cdl
dap: data
-cd ~/nco/data; scp in.nc in.cdl dust.ess.uci.edu:/var/www/html/dodsdata; scp in.nc in.cdl esmf.ess.uci.edu:/var/www/html/dodsdata; scp in.nc in.cdl esmf.ess.uci.edu:/data/dodsdata
data: dat
-dat: ${MY_DAT_DIR}/cmip5.nc ${MY_DAT_DIR}/obs.nc ${MY_DAT_DIR}/dsm.nc ${MY_DAT_DIR}/hdn.nc ${MY_DAT_DIR}/hdf.hdf ${MY_DAT_DIR}/mdl.nc ${MY_DAT_DIR}/mdl2.nc ${MY_DAT_DIR}/in.nc ${MY_DAT_DIR}/in_grp.nc ${MY_DAT_DIR}/in_4.nc ${MY_DAT_DIR}/in_grp_1.nc ${MY_DAT_DIR}/in_grp_2.nc ${MY_DAT_DIR}/in_grp_3.nc ${MY_DAT_DIR}/in_rec_zero.nc
+dat: ${MY_DAT_DIR}/cmip5.nc ${MY_DAT_DIR}/obs.nc ${MY_DAT_DIR}/dsm.nc ${MY_DAT_DIR}/hdn.nc ${MY_DAT_DIR}/hdf.hdf ${MY_DAT_DIR}/mdl_1.nc ${MY_DAT_DIR}/mdl_2.nc ${MY_DAT_DIR}/mdl_3.nc ${MY_DAT_DIR}/in.nc ${MY_DAT_DIR}/in_grp.nc ${MY_DAT_DIR}/in_4.nc ${MY_DAT_DIR}/in_grp_1.nc ${MY_DAT_DIR}/in_grp_2.nc ${MY_DAT_DIR}/in_grp_3.nc ${MY_DAT_DIR}/in_grp_4.nc ${MY_DAT_DIR}/in_grp_5.nc ${MY_DAT_DIR}/in_grp_6.nc ${MY_DAT_DIR}/in_grp_7.nc ${MY_DAT_DIR}/in_rec_zero.nc
-for fl in ${MDL_DAT_STB}; do cd ${MY_DAT_DIR}; ln -s -f in.nc $$fl; done
${MY_DAT_DIR}/in.nc: ${MY_DAT_DIR}/in.cdl
ncgen -b -o $@ $<
@@ -1826,15 +1831,23 @@ ${MY_DAT_DIR}/in_grp.nc: ${MY_DAT_DIR}/in_grp.cdl
-ncgen -k netCDF-4 -b -o $@ $<
${MY_DAT_DIR}/in_4.nc: ${MY_DAT_DIR}/in_4.cdl
-ncgen -k netCDF-4 -b -o $@ $<
+${MY_DAT_DIR}/in_1.nc: ${MY_DAT_DIR}/in_1.cdl
+ -ncgen -k netCDF-4 -b -o $@ $<
+${MY_DAT_DIR}/in_2.nc: ${MY_DAT_DIR}/in_2.cdl
+ -ncgen -k netCDF-4 -b -o $@ $<
${MY_DAT_DIR}/in_grp_1.nc: ${MY_DAT_DIR}/in_grp_1.cdl
-ncgen -k netCDF-4 -b -o $@ $<
${MY_DAT_DIR}/in_grp_2.nc: ${MY_DAT_DIR}/in_grp_2.cdl
-ncgen -k netCDF-4 -b -o $@ $<
-${MY_DAT_DIR}/in_1.nc: ${MY_DAT_DIR}/in_1.cdl
+${MY_DAT_DIR}/in_grp_3.nc: ${MY_DAT_DIR}/in_grp_3.cdl
-ncgen -k netCDF-4 -b -o $@ $<
-${MY_DAT_DIR}/in_2.nc: ${MY_DAT_DIR}/in_2.cdl
+${MY_DAT_DIR}/in_grp_4.nc: ${MY_DAT_DIR}/in_grp_4.cdl
-ncgen -k netCDF-4 -b -o $@ $<
-${MY_DAT_DIR}/in_grp_3.nc: ${MY_DAT_DIR}/in_grp_3.cdl
+${MY_DAT_DIR}/in_grp_5.nc: ${MY_DAT_DIR}/in_grp_5.cdl
+ -ncgen -k netCDF-4 -b -o $@ $<
+${MY_DAT_DIR}/in_grp_6.nc: ${MY_DAT_DIR}/in_grp_6.cdl
+ -ncgen -k netCDF-4 -b -o $@ $<
+${MY_DAT_DIR}/in_grp_7.nc: ${MY_DAT_DIR}/in_grp_7.cdl
-ncgen -k netCDF-4 -b -o $@ $<
${MY_DAT_DIR}/cmip5.nc: ${MY_DAT_DIR}/cmip5.cdl
-ncgen -k netCDF-4 -b -o $@ $<
@@ -1846,9 +1859,11 @@ ${MY_DAT_DIR}/obs.nc: ${MY_DAT_DIR}/obs.cdl
-ncgen -k netCDF-4 -b -o $@ $<
${MY_DAT_DIR}/hdf.hdf: ${MY_DAT_DIR}/hdf.cdl
-hncgen -b -o $@ $<
-${MY_DAT_DIR}/mdl.nc: ${MY_DAT_DIR}/mdl.cdl
+${MY_DAT_DIR}/mdl_1.nc: ${MY_DAT_DIR}/mdl_1.cdl
+ -ncgen -k netCDF-4 -b -o $@ $<
+${MY_DAT_DIR}/mdl_2.nc: ${MY_DAT_DIR}/mdl_2.cdl
-ncgen -k netCDF-4 -b -o $@ $<
-${MY_DAT_DIR}/mdl2.nc: ${MY_DAT_DIR}/mdl2.cdl
+${MY_DAT_DIR}/mdl_3.nc: ${MY_DAT_DIR}/mdl_3.cdl
-ncgen -k netCDF-4 -b -o $@ $<
${MY_DAT_DIR}/snd_ncwa.nc: ${MY_DAT_DIR}/snd_ncwa.cdl
-ncgen -k netCDF-4 -b -o $@ $<
@@ -2091,7 +2106,7 @@ dbg:
distclean: dst_cln
dst_cln: cln bin_cln dat_cln doc_cln root_cln
cd ${MY_BLD_DIR}; rm -f *~
- cd ${MY_DAT_DIR}; rm -f buggy.nc cmip5.nc dsm.nc obs.nc hdf.hdf mdl.nc mdl2.nc in.nc in_4.nc in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc in_rec_zero.nc *~
+ cd ${MY_DAT_DIR}; rm -f buggy.nc cmip5.nc dsm.nc obs.nc hdf.hdf mdl_1.nc mdl_2.nc mdl_3.nc in.nc in_4.nc in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc in_grp_4.nc in_grp_5.nc in_grp_6.nc in_grp_7.nc in_rec_zero.nc *~
tags:
etags ${MY_SRC_DIR}/*.h $(filter-out ${TAGS_FILTER_FILES},${SRC_LST}) ${MDL_DOC_SRC} ${MDL_MAN} ${MDL_BLD_SRC} ${MDL_CXX_SRC} ${MDL_NCAP_SRC} ${MDL_QT_SRC}
diff --git a/bld/nco.spec b/bld/nco.spec
index 67cb210..c1cd6c0 100644
--- a/bld/nco.spec
+++ b/bld/nco.spec
@@ -2,17 +2,17 @@
# http://cvs.fedoraproject.org/viewvc/devel/nco/nco.spec?view=co
Name: nco
-Version: 4.4.2
+Version: 4.4.3
Release: 1%{?dist}
Summary: Programs that manipulate netCDF files
Group: Applications/Engineering
License: GPL3
URL: http://nco.sf.net/
-# Obtain NCO version 4.4.2-1 tar.gz from Sourceforge using CVS:
+# Obtain NCO version 4.4.3-1 tar.gz from Sourceforge using CVS:
# cvs -d:pserver:anonymous at nco.cvs.sf.net:/cvsroot/nco login
-# cvs -z3 -d:pserver:anonymous at nco.cvs.sf.net:/cvsroot/nco co -r nco-4.4.2-1 -d nco-%{version} nco
-# tar czf nco-%{version}.tar.gz --exclude='nco-4.4.2/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude='ncap_yacc.[ch]' ./nco-%{version}
+# cvs -z3 -d:pserver:anonymous at nco.cvs.sf.net:/cvsroot/nco co -r nco-4.4.3-1 -d nco-%{version} nco
+# tar czf nco-%{version}.tar.gz --exclude='nco-4.4.3/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude='ncap_yacc.[ch]' ./nco-%{version}
Source0: nco-%{version}.tar.gz
#Patch0: nco_install_C_headers.patch
#Patch1: nco_find_udunits-dat.patch
@@ -108,6 +108,9 @@ fi
# %{_libdir}/libnco++.so
%changelog
+* Thu Apr 02 2014 Charlie Zender <zender at uci.edu> - 4.4.2-1
+- new upstream 4.4.3
+
* Thu Feb 20 2014 Charlie Zender <zender at uci.edu> - 4.4.1-1
- new upstream 4.4.2
diff --git a/bld/nco_dst.pl b/bld/nco_dst.pl
index 8ea8bef..7723e0c 100755
--- a/bld/nco_dst.pl
+++ b/bld/nco_dst.pl
@@ -6,18 +6,18 @@
# Usage:
# Export tagged, public versions
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4_4_2 # Build, do not release on SF
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --sf nco-4_4_2 # Build, release on SF
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --nst_all nco-4_4_2 # Install, do not build
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --nst_all nco-4_4_2 # Build and install
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_cnt nco-4_4_2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_prs nco-4_4_2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cgd_cnt nco-4_4_2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cray_prs nco-4_4_2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --bbl_cnt nco-4_4_2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --blk_cnt nco-4_4_2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --dat_cnt nco-4_4_2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --ute_prs nco-4_4_2
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4_4_3 # Build, do not release on SF
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --sf nco-4_4_3 # Build, release on SF
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --nst_all nco-4_4_3 # Install, do not build
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --nst_all nco-4_4_3 # Build and install
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_cnt nco-4_4_3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_prs nco-4_4_3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cgd_cnt nco-4_4_3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cray_prs nco-4_4_3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --bbl_cnt nco-4_4_3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --blk_cnt nco-4_4_3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --dat_cnt nco-4_4_3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --ute_prs nco-4_4_3
# Export daily snapshot
# ${HOME}/nco/bld/nco_dst.pl --dbg=2
@@ -31,7 +31,7 @@ BEGIN{
unshift @INC,$ENV{'HOME'}.'/perl'; # Location of csz.pl and DBG.pm HaS98 p. 170
} # end BEGIN
-my $CVS_Header='$Header: /cvsroot/nco/nco/bld/nco_dst.pl,v 1.212 2014/02/05 21:17:07 zender Exp $';
+my $CVS_Header='$Header: /cvsroot/nco/nco/bld/nco_dst.pl,v 1.213 2014/04/02 05:40:23 zender Exp $';
# Specify modules
use strict; # Protect all namespaces
@@ -68,9 +68,9 @@ my ($rsh_cmd,$rcp_cmd,$cp_cmd,$rm_cmd,$mkdir_cmd,$cvs_cmd);
my $False=0;
my $True=1;
-my $CVS_Date='$Date: 2014/02/05 21:17:07 $';
-my $CVS_Id='$Id: nco_dst.pl,v 1.212 2014/02/05 21:17:07 zender Exp $';
-my $CVS_Revision='$Revision: 1.212 $';
+my $CVS_Date='$Date: 2014/04/02 05:40:23 $';
+my $CVS_Id='$Id: nco_dst.pl,v 1.213 2014/04/02 05:40:23 zender Exp $';
+my $CVS_Revision='$Revision: 1.213 $';
my $CVSROOT='zender at nco.cvs.sf.net:/cvsroot/nco'; # CVS repository
my $DATA=$ENV{'DATA'};
my $HOME=$ENV{'HOME'};
@@ -255,7 +255,7 @@ if($bld){
# Set up FTP server
chdir $dst_pth_pfx or die "$prg_nm: ERROR unable to chdir to $dst_pth_pfx: $!\n"; # $! is system error string
cmd_prc("$cp_cmd $doc_fl ./$dst_vrs/doc"); # Copy derived documentation to source directory
- cmd_prc("$tar_cmd cvzf $dst_fl --exclude='nco-4.4.2/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude=ncap_yacc.[ch] ./$dst_vrs"); # Create gzipped tarfile
+ cmd_prc("$tar_cmd cvzf $dst_fl --exclude='nco-4.4.3/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude=ncap_yacc.[ch] ./$dst_vrs"); # Create gzipped tarfile
cmd_prc("$rsh_cmd $www_mch $rm_cmd $www_drc/src/$dst_fl"); # Remove any distribution with same name
if($dly_snp){cmd_prc("$rsh_cmd $www_mch $rm_cmd -r $www_drc/src/nco-????????.tar.gz");} # Remove previous daily snapshots from WWW server
cmd_prc("$rcp_cmd $dst_fl $www_mch:$www_drc/src"); # Copy local tarfile to WWW server
diff --git a/bm/NCO_rgr.pm b/bm/NCO_rgr.pm
index 5fbeefa..3ecdd5a 100644
--- a/bm/NCO_rgr.pm
+++ b/bm/NCO_rgr.pm
@@ -1,6 +1,6 @@
package NCO_rgr;
-# $Header: /cvsroot/nco/nco/bm/NCO_rgr.pm,v 1.459 2014/02/20 18:25:45 zender Exp $
+# $Header: /cvsroot/nco/nco/bm/NCO_rgr.pm,v 1.489 2014/04/01 17:40:23 pvicente Exp $
# Purpose: All REGRESSION tests for NCO operators
# BENCHMARKS are coded in "NCO_benchmarks.pm"
@@ -82,61 +82,40 @@ sub tst_rgr {
NCO_bm::dbg_msg(1,"------------- REGRESSION TESTS STARTED from tst_rgr() -------------");
if(0){} ################# SKIP THESE #####################
-
-
-# NCO 4.2.4
-# Output for some tests vary when ENABLE_NETCDF4 is not set
-# Add check for ENABLE_NETCDF4 by reading config.h
-
-# error messages for ENABLE_NETCDF4 not defined
-my $ncks_msg_no_netcdf4 = "ncks: HINT: Obtain or build a netCDF4-enabled version of NCO. Try, e.g., ./configure --enable-netcdf4 ...;make;make install";
-my $ncecat_msg_no_netcdf4 = "ncecat: HINT: Obtain or build a netCDF4-enabled version of NCO. Try, e.g., ./configure --enable-netcdf4 ...;make;make install";
-# error messages for HAVE_NETCDF4_H not defined
-my $ncks_msg_no_have_netcdf4 = "nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
-# strings to find
-my $find_undef_enable_netcdf4 = "undef ENABLE_NETCDF4";
-my $find_define_enable_netcdf4 = "define ENABLE_NETCDF4";
-my $find_undef_have_netcdf4 = "undef HAVE_NETCDF4_H";
-my $find_define_have_netcdf4 = "define HAVE_NETCDF4_H";
-my $ENABLE_NETCDF4=-1;
-my $HAVE_NETCDF4_H=-1;
print "\n";
-# Read config.h
-my $use_config_h=0;
-if ($use_config_h == 1){
- open FILE, "../config.h" or die $!;
- while (my $line = <FILE>) {
- if ($line =~ /$find_undef_enable_netcdf4/){
- print "INFO: ENABLE_NETCDF4 is disabled in config.h\n";
- $ENABLE_NETCDF4=0;
- }
- if ($line =~ /$find_define_enable_netcdf4/){
- print "INFO: ENABLE_NETCDF4 is defined in config.h\n";
- $ENABLE_NETCDF4=1;
- }
- if ($line =~ /$find_undef_have_netcdf4/){
- print "INFO: HAVE_NETCDF4_H is disabled in config.h\n";
- $HAVE_NETCDF4_H=0;
- }
- if ($line =~ /$find_define_have_netcdf4/){
- print "INFO: HAVE_NETCDF4_H is defined in config.h\n";
- $HAVE_NETCDF4_H=1;
- }
- }
-} #$use_config_h
+
+my $RUN_NETCDF4_TESTS=0;
+my $RUN_NETCDF4_TESTS_VERSION_43=0;
system("ncks --get_prg_info");
# system() runs a command and returns exit status information as a 16 bit value:
# Low 7 bits are signal process died from, if any, and high 8 bits are actual exit value
-# fxm: 20130125 deprecate this hack in favor of obtaining tokens directly from ncks
if( $? == -1 ){
print "failed to execute: ncks --get_prg_info: $!\n";
}else{
my $exit_value=$? >> 8;
- if ($exit_value==20) {$HAVE_NETCDF4_H=0;}else{$HAVE_NETCDF4_H=1;}
- if ($exit_value==30) {$ENABLE_NETCDF4=1;}else{$ENABLE_NETCDF4=0;}
+
+ # nco_get_prg_info() returns codes
+ # 3 (for library 3.x )
+ # 41 (for library 4.1.x)
+ # 43 (for library 4.3.1.x)
+
+ if ($exit_value==40) {$RUN_NETCDF4_TESTS=1;}
+ if ($exit_value==41) {$RUN_NETCDF4_TESTS=1;}
+ if ($exit_value==43) {$RUN_NETCDF4_TESTS=1;}
+ if ($exit_value==43) {$RUN_NETCDF4_TESTS_VERSION_43=1;}
+
+ if ($exit_value==41)
+ {
+ print "netCDF version 4.1.x detected\n";
+ }
+ if ($exit_value==43)
+ {
+ print "netCDF version 4.3.1.x detected\n";
+ }
+
}
print "\n";
@@ -318,7 +297,12 @@ print "\n";
#ncatted #6
#ncatted -O -a purpose,rlev,m,c,new_value in_grp_3.nc out.nc
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
+
$tst_cmd[0]="ncatted -O $nco_D_flg -a purpose,rlev,m,c,new_value $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -g g3 -v rlev %tmp_fl_00%";
$dsc_sng="(Groups) Modify attribute for variable (input relative name)";
@@ -376,11 +360,10 @@ print "\n";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-
-
- } # $HAVE_NETCDF4_H
- }
+ } # $RUN_NETCDF4_TESTS
+
+ } #dodap
# printf("paused @ %s:%d - hit return to continue", __FILE__ , __LINE__); my $wait = <STDIN>;
@@ -564,8 +547,12 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
+
#
# NCO 4.3.0: added support for groups; ncbo -g
@@ -578,14 +565,9 @@ print "\n";
$dsc_sng="(Groups) Addition -y add -g g4 -v one_dmn_rec_var";
$tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg -y add -g g4 -v one_dmn_rec_var $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
$tst_cmd[1]="ncks -C -H -s '%d' -d time,0,0,1 -g g4 -v one_dmn_rec_var %tmp_fl_00%";
$tst_cmd[2]="2";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -596,14 +578,9 @@ print "\n";
$dsc_sng="(Groups) Addition with limits -d time,1,1,1 -y add -g g4 -v one_dmn_rec_var";
$tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg -d time,1,1,1 -y add -g g4 -v one_dmn_rec_var $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
$tst_cmd[1]="ncks -C -H -s '%d' -d time,0,0,1 -g g4 -v one_dmn_rec_var %tmp_fl_00%";
$tst_cmd[2]="4";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -614,14 +591,9 @@ print "\n";
$dsc_sng="(Groups) Subtraction -v one_dmn_rec_var";
$tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg -v one_dmn_rec_var $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
$tst_cmd[1]="ncks -C -H -s '%d' -d time,1,1,1 -g g4 -v one_dmn_rec_var %tmp_fl_00%";
$tst_cmd[2]="0";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -632,14 +604,9 @@ print "\n";
$dsc_sng="(Groups) Multiplication with limits -d time,2,2,1 -y add -g g4 -v one_dmn_rec_var";
$tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg -d time,2,2,1 -y mlt -g g4 -v one_dmn_rec_var $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
$tst_cmd[1]="ncks -C -H -s '%d' -d time,0,0,1 -g g4 -v one_dmn_rec_var %tmp_fl_00%";
$tst_cmd[2]="9";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -651,79 +618,161 @@ print "\n";
$dsc_sng="(Groups) Division with limits -d time,2,2,1 -y add -g g4 -v one_dmn_rec_var";
$tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg -d time,2,2,1 -y dvd -g g4 -v one_dmn_rec_var $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
$tst_cmd[1]="ncks -C -H -s '%d' -d time,0,0,1 -g g4 -v one_dmn_rec_var %tmp_fl_00%";
$tst_cmd[2]="1";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
+
+# Following tests: Different objects in both files with groups (ensembles, not ensembles)
+# Absolute match test
+
+# Absolute match test
# ncbo #21
-# ncbo -O -g g1 -v var1 in_grp_1.nc in_grp_2.nc out.nc
+# ncbo -O in_grp_1.nc in_grp_2.nc out.nc
- $dsc_sng="(Groups) Process different types -g g1 -v var1 in_grp_1.nc in_grp_2.nc";
- $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg -g g1 -v var1 $in_pth_arg in_grp_1.nc in_grp_2.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
- $tst_cmd[1]="ncks %tmp_fl_00% | grep 'var1: type NC_FLOAT, 1 dimension, 0 attributes, chunked? no, compressed? no, packed? no'";
- $tst_cmd[2]="var1: type NC_FLOAT, 1 dimension, 0 attributes, chunked? no, compressed? no, packed? no";
+ $dsc_sng="(Groups) Process absolute match variables -v var1 in_grp_1.nc in_grp_2.nc";
+ $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg $in_pth_arg in_grp_1.nc in_grp_2.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -v var1 %tmp_fl_00%";
+ $tst_cmd[2]="lon[3]=4 var1[3]=-1";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
-
+ $#tst_cmd=0; # Reset array
+
+
# ncbo #22
+# ncbo -O -v var1 in_grp_1.nc in_grp_2.nc out.nc
- $dsc_sng="(Groups) Process relative match -v var2 in_grp_1.nc in_grp_2.nc";
- $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg -v var2 $in_pth_arg in_grp_1.nc in_grp_2.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
- $tst_cmd[1]="ncks -d lon1,2,2,1 %tmp_fl_00%";
- $tst_cmd[2]="lon1[2] var2[2]=-1";
+ $dsc_sng="(Groups) Process absolute match variables -v var1 in_grp_1.nc in_grp_2.nc";
+ $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg -v var1 $in_pth_arg in_grp_1.nc in_grp_2.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C %tmp_fl_00%";
+ $tst_cmd[2]="lon[3]=4 var1[3]=-1";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
-
-# ncbo #23
+ $#tst_cmd=0; # Reset array
- $dsc_sng="(Groups) Process relative match from model to observations cmip5.nc -> obs.nc";
- $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg $in_pth_arg cmip5.nc obs.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
- $tst_cmd[1]="ncks -H -g giss -v tas -d time,3,3,1 %tmp_fl_00%";
- $tst_cmd[2]="time[3] tas[3]=1";
+
+# ncbo #23
+#ncbo -O --op_typ=add mdl_1.nc mdl_2.nc out.nc
+#ncks -C -g cesm_01 -v tas1 out.nc
+# 544.4 = (file 1 tas1) 272.1 + (file 2 tas1) 272.3
+
+ $dsc_sng="(Groups) Process ensembles in both files mdl_1.nc mdl_2.nc";
+ $tst_cmd[0]="ncbo -O --op_typ=add $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc mdl_2.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -g cesm_01 -v tas1 %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4 tas1[3]=544.4";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
+ $#tst_cmd=0; # Reset array
# ncbo #24
+#ncbo -O mdl_1.nc mdl_2.nc out.nc
+#ncks -g cesm_01 -v time out.nc
- $dsc_sng="(Groups) Process relative match from observations to model obs.nc -> cmip5.nc";
- $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg $in_pth_arg obs.nc cmip5.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
- $tst_cmd[1]="ncks -H -g giss -v tas -d time,3,3,1 %tmp_fl_00%";
- $tst_cmd[2]="time[3] tas[3]=-1";
+ $dsc_sng="(Groups) Process ensembles in both files mdl_1.nc mdl_2.nc (check fixed variables)";
+ $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc mdl_2.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -g cesm_01 -v time %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+# ncbo #25
+#ncbo -O --op_typ=add mdl_1.nc obs.nc out.nc
+#ncks -C -g cesm_01 -v tas1 out.nc
+# 544.1 = (file 1 tas1) 272.1 + (file 2 tas1) 273.0
+
+ $dsc_sng="(Groups) Process ensembles in file 1 with common variable at root in file 2";
+ $tst_cmd[0]="ncbo -O --op_typ=add $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc obs.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -g cesm_01 -v tas1 %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4 tas1[3]=545.1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+# ncbo #26
+#ncbo -O mdl_1.nc obs.nc out.nc
+#ncks -g ecmwf_01 -v time
+
+ $dsc_sng="(Groups) Process ensembles in file 1 with common variable at root in file 2 (check fixed variables)";
+ $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc obs.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -g ecmwf_01 -v time %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+
+# ncbo
+#ncbo -O --op_typ=add obs.nc mdl_1.nc out.nc
+#ncks -C -g cesm_01 -v tas1 out.nc
+# 544.1 = (file 1 tas1) 273.0 + (file 2 tas1) 272.1
+
+#FXM ncbo group broadcasting, "time" dimension is created at root because conflicting logic in nco_prc_cmn() uses
+# both RNK_1_GTR and table flag of file 1 or 2
+# result is time[3] instead of time[3]=4
+
+ if (0) {
+ $dsc_sng="(Groups) Process ensembles in file 2 with common variable at root in file 1";
+ $tst_cmd[0]="ncbo -O --op_typ=add $fl_fmt $nco_D_flg $in_pth_arg obs.nc mdl_1.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -g cesm_01 -v tas1 %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4 tas1[3]=545.1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+ }
+
+# ncbo #27
+#ncbo -O cmip5.nc obs.nc out.nc
+#ncks -C -g ecmwf -v tas1 out.nc
+# obs.nc tas1=273, cmip5.nc giss tas1=274
+
+ $dsc_sng="(Groups) Process relative matches, first file greater (cmip5.nc obs.nc)";
+ $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg $in_pth_arg cmip5.nc obs.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -g giss -v tas1 %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4 tas1[3]=1";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
+
+# ncbo #28
+#ncbo -O obs.nc cmip5.nc out.nc
+#ncks -C -g ecmwf -v tas1 out.nc
+# obs.nc tas1=273, cmip5.nc giss tas1=274
- } # end HAVE_NETCDF4_H
+ $dsc_sng="(Groups) Process relative matches, second file greater (obs.nc cmip5.nc )";
+ $tst_cmd[0]="ncbo -O $fl_fmt $nco_D_flg $in_pth_arg obs.nc cmip5.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -g giss -v tas1 %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4 tas1[3]=-1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+# ncbo #29
+#ncbo ensemble with 1 member
+#ncra -Y ncge -O mdl_3.nc ncge_out.nc
+#ncbo -O --op_typ=add ncge_out.nc mdl_3.nc out.nc
+#ncks -H -C -g cesm_01 -v tas1 out.nc
+#ncge_out.nc =
+#/cesm/tas1
+#time[0]=1 tas1[0]=272.15
+#mdl_3.nc =
+#/cesm/cesm_01/tas1
+#time[0]=1 tas1[0]=272.1
+#result =
+# 544.25 = 272.15 + 272.1
+
+ $dsc_sng="(Groups) Ensemble with 1 member (mdl_3.nc)";
+ $tst_cmd[0]="ncra -Y ncge -O $fl_fmt $nco_D_flg $in_pth_arg mdl_3.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncbo --op_typ=add -O $fl_fmt $nco_D_flg %tmp_fl_00% $in_pth/mdl_3.nc %tmp_fl_01%";
+ $tst_cmd[2]="ncks -H -C -g cesm_01 -v tas1 %tmp_fl_01%";
+ $tst_cmd[3]="time[3] tas1[3]=544.25";
+ $tst_cmd[4]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+ } # end RUN_NETCDF4_TESTS
####################
@@ -843,10 +892,12 @@ print "\n";
$#tst_cmd=0; # Reset array
-#### Group File tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
-
#nces #11
# same as #nces #01 , with group
@@ -884,78 +935,110 @@ print "\n";
$#tst_cmd=0; # Reset array
} # #### Group File tests
+
+
+#nces #14 # TODO
+ #for i in $(seq -w 0 999) ; do iii=$( printf "%03d" ${i} ) ; ln in.nc foo${iii}.nc ; done
+ # TO DO run bash script above by perl
+ $tst_cmd[0]="ncra -Y ncfe $omp_flg -h -O $fl_fmt $nco_D_flg -v dgn_var $in_pth_arg in.nc in.nc in.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks %tmp_fl_00%";
+ $dsc_sng="Test file loop";
+ $tst_cmd[2]="dgn[0]=73 dgn_var[0]=73";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
- #### Group Ensemble tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
+
-#nces #14
-# ncra -Y ncge -h -O mdl.nc out.nc
+#nces #15
+# ncra -Y ncge -h -O mdl_1.nc out.nc
# ncks -g cesm -v tas1 out.nc
- $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O $fl_fmt $nco_D_flg $in_pth_arg mdl.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g cesm -v tas1 %tmp_fl_00%";
- $dsc_sng="(Groups) 1 file mdl.cdl ensemble";
+ $dsc_sng="(Groups) 1 file mdl_1.cdl ensemble";
$tst_cmd[2]="time[3]=4 tas1[3]=272.15";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#nces #15
+#nces #16
- $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O --nsm_sfx=_avg $fl_fmt $nco_D_flg $in_pth_arg mdl.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O --nsm_sfx=_avg $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g cesm_avg -v tas1 %tmp_fl_00%";
$dsc_sng="(Groups) 1 file mdl.cdl --nsm_sfx suffix ensemble";
- $tst_cmd[2]="time[3]=4 tas1[3]=272.15";
+ $tst_cmd[2]="time[3]=4 tas1[3]=272.15 ";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#nces #16
-# ncra -Y ncge -h -O -G /gpe_grp mdl.nc out.nc
+#nces #17
+# ncra -Y ncge -h -O -G /gpe_grp mdl_1.nc out.nc
- $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O -G /gpe_grp $fl_fmt $nco_D_flg $in_pth_arg mdl.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -g /gpe_grp/ecmwf -v tas1 %tmp_fl_00%";
- $dsc_sng="(Groups) GPE 1 file mdl.cdl ensemble";
- $tst_cmd[2]="time[3] tas1[3]=273.15";
+ $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O -G /gpe_grp $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -g /gpe_grp/ecmwf -v tas1 %tmp_fl_00%";
+ $dsc_sng="(Groups) GPE 1 file mdl_1.cdl ensemble";
+ $tst_cmd[2]="time[3]=4 tas1[3]=273.15 ";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#nces #17
-#ncra -Y ncge -O mdl.nc mdl2.nc out.nc
- $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O $fl_fmt $nco_D_flg $in_pth_arg mdl.nc mdl2.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -g ecmwf -v tas1 %tmp_fl_00%";
+
+#nces #18
+#ncra -Y ncge -O mdl_1.nc mdl_2.nc out.nc
+
$dsc_sng="(Groups) 2 files ensembles";
- $tst_cmd[2]="time[3] tas1[3]=273.25";
+ $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc mdl_2.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -g ecmwf -v tas1 %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4 tas1[3]=273.25";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
+
# NEW NCO 4.4.2
-#nces #18 (check fixed variables)
-# ncra -Y ncge -h -O mdl.nc out.nc
+#nces #19 (check fixed variables)
+# ncra -Y ncge -h -O mdl_1.nc out.nc
# ncks -g cesm -v time out.nc
- $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O $fl_fmt $nco_D_flg $in_pth_arg mdl.nc %tmp_fl_00%";
+ $dsc_sng="(Groups) Ensemble fixed variables";
+ $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -g cesm -v time %tmp_fl_00%";
- $dsc_sng="(Groups) Ensemble fixed variables";
$tst_cmd[2]="time dimension 0: time, size = 4 NC_DOUBLE, chunksize = 1 (Record coordinate is time)";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
- } # #### Group Ensemble tests
-
-#nces #19 # TODO
- #for i in $(seq -w 0 999) ; do iii=$( printf "%03d" ${i} ) ; ln in.nc foo${iii}.nc ; done
- # TO DO run bash script above by perl
- $tst_cmd[0]="ncra -Y ncfe $omp_flg -h -O $fl_fmt $nco_D_flg -v dgn_var $in_pth_arg in.nc in.nc in.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks %tmp_fl_00%";
- $dsc_sng="Test file loop";
- $tst_cmd[2]="dgn[0]=73 dgn_var[0]=73";
+# NEW NCO 4.4.3
+#nces #20 (error checking of ensemble variable dimensions)
+# ncra -Y ncge -O in_grp_4.nc in_grp_5.nc out.nc
+
+ $dsc_sng="(Groups) Checking of conforming dimensions between ensemble variables";
+ $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O $fl_fmt $nco_D_flg $in_pth_arg in_grp_4.nc in_grp_5.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncge: ERROR Variables do not conform: variable </cesm/cesm_02/three_dmn_rec_var> has dimension <time> with size 6, expecting size 10";
+ $tst_cmd[2]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+# NEW NCO 4.4.3
+#nces #21
+# ncra -Y ncge -h -O mdl_1.nc out.nc
+
+ $dsc_sng="(Groups) Test CF fixed variables";
+ $tst_cmd[0]="ncra -Y ncge $omp_flg -h -O $fl_fmt $nco_D_flg $in_pth_arg mdl_1.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -v gw %tmp_fl_00%";
+ $tst_cmd[2]="time[3]=4 gw[3]=1";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
+ $#tst_cmd=0; # Reset array
+
+ } # #### Group Ensemble tests
+
# print "paused - hit return to continue"; my $wait=<STDIN>;
@@ -991,12 +1074,14 @@ print "\n";
$#tst_cmd=0; # Reset array
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
#ncecat #3
- if ($ENABLE_NETCDF4 == 1) {
$tst_cmd[0]="ncks -C -h -O $fl_fmt $nco_D_flg -v area $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncecat -C -h -O $omp_flg $fl_fmt $nco_D_flg -G ensemble -d lat,1,1 -v area %tmp_fl_00% %tmp_fl_00% %tmp_fl_01%";
$tst_cmd[2]="ncks -C -O -h -m -v area %tmp_fl_01% | grep \"ensemble../area\" | wc | cut -c 7";
@@ -1005,15 +1090,7 @@ print "\n";
$tst_cmd[4]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
- }elsif ($ENABLE_NETCDF4 == 0) {
- $tst_cmd[0]="ncks -C -h -O $fl_fmt $nco_D_flg -v area $in_pth_arg in.nc %tmp_fl_00%";
- $tst_cmd[1]="ncecat -C -h -O $omp_flg $fl_fmt $nco_D_flg -G ensemble -d lat,1,1 -v area %tmp_fl_00% %tmp_fl_00% %tmp_fl_01%";
- $dsc_sng="group aggregate var with hyperslabbing (requires netCDF4)";
- $tst_cmd[2]=$ncecat_msg_no_netcdf4;
- $tst_cmd[3]="SS_OK";
- NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
- } # end $ENABLE_NETCDF4
+
#
# NCO 4.3.1 - ncecat for groups
@@ -1024,14 +1101,11 @@ print "\n";
$dsc_sng="(Groups) Concatenate variables/groups 1: scalars -g g1g1 -v v1";
$tst_cmd[0]="ncecat $nco_D_flg -h -O -g g1g1 -v v1 $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -H -d record,1,1,1 %tmp_fl_00%";
$tst_cmd[2]="record[1] v1[1]=11";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1041,14 +1115,11 @@ print "\n";
$dsc_sng="(Groups) Concatenate variables/groups 2: scalars -g g1g1 -v v1";
$tst_cmd[0]="ncecat $nco_D_flg -h -O -g g1g1 -v v1 $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks %tmp_fl_00% | grep 'v1 dimension 0: /record, size = 2, chunksize = 1 (Record non-coordinate dimension)'";
$tst_cmd[2]="v1 dimension 0: /record, size = 2, chunksize = 1 (Record non-coordinate dimension)";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1059,14 +1130,11 @@ print "\n";
$dsc_sng="(Groups) Concatenate variables/groups 1: 1D -g g6g1 -v area";
$tst_cmd[0]="ncecat $nco_D_flg -h -O -g g6g1 -v area $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -H -C -d record,1,1,1 -d lat,1,1,1 -g g6g1 -v area %tmp_fl_00%";
$tst_cmd[2]="record[1] lat[1]=90 area[3]=50";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1077,14 +1145,11 @@ print "\n";
$dsc_sng="(Groups) Concatenate variables/groups 2: 1D -g g6g1 -v area";
$tst_cmd[0]="ncecat $nco_D_flg -h -O -g g6g1 -v area $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -C -g g6g1 -v area %tmp_fl_00% | grep 'area dimension 0: /record, size = 2, chunksize = 1 (Record non-coordinate dimension)'";
$tst_cmd[2]="area dimension 0: /record, size = 2, chunksize = 1 (Record non-coordinate dimension)";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1094,14 +1159,11 @@ print "\n";
$dsc_sng="(Groups) Concatenate variables/groups 1: 2D -v two_dmn_rec_var";
$tst_cmd[0]="ncecat $nco_D_flg -h -O -v two_dmn_rec_var $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -C -d record,1,1,1 -d time,9,9,1 -d lev,2,2,1 -v two_dmn_rec_var %tmp_fl_00%";
$tst_cmd[2]="record[1] time[9]=10 lev[2]=1000 two_dmn_rec_var[59]=3";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1112,14 +1174,11 @@ print "\n";
$dsc_sng="(Groups) Concatenate variables/groups";
$tst_cmd[0]="ncecat $nco_D_flg -h -O $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -m -C -g g25g1 -v one_dmn_rec_var %tmp_fl_00%";
$tst_cmd[2]="one_dmn_rec_var dimension 1: time, size = 10 NC_DOUBLE, chunksize = 10 (Coordinate is time)";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1251,8 +1310,12 @@ print "\n";
$#tst_cmd=0; # Reset array
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
+
#ncflint #6
# ncflint -4 -O -w 0.8,0.0 in.nc in.nc out.nc
@@ -1287,14 +1350,11 @@ print "\n";
$dsc_sng="(Groups) Weight 1D -g g4 -v one_dmn_rec_var -w 1,1 in_grp.nc in_grp.nc";
$tst_cmd[0]="ncflint $nco_D_flg -h -O -v one_dmn_rec_var -w 1,1 $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -H -C -O -g g4 -d time,9 -v one_dmn_rec_var %tmp_fl_00%";
$tst_cmd[2]="time[9]=20 one_dmn_rec_var[9]=20";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1512,8 +1572,12 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
+
#
#NCO 4.2.2
#
@@ -1522,19 +1586,11 @@ print "\n";
$dsc_sng="(Groups) Extract associated coordinate variable";
$tst_cmd[0]="ncks -h -O $fl_fmt $nco_D_flg -v area $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1){
- if($ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -C -H -s '%g' -v lat %tmp_fl_00%";
$tst_cmd[2]="-9090";
$tst_cmd[3]="SS_OK";
- }elsif($ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- } # !ENABLE_NETCDF4
- } # !HAVE_NETCDF4_H
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1543,17 +1599,11 @@ print "\n";
$dsc_sng="(Groups) Add CF convention variables";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -g g7 -v gds_var $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -C -H -s '%g' -v lat_gds %tmp_fl_00%";
$tst_cmd[2]="-90-30-3000303090";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1561,17 +1611,11 @@ print "\n";
$dsc_sng="(Groups) Extract variables in groups";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -v scl -g g1g1,g1 $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -C -H -s '%g' %tmp_fl_00%";
$tst_cmd[2]="1.11";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1579,17 +1623,11 @@ print "\n";
$dsc_sng="(Groups) Create variables in groups";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -G g8 -g g3 -v scl $in_pth_arg in_grp_3.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -C -H -s '%g' %tmp_fl_00%";
$tst_cmd[2]="1.3";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1597,17 +1635,11 @@ print "\n";
$dsc_sng="(Groups) Hyperslabs in groups";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -g g4 -v one_dmn_rec_var -d time,1,1 $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -H -s '%d' %tmp_fl_00%";
$tst_cmd[2]="2";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1619,17 +1651,11 @@ print "\n";
$dsc_sng="(Groups) Extract group attributes";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -g g3 $in_pth_arg in_grp_3.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks %tmp_fl_00% | grep g3_group_attribute";
$tst_cmd[2]="Group attribute 0: g3_group_attribute, size = 18 NC_CHAR, value = g3_group_attribute";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1637,17 +1663,11 @@ print "\n";
$dsc_sng="Extract global attributes";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks %tmp_fl_00% | grep Conventions";
$tst_cmd[2]="Global attribute 0: Conventions, size = 6 NC_CHAR, value = CF-1.0";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1655,17 +1675,11 @@ print "\n";
$dsc_sng="(Groups) Extract 'bounds' variables";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -v lev $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -a -O -H -s '%g' %tmp_fl_00% ";
$tst_cmd[2]="1005001000";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1673,17 +1687,11 @@ print "\n";
$dsc_sng="(Groups) GPE group attribute extraction";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -G g9 -g g3 -v scl $in_pth_arg in_grp_3.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks %tmp_fl_00% | grep g3_group_attribute";
$tst_cmd[2]="Group attribute 0: g3_group_attribute, size = 18 NC_CHAR, value = g3_group_attribute";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1691,17 +1699,11 @@ print "\n";
$dsc_sng="(Groups) Group dimension hyperslabs";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -v gds_var -d gds_crd,1,1 $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -C -H -v lat_gds -s '%g' %tmp_fl_00%";
$tst_cmd[2]="-30";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1713,13 +1715,10 @@ print "\n";
$dsc_sng="(Groups) Sort output alphabetically";
$tst_cmd[0]="ncks -z $in_pth_arg in_grp.nc | tail -1";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="var: /unique";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1739,17 +1738,11 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 1 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -g g6 $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -v area1 %tmp_fl_00%";
$tst_cmd[2]="lat[1] area1[1]=31";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1759,17 +1752,11 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 2 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -g g6 $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -v area1 -d lat,0,0 %tmp_fl_00%";
$tst_cmd[2]="lat[0] area1[0]=21";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1779,13 +1766,10 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 3 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -g g6g1 $in_pth_arg in_grp.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lat[1]=90 area[1]=50";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1797,13 +1781,10 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 4-1 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -v are. $in_pth_arg in_grp.nc | grep -w /g6/g6g1/area";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="/g6/g6g1/area";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1814,13 +1795,10 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 4-2 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -v are. $in_pth_arg in_grp.nc | grep -w /g6/area";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="/g6/area";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1831,13 +1809,10 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 4-3 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -v are. $in_pth_arg in_grp.nc | grep -o -w area";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="area";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1846,13 +1821,10 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 5 (netCDF4 file)";
$tst_cmd[0]="ncks -H $fl_fmt $nco_D_flg -C -s '%g' -v area -g g6g1 -d lat,0 $in_pth_arg in_grp.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="40";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1862,13 +1834,10 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 6 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -v area -g g6g1 $in_pth_arg in_grp.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lat[1]=90 area[1]=50";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1879,13 +1848,10 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 7-1 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -v area -g g6,g6g1 $in_pth_arg in_grp.nc | grep -w /g6/g6g1/area";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="/g6/g6g1/area";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1895,13 +1861,10 @@ print "\n";
$dsc_sng="(Groups) Variable/Group extraction test 7-2 (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -C -v area -g g6,g6g1 $in_pth_arg in_grp.nc | grep -w /g6/area";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="/g6/area";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1945,17 +1908,11 @@ print "\n";
$dsc_sng="(Groups) Extract associated coordinates test 3 (netCDF4 file) ";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg -g g5g1 -v rz $in_pth_arg in_grp_3.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 1){
+
$tst_cmd[1]="ncks -H %tmp_fl_00%";
$tst_cmd[2]="rlev[2]=1"; # data for /g3/rlev differs from /g5/rlev
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 1 && $ENABLE_NETCDF4 == 0){
- $tst_cmd[1]=$ncks_msg_no_netcdf4;
- $tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]=$ncks_msg_no_have_netcdf4;
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1965,13 +1922,10 @@ print "\n";
$dsc_sng="(Groups) Extract CF 'coordinates' variables(netCDF4 file)";
$tst_cmd[0]="ncks $nco_D_flg -v gds_crd $in_pth_arg in_grp.nc | grep -w /g7/lat_gds";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="/g7/lat_gds";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1990,13 +1944,10 @@ print "\n";
$dsc_sng="(Groups) Extract CF 'bounds' variables (netCDF4 file)";
$tst_cmd[0]="ncks $nco_D_flg -g g8 -v lev $in_pth_arg in_grp_3.nc | grep -w /g8/ilev";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="/g8/ilev";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2024,14 +1975,11 @@ print "\n";
$dsc_sng="(Groups) Check --mk_rec_dmn (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg --mk_rec_dmn lat -v lat_lon $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -C -m -v lat %tmp_fl_00% | egrep -o -w 'Record coordinate is lat'";
$tst_cmd[2]="Record coordinate is lat";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2049,14 +1997,11 @@ print "\n";
$dsc_sng="(Groups) Check --fix_rec_dmn (netCDF4 file)";
$tst_cmd[0]="ncks -O $fl_fmt $nco_D_flg --fix_rec_dmn time -v three_dmn_rec_var $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -C -m -v time %tmp_fl_00% | egrep -o -w 'Coordinate is time'";
$tst_cmd[2]="Coordinate is time";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2074,14 +2019,10 @@ print "\n";
# NB: does not actually test3 code for reasons explained in header of nco_use_mm3_workaround()
$dsc_sng="(Groups) --fix_rec_dmn with MM3 workaround (netCDF4->netCDF3 file)";
$tst_cmd[0]="ncks -O -3 $nco_D_flg --fix_rec_dmn time -v /g10/two_dmn_rec_var,/g10/three_dmn_rec_var $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
- $tst_cmd[1]="ncks -C -m -v time %tmp_fl_00% | egrep -o -w 'Coordinate dimension'";
- $tst_cmd[2]="Record coordinate dimension";
- $tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="";
- $tst_cmd[2]="SS_OK";
- }
+ $tst_cmd[1]="ncks -C -m -v time %tmp_fl_00% | egrep -o -w 'Coordinate dimension'";
+ $tst_cmd[2]="Record coordinate dimension";
+ $tst_cmd[3]="SS_OK";
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
} # endif false
@@ -2116,14 +2057,11 @@ print "\n";
$dsc_sng="(Groups) Chunking --cnk_plc=all --v lat_lon";
$tst_cmd[0]="ncks $nco_D_flg -O -4 -v lat_lon --cnk_plc=all $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -C -m -v lat_lon %tmp_fl_00% | egrep -o -w 'lat_lon dimension 0: lat, size = 2 NC_FLOAT, chunksize = 2'";
$tst_cmd[2]="lat_lon dimension 0: lat, size = 2 NC_FLOAT, chunksize = 2";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2135,14 +2073,11 @@ print "\n";
$dsc_sng="(Groups) Chunking --cnk_plc=cnk_g3d --cnk_dmn time,2";
$tst_cmd[0]="ncks $nco_D_flg -O -4 --cnk_plc=cnk_g3d --cnk_dmn time,2 -v three_dmn_rec_var $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -C -m -v three_dmn_rec_var %tmp_fl_00% | grep 'three_dmn_rec_var dimension 0: /time, size = 10 NC_DOUBLE, chunksize = 2 (Record coordinate is /time)'";
$tst_cmd[2]="three_dmn_rec_var dimension 0: /time, size = 10 NC_DOUBLE, chunksize = 2 (Record coordinate is /time)";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2158,13 +2093,10 @@ print "\n";
#
$dsc_sng="(Groups) MSA --dmn time,1,3,2 --dmn lev,1,1,1";
$tst_cmd[0]="ncks $nco_D_flg -H -C --dmn time,1,3,2 --dmn lev,1,1,1 -v two_dmn_rec_var $in_pth_arg in_grp.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="time[3]=4 lev[1]=500 two_dmn_rec_var[10]=2.3";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2178,13 +2110,10 @@ print "\n";
$dsc_sng="(Groups) MSA --dmn time,1,1,1 --dmn time,3,3,1 --dmn lev,0,0,1";
$tst_cmd[0]="ncks $nco_D_flg -H -C --dmn time,1,1,1 --dmn time,3,3,1 --dmn lev,0,0,1 --dmn lev,2,2,1 -v two_dmn_rec_var $in_pth_arg in_grp.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="time[3]=4 lev[2]=1000 two_dmn_rec_var[11]=3";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2196,13 +2125,10 @@ print "\n";
$dsc_sng="(Groups) MSA -d lon2,1,3,2 -v lon2_var";
$tst_cmd[0]="ncks $nco_D_flg -H -d lon2,1,3,2 -v lon2_var $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lon2[3] lon2_var[3]=3";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2214,13 +2140,10 @@ print "\n";
$dsc_sng="(Groups) MSA -d lon2,1,3,2 -v lon2_var";
$tst_cmd[0]="ncks $nco_D_flg -d lon2,1,1,1 -d lon2,3,3,1 -v lon2_var $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lon2[3] lon2_var[3]=3";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2238,13 +2161,10 @@ print "\n";
$dsc_sng="(Groups) CF MSA -v gds_var -d gds_crd,1,1,1";
$tst_cmd[0]="ncks $nco_D_flg -H -v gds_var -d gds_crd,1,1,1 $in_pth_arg in_grp.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="gds_crd[1]=1 lon_gds[1]=0";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2258,13 +2178,10 @@ print "\n";
$dsc_sng="(Groups) MSA -H -C -g g7g1 -v gds_var -d gds_crd,1,1,1 -d gds_crd,3,3,1";
$tst_cmd[0]="ncks $nco_D_flg -H -C -g g7g1 -v gds_var -d gds_crd,1,1,1 -d gds_crd,3,3,1 $in_pth_arg in_grp.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="gds_crd[3]=3 gds_var[3]=273.4";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2277,13 +2194,10 @@ print "\n";
$dsc_sng="(Groups) Parallel scope MSA -g g16g1 -v lon1 -d lon1,3,3,1";
$tst_cmd[0]="ncks $nco_D_flg -H -g g16g1 -v lon1 -d lon1,3,3,1 $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lon1[3]=3";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2293,13 +2207,10 @@ print "\n";
$dsc_sng="(Groups) Parallel scope MSA -g g16g1 -v lon1_var -d lon1,1,1,1";
$tst_cmd[0]="ncks $nco_D_flg -H -g g16g1 -v lon1_var -d lon1,1,1,1 $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lon1[1]=1 lon1_var[1]=1";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2309,13 +2220,10 @@ print "\n";
$dsc_sng="(Groups) Parallel scope MSA -g g16g2 -v lon1_var -d lon1,1,1,1";
$tst_cmd[0]="ncks $nco_D_flg -H -g g16g2 -v lon1_var -d lon1,1,1,1 $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lon1[1]=4 lon1_var[1]=1";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2327,14 +2235,11 @@ print "\n";
$dsc_sng="(Groups) Dimensions in ancestor groups -g g6g1 -v area";
$tst_cmd[0]="ncks $nco_D_flg -O -g g6g1 -v area $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -H -C -v area -d lat,1,1 %tmp_fl_00%";
$tst_cmd[2]="lat[1]=90 area[1]=50";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2347,14 +2252,11 @@ print "\n";
$dsc_sng="(Groups) GPE and Dimensions in ancestor groups -G o1 -g g6g1 -v area";
$tst_cmd[0]="ncks $nco_D_flg -O -G o1 -g g6g1 -v area $in_pth_arg in_grp.nc %tmp_fl_00%";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks -H -C -v area -d lat,0,1 %tmp_fl_00%";
$tst_cmd[2]="lat[1]=90 area[1]=50";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2364,13 +2266,10 @@ print "\n";
$dsc_sng="(Groups) Out of scope coordinate -v lon3_var";
$tst_cmd[0]="ncks $nco_D_flg -H -v lon3_var $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lon3[3] lon3_var[3]=3";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2380,13 +2279,10 @@ print "\n";
$dsc_sng="(Groups) Order coordinates by group depth -v lon4_var";
$tst_cmd[0]="ncks $nco_D_flg -C -H -v lon4_var $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="lon4[1]=4 lon4_var[1]=1";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2396,13 +2292,10 @@ print "\n";
$dsc_sng="(Groups) Auxiliary coordinates -C -X 0.,1.,-30.,-29. -g g18 -v gds_3dvar in_grp_3.nc";
$tst_cmd[0]="ncks $nco_D_flg -C -X 0.,1.,-30.,-29. -g g18 -v gds_3dvar $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="time[9] gds_crd[1]=1 gds_3dvar[73]=282.2 meter";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2412,13 +2305,10 @@ print "\n";
$dsc_sng="(Groups) Auxiliary coordinates -X 0.,1.,-30.,-29. -g g18g1 -v gds_3dvar in_grp_3.nc";
$tst_cmd[0]="ncks $nco_D_flg -C -X 0.,1.,-30.,-29. -g g18g1 -v gds_3dvar $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="time[9] gds_crd[1]=1 gds_3dvar[73]=282.2 meter";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2439,13 +2329,10 @@ print "\n";
$dsc_sng="(Groups) Limits -C -v three_dmn_var_dbl -d time,,2 -d lat,0,0 -d lon,0,0 -d lon,3,3 in.nc";
$tst_cmd[0]="ncks $nco_D_flg -C -g g19g3 -v three_dmn_var_dbl -d time,,2 -d lat,0,0 -d lon,0,0 -d lon,3,3 $in_pth_arg in_grp_3.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="time[2]=3 lat[0]=-90 lon[3]=270 three_dmn_var_dbl[19]=20 watt meter-2";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2454,13 +2341,10 @@ print "\n";
$dsc_sng="(Groups) Invalid dimension input -v lat -d latitude,0,1,1 in_grp.nc";
$tst_cmd[0]="ncks $nco_D_flg -v lat -d latitude,0,1,1 $in_pth_arg in_grp.nc";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[1]="ncks: ERROR dimension latitude is not in input file";
$tst_cmd[2]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[1]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[2]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2471,19 +2355,18 @@ print "\n";
$dsc_sng="(Groups) Copy/print metadata-only leaf group";
$tst_cmd[0]="ncks -O $nco_D_flg $in_pth_arg in_grp.nc %tmp_fl_00%";
$tst_cmd[1]="ncks --cdl -g g8g1g1g1 %tmp_fl_00% | grep answer";
- if($HAVE_NETCDF4_H == 1){
+
$tst_cmd[2]=" :answer = \"Twerking\" ;";
$tst_cmd[3]="SS_OK";
- }elsif($HAVE_NETCDF4_H == 0){
- $tst_cmd[2]="nco_err_exit(): ERROR NCO will now exit with system call exit(EXIT_FAILURE)";
- $tst_cmd[3]="SS_OK";
- }
+
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
#ncks #75
# ncks -O -c in_grp.nc out.nc
+ if($RUN_NETCDF4_TESTS_VERSION_43 == 1){
+
$dsc_sng="(Groups) -c Extract all coordinate variables";
$tst_cmd[0]="ncks -O $nco_D_flg $in_pth_arg -c in_grp.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v lat %tmp_fl_00% | grep 'lat size'";
@@ -2491,6 +2374,8 @@ print "\n";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
+
+ } #RUN_NETCDF4_TESTS_VERSION_43
#ncks #76
# ncks -O in_grp.nc out.nc
@@ -2535,14 +2420,16 @@ print "\n";
$tst_cmd[2]="delta_time_start dimension 0: delta_time_start, size = 1 NC_FLOAT (Coordinate is delta_time_start)";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
+ $#tst_cmd=0; # Reset array
+
+ if($RUN_NETCDF4_TESTS_VERSION_43 == 1){
#ncks #80
-#ncks -O -4 -L 0 --cnk_dmn lev,1 -v two_dmn_var in_grp_3.nc out.nc
+#ncks -O -4 -L 0 --cnk_dmn lev,1 -v two_dmn_var in_grp_7.nc out.nc
#ncks -C -g g19g1g1 --hdn --cdl out.nc | grep _DeflateLevel
$dsc_sng="(Groups) Chunking and uncompression -L 0 --cnk_dmn lev,1 -v two_dmn_var";
- $tst_cmd[0]="ncks -O -L 0 -4 --cnk_dmn lev,1 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_3.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncks -O -L 0 -4 --cnk_dmn lev,1 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_7.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g /g19/g19g1/g19g1g1 -v two_dmn_var -m %tmp_fl_00%";
$tst_cmd[2]="two_dmn_var dimension 1: lev, size = 3, chunksize = 1 (Non-coordinate dimension)";
$tst_cmd[3]="SS_OK";
@@ -2551,11 +2438,11 @@ print "\n";
#ncks #81
# there are 2 'two_dmn_var' beneath /g19/g19g1, chunking only 1
-#ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var in_grp_3.nc out.nc
+#ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var in_grp_7.nc out.nc
#ncks -m -C -v /g19/g19g1/two_dmn_var --hdn out.nc
$dsc_sng="(Groups) Chunking and full dimension names --cnk_dmn /g19/g19g1/g19g1g1/lev,1";
- $tst_cmd[0]="ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_3.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_7.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -C -v /g19/g19g1/two_dmn_var --hdn %tmp_fl_00%";
$tst_cmd[2]="two_dmn_var attribute 3: _ChunkSizes, size = 2 NC_INT, value = 2, 3";
$tst_cmd[3]="SS_OK";
@@ -2564,11 +2451,11 @@ print "\n";
#ncks #82
# there are 2 'two_dmn_var' beneath /g19/g19g1, chunking only 1
-#ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var in_grp_3.nc out.nc
+#ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var in_grp_7.nc out.nc
#ncks -m -C -v /g19/g19g1/g19g1g1/two_dmn_var --hdn out.nc
$dsc_sng="(Groups) Chunking and full dimension names --cnk_dmn /g19/g19g1/g19g1g1/lev,1";
- $tst_cmd[0]="ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_3.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_7.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -C -v /g19/g19g1/g19g1g1/two_dmn_var --hdn %tmp_fl_00% | grep _ChunkSizes";
$tst_cmd[2]="two_dmn_var attribute 1: _ChunkSizes, size = 2 NC_INT, value = 2, 1";
$tst_cmd[3]="SS_OK";
@@ -2577,11 +2464,11 @@ print "\n";
#ncks #83 (part 1)
# there are 2 'two_dmn_var' beneath /g19/g19g1, chunking both, one with absolute other with relative
-# ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,3 -v two_dmn_var in_grp_3.nc out.nc
+# ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,3 -v two_dmn_var in_grp_7.nc out.nc
# ncks -m -C -v /g19/g19g1/g19g1g1/two_dmn_var --hdn out.nc | grep _ChunkSizes
$dsc_sng="(Groups) Chunking and full dimension names --cnk_dmn /g19/g19g1/g19g1g1/lev,1";
- $tst_cmd[0]="ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_3.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_7.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -C -v /g19/g19g1/g19g1g1/two_dmn_var --hdn %tmp_fl_00% | grep _ChunkSizes";
$tst_cmd[2]="two_dmn_var attribute 1: _ChunkSizes, size = 2 NC_INT, value = 2, 1";
$tst_cmd[3]="SS_OK";
@@ -2590,11 +2477,11 @@ print "\n";
#ncks #84 (part 2)
# there are 2 'two_dmn_var' beneath /g19/g19g1, chunking the 2 , one with absolute other with relative
-# ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,3 -v two_dmn_var in_grp_3.nc out.nc
+# ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,3 -v two_dmn_var in_grp_7.nc out.nc
# ncks -m -C -v /g19/g19g1/two_dmn_var --hdn out.nc | grep _ChunkSizes
$dsc_sng="(Groups) Chunking and full dimension names --cnk_dmn /g19/g19g1/g19g1g1/lev,1";
- $tst_cmd[0]="ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,3 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_3.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,3 -v two_dmn_var $nco_D_flg $in_pth_arg in_grp_7.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -C -v /g19/g19g1/two_dmn_var --hdn %tmp_fl_00% | grep _ChunkSizes";
$tst_cmd[2]="two_dmn_var attribute 3: _ChunkSizes, size = 2 NC_INT, value = 2, 3";
$tst_cmd[3]="SS_OK";
@@ -2612,6 +2499,8 @@ print "\n";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
+
+ } # RUN_NETCDF4_TESTS_VERSION_43
#ncks #86
#ncks -h -O --fix_rec_dmn time52 -v one_dmn_rec_var in_grp.nc out.nc
@@ -3090,8 +2979,11 @@ print "\n";
$#tst_cmd=0; # Reset array
- #### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
#####################
#### ncpdq GROUP tests
@@ -3669,8 +3561,11 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
#ncrcat #22
# same as ncrcat #02 with group
@@ -3749,8 +3644,11 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
#ncrcat #28
#ncks -h -O -g g4 -v one_dmn_rec_var in_grp.nc in_grp1.nc
@@ -4034,8 +3932,11 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
# ncra #23
# same as ncra #02, for groups
@@ -4154,8 +4055,11 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
- #### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
#NEW 4.4.2
#ncra #32
@@ -4480,6 +4384,7 @@ if (0){
@tst_cmd=(); # Reset array
#ncwa #28
+# ncwa -h -O -y max -v three_dmn_var_dbl -a lat,lon in.nc out.nc
# will fail SS - ncks not the last cmd
push(@tst_cmd, "ncwa $omp_flg -h -O $fl_fmt $nco_D_flg -y max -v three_dmn_var_dbl -a lat,lon $in_pth_arg in.nc %tmp_fl_00%");
@@ -4660,8 +4565,11 @@ if (0){
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
#ncwa #44
#NEW NCO 4.3.3
@@ -4863,8 +4771,8 @@ if (0){
#ncwa #58
#ncwa -O -y avg -a time301 -v time301 -C in_grp_3.nc out.nc
#ncks -m out.nc
-if (0){
- $dsc_sng="Cell methods (Create, average) -y avg -a time -v time";
+
+ $dsc_sng="Groups (Cell methods) (Create, average) -y avg -a time -v time";
$tst_cmd[0]="ncwa $omp_flg $nco_D_flg -O -y avg -a time301 -v time301 -C $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m %tmp_fl_00%";
$tst_cmd[2]="time301 attribute 1: cell_methods, size = 13 NC_CHAR, value = time301: mean";
@@ -4877,38 +4785,22 @@ if (0){
#ncwa -O -y max -a time301 -v time301 -C in_grp_3.nc out.nc
#ncks -m out.nc
- $dsc_sng="Cell methods (Create, maximum) -y max -a time -v time";
+ $dsc_sng="Groups (Cell methods) (Create, maximum) -y max -a time -v time";
$tst_cmd[0]="ncwa $omp_flg $nco_D_flg -O -y max -a time301 -v time301 -C $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m %tmp_fl_00%";
$tst_cmd[2]="time301 attribute 1: cell_methods, size = 13 NC_CHAR, value = time301: mean";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
- }
-
-
-#NEW 4.4.2
-#ncwa #60 Append cell_methods
-#ncwa -O -y max -a time302 -v time302 -C in_grp_3.nc out.nc
-#ncks -m out.nc
-if (0) {
- $dsc_sng="Cell methods (Append) -y max -a time -v time";
- $tst_cmd[0]="ncwa $omp_flg $nco_D_flg -O -y max -a time302 -v time302 -C $in_pth_arg in_grp_3.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -m %tmp_fl_00%";
- $tst_cmd[2]="time302 attribute 1: cell_methods, size = 13 NC_CHAR, value = time302: mean";
- $tst_cmd[3]="SS_OK";
- NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
- } # if (0)
+ $#tst_cmd=0; # Reset array
} #### Group tests
#NEW 4.4.2
-#ncwa #61 (part 1)
+#ncwa #60 (part 1)
#ncwa --op_typ=avg -O -v one,one_dmn_rec_var,three_dmn_rec_var -a time,lon in.nc out.nc
#ncks -m -C -v three_dmn_rec_var out.nc
-if (0){
+
$dsc_sng="Cell methods (Create, average) -v one,one_dmn_rec_var,three_dmn_rec_var -a time,lon";
$tst_cmd[0]="ncwa $omp_flg $nco_D_flg --op_typ=avg -O -v one,one_dmn_rec_var,three_dmn_rec_var -a time,lon $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -C -v three_dmn_rec_var %tmp_fl_00%";
@@ -4918,7 +4810,7 @@ if (0){
$#tst_cmd=0; # Reset array
#NEW 4.4.2
-#ncwa #62 (part 2)
+#ncwa #61 (part 2)
#ncwa --op_typ=avg -O -v one,one_dmn_rec_var,three_dmn_rec_var -a time,lon in.nc out.nc
#ncks -m -C -v one_dmn_rec_var out.nc
@@ -4931,7 +4823,7 @@ if (0){
$#tst_cmd=0; # Reset array
#NEW 4.4.2
-#ncwa #63 max
+#ncwa #62 max
#ncwa --op_typ=avg -O -v one,one_dmn_rec_var,three_dmn_rec_var -a time,lon in.nc out.nc
#ncks -m -C -v one_dmn_rec_var out.nc
@@ -4942,7 +4834,24 @@ if (0){
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
- }
+
+
+#### Group tests
+ if($RUN_NETCDF4_TESTS == 1){
+
+#NEW 4.4.3
+#ncwa #63
+#ncwa -g cesm,ecmwf -v time -a time -O cmip5.nc out.nc
+#ncks -m out.nc
+ $dsc_sng="Groups (Cell methods, repeated dimension names) -g cesm,ecmwf -v time -a time";
+ $tst_cmd[0]="ncwa $omp_flg $nco_D_flg -O -g cesm,ecmwf -v time -a time $in_pth_arg cmip5.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -m -g ecmwf -v time %tmp_fl_00%";
+ $tst_cmd[2]="time attribute 0: cell_methods, size = 10 NC_CHAR, value = time: mean";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+ }
+
####################
#### ncrename tests #### OK!
@@ -4950,8 +4859,11 @@ if (0){
$opr_nm='ncrename';
####################
-#### Group tests
- if($HAVE_NETCDF4_H == 1){
+ #######################################
+ #### Group tests (requires netCDF4) ###
+ #######################################
+
+ if($RUN_NETCDF4_TESTS == 1){
#################### Attributes
@@ -5043,6 +4955,8 @@ if (0){
#################### Dimensions
+ if($RUN_NETCDF4_TESTS_VERSION_43 == 1){
+
#ncrename #8
#ncrename -O -d lat,new_lat in_grp.nc out.nc
# relative rename lat to new_lat
@@ -5091,6 +5005,8 @@ if (0){
NCO_bm::tst_run(\@tst_cmd);
@tst_cmd=(); # really reset array.
+ } # RUN_NETCDF4_TESTS_VERSION_43
+
#ncrename #12
#ncrename -O -d ./lat_non_existing,new_lat in_grp.nc out.nc
# Absolute non existing absolute rename
@@ -5170,6 +5086,8 @@ if (0){
#ncrename -O -g g1,new_g1 in_grp.nc out.nc
# relative rename g1 to new_g1
+ if($RUN_NETCDF4_TESTS_VERSION_43 == 1){
+
$dsc_sng="Groups: Relative rename 'g1' to 'new_g1' (expect failure with netCDF < 4.3.1)";
$tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -g g1,new_g1 $in_pth_arg in_grp.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -g new_g1 %tmp_fl_00% | grep new_g1";
@@ -5202,6 +5120,8 @@ if (0){
NCO_bm::tst_run(\@tst_cmd);
@tst_cmd=(); # really reset array.
+ } # RUN_NETCDF4_TESTS_VERSION_43
+
#ncrename #21
#ncrename -O -g .gfoo,new_g1 in_grp.nc out.nc
# optional relative rename gfoo to new_g1 (print warning)
diff --git a/configure b/configure
index 92d02c5..314d39b 100755
--- a/configure
+++ b/configure
@@ -1,6 +1,6 @@
#! /bin/sh
# Guess values for system-dependent variables and create Makefiles.
-# Generated by GNU Autoconf 2.69 for NCO netCDF Operators 4.4.2.
+# Generated by GNU Autoconf 2.69 for NCO netCDF Operators 4.4.3.
#
# Report bugs to <nco-bugs at lists.sourceforge.net>.
#
@@ -592,8 +592,8 @@ MAKEFLAGS=
# Identity of this package.
PACKAGE_NAME='NCO netCDF Operators'
PACKAGE_TARNAME='nco'
-PACKAGE_VERSION='4.4.2'
-PACKAGE_STRING='NCO netCDF Operators 4.4.2'
+PACKAGE_VERSION='4.4.3'
+PACKAGE_STRING='NCO netCDF Operators 4.4.3'
PACKAGE_BUGREPORT='nco-bugs at lists.sourceforge.net'
PACKAGE_URL=''
@@ -1385,7 +1385,7 @@ if test "$ac_init_help" = "long"; then
# Omit some internal or obsolete options to make the list less imposing.
# This message is too long to be a string in the A/UX 3.1 sh.
cat <<_ACEOF
-\`configure' configures NCO netCDF Operators 4.4.2 to adapt to many kinds of systems.
+\`configure' configures NCO netCDF Operators 4.4.3 to adapt to many kinds of systems.
Usage: $0 [OPTION]... [VAR=VALUE]...
@@ -1456,7 +1456,7 @@ fi
if test -n "$ac_init_help"; then
case $ac_init_help in
- short | recursive ) echo "Configuration of NCO netCDF Operators 4.4.2:";;
+ short | recursive ) echo "Configuration of NCO netCDF Operators 4.4.3:";;
esac
cat <<\_ACEOF
@@ -1617,7 +1617,7 @@ fi
test -n "$ac_init_help" && exit $ac_status
if $ac_init_version; then
cat <<\_ACEOF
-NCO netCDF Operators configure 4.4.2
+NCO netCDF Operators configure 4.4.3
generated by GNU Autoconf 2.69
Copyright (C) 2012 Free Software Foundation, Inc.
@@ -2483,7 +2483,7 @@ cat >config.log <<_ACEOF
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
-It was created by NCO netCDF Operators $as_me 4.4.2, which was
+It was created by NCO netCDF Operators $as_me 4.4.3, which was
generated by GNU Autoconf 2.69. Invocation command line was
$ $0 $@
@@ -3732,7 +3732,7 @@ fi
# Define the identity of the package.
PACKAGE='nco'
- VERSION='4.4.2'
+ VERSION='4.4.3'
cat >>confdefs.h <<_ACEOF
@@ -20260,8 +20260,15 @@ $as_echo "$as_me: Creating sample netCDF data files for self-tests" >&6;}
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_1.nc data/in_grp_1.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_2.nc data/in_grp_2.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_3.nc data/in_grp_3.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_4.nc data/in_grp_4.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_5.nc data/in_grp_5.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_6.nc data/in_grp_6.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_7.nc data/in_grp_7.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_1.nc data/in_1.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_2.nc data/in_2.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/mdl_1.nc data/mdl_1.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/mdl_2.nc data/mdl_2.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/mdl_3.nc data/mdl_3.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/cmip5.nc data/cmip5.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/obs.nc data/obs.cdl
fi
@@ -20979,7 +20986,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# report actual input values of CONFIG_FILES etc. instead of their
# values after options handling.
ac_log="
-This file was extended by NCO netCDF Operators $as_me 4.4.2, which was
+This file was extended by NCO netCDF Operators $as_me 4.4.3, which was
generated by GNU Autoconf 2.69. Invocation command line was
CONFIG_FILES = $CONFIG_FILES
@@ -21045,7 +21052,7 @@ _ACEOF
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
ac_cs_version="\\
-NCO netCDF Operators config.status 4.4.2
+NCO netCDF Operators config.status 4.4.3
configured by $0, generated by GNU Autoconf 2.69,
with options \\"\$ac_cs_config\\"
diff --git a/configure.ac b/configure.ac
index 8d3eef4..b3d3ea7 100644
--- a/configure.ac
+++ b/configure.ac
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/configure.ac,v 1.39 2014/02/12 15:59:11 zender Exp $ -*-Shell-script-*-
+# $Header: /cvsroot/nco/nco/configure.ac,v 1.44 2014/04/02 05:40:22 zender Exp $ -*-Shell-script-*-
# Purpose: Template autoconf uses to generate NCO configure script
# Newer convention names this file configure.ac, rather than configure.in
@@ -51,7 +51,7 @@
# Process configure input with autoconf to produce configure script
# (package name,version,bug-report-address,tarball name)
-AC_INIT([NCO netCDF Operators],[4.4.2],[nco-bugs at lists.sourceforge.net],[nco])
+AC_INIT([NCO netCDF Operators],[4.4.3],[nco-bugs at lists.sourceforge.net],[nco])
# Print GNU copyright in configure script
AC_COPYRIGHT
@@ -1020,8 +1020,15 @@ if test "${PATH_TO_NCGEN}"; then
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_1.nc data/in_grp_1.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_2.nc data/in_grp_2.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_3.nc data/in_grp_3.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_4.nc data/in_grp_4.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_5.nc data/in_grp_5.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_6.nc data/in_grp_6.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_grp_7.nc data/in_grp_7.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_1.nc data/in_1.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/in_2.nc data/in_2.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/mdl_1.nc data/mdl_1.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/mdl_2.nc data/mdl_2.cdl
+ ${PATH_TO_NCGEN} -k netCDF-4 -b -o data/mdl_3.nc data/mdl_3.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/cmip5.nc data/cmip5.cdl
${PATH_TO_NCGEN} -k netCDF-4 -b -o data/obs.nc data/obs.cdl
fi
diff --git a/data/Makefile.am b/data/Makefile.am
index ede1257..28e9cf2 100644
--- a/data/Makefile.am
+++ b/data/Makefile.am
@@ -1,8 +1,8 @@
-# $Header: /cvsroot/nco/nco/data/Makefile.am,v 1.29 2014/02/20 16:43:22 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/data/Makefile.am,v 1.36 2014/04/01 21:44:24 pvicente Exp $ -*-makefile-*-
test_data = big.nc in.nc in_rec_zero.nc
-test_data_netCDF4 = in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc cmip5.nc obs.nc mdl.nc mdl2.nc hdn.nc
+test_data_netCDF4 = in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc in_grp_4.nc in_grp_5.nc in_grp_6.nc cmip5.nc obs.nc mdl_1.nc mdl_2.nc mdl_3.nc hdn.nc
# netCDF build rules
%.nc : %.cdl
@@ -26,6 +26,22 @@ in_2.nc : in_2.cdl
in_grp_3.nc : in_grp_3.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+in_grp_4.nc : in_grp_4.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+in_grp_5.nc : in_grp_5.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+
+in_grp_6.nc : in_grp_6.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+
+in_grp_7.nc : in_grp_7.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+
cmip5.nc : cmip5.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
@@ -38,15 +54,19 @@ hdn.nc : hdn.cdl
obs.nc : obs.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
-mdl.nc : mdl.cdl
+mdl_1.nc : mdl_1.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
-mdl2.nc : mdl2.cdl
+mdl_2.nc : mdl_2.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+mdl_3.nc : mdl_3.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+
all: ${test_data} ${test_data_netCDF4}
-EXTRA_DIST = big.cdl dsm.cdl hdn.cdl in.cdl in_grp.cdl in_grp_1.cdl in_grp_2.cdl in_grp_3.cdl in_1.cdl in_2.cdl cmip5.cdl obs.cdl mdl.cdl buggy.cdl in_rec_zero.cdl ncap.in ncap.in2 ncap2.in tst.nco
+EXTRA_DIST = big.cdl dsm.cdl hdn.cdl in.cdl in_grp.cdl in_grp_1.cdl in_grp_2.cdl in_grp_3.cdl in_grp_4.cdl in_grp_5.cdl in_grp_6.cdl in_grp_7.cdl in_1.cdl in_2.cdl cmip5.cdl obs.cdl mdl_1.cdl buggy.cdl in_rec_zero.cdl ncap.in ncap.in2 ncap2.in tst.nco
# Automake manual section 14:
# If configure built it, 'distclean' should delete it
@@ -54,7 +74,7 @@ EXTRA_DIST = big.cdl dsm.cdl hdn.cdl in.cdl in_grp.cdl in_grp_1.cdl in_grp_2.cdl
DISTCLEANFILES = foo*
# Build procedure produces these files:
-CLEANFILES = 85.nc 86.nc 87.nc 88.nc 89.nc big.nc foo.nc h0001.nc h0002.nc h0003.nc in.nc in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc cmip5.nc hdn.nc dsm.nc obs.nc mdl.nc mdl2.nc buggy.nc in_rec_zero.nc ../src/nco_c++/in.nc
+CLEANFILES = 85.nc 86.nc 87.nc 88.nc 89.nc big.nc foo.nc h0001.nc h0002.nc h0003.nc in.nc in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc in_grp_4.nc in_grp_5.nc in_grp_6.nc in_grp_7.nc cmip5.nc hdn.nc dsm.nc obs.nc mdl_1.nc mdl_2.nc mdl_3.nc buggy.nc in_rec_zero.nc ../src/nco_c++/in.nc
MAINTAINERCLEANFILES = Makefile.in
diff --git a/data/Makefile.in b/data/Makefile.in
index 32afe7b..567dce2 100644
--- a/data/Makefile.in
+++ b/data/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/data/Makefile.in,v 1.108 2014/02/20 16:43:22 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/data/Makefile.in,v 1.115 2014/04/02 05:40:23 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
am__is_gnu_make = test -n '$(MAKEFILE_LIST)' && test -n '$(MAKELEVEL)'
am__make_running_with_option = \
@@ -260,8 +260,8 @@ top_build_prefix = @top_build_prefix@
top_builddir = @top_builddir@
top_srcdir = @top_srcdir@
test_data = big.nc in.nc in_rec_zero.nc
-test_data_netCDF4 = in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc cmip5.nc obs.nc mdl.nc mdl2.nc hdn.nc
-EXTRA_DIST = big.cdl dsm.cdl hdn.cdl in.cdl in_grp.cdl in_grp_1.cdl in_grp_2.cdl in_grp_3.cdl in_1.cdl in_2.cdl cmip5.cdl obs.cdl mdl.cdl buggy.cdl in_rec_zero.cdl ncap.in ncap.in2 ncap2.in tst.nco
+test_data_netCDF4 = in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc in_grp_4.nc in_grp_5.nc in_grp_6.nc cmip5.nc obs.nc mdl_1.nc mdl_2.nc mdl_3.nc hdn.nc
+EXTRA_DIST = big.cdl dsm.cdl hdn.cdl in.cdl in_grp.cdl in_grp_1.cdl in_grp_2.cdl in_grp_3.cdl in_grp_4.cdl in_grp_5.cdl in_grp_6.cdl in_grp_7.cdl in_1.cdl in_2.cdl cmip5.cdl obs.cdl mdl_1.cdl buggy.cdl in_rec_zero.cdl ncap.in ncap.in2 ncap2.in tst.nco
# Automake manual section 14:
# If configure built it, 'distclean' should delete it
@@ -269,7 +269,7 @@ EXTRA_DIST = big.cdl dsm.cdl hdn.cdl in.cdl in_grp.cdl in_grp_1.cdl in_grp_2.cdl
DISTCLEANFILES = foo*
# Build procedure produces these files:
-CLEANFILES = 85.nc 86.nc 87.nc 88.nc 89.nc big.nc foo.nc h0001.nc h0002.nc h0003.nc in.nc in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc cmip5.nc hdn.nc dsm.nc obs.nc mdl.nc mdl2.nc buggy.nc in_rec_zero.nc ../src/nco_c++/in.nc
+CLEANFILES = 85.nc 86.nc 87.nc 88.nc 89.nc big.nc foo.nc h0001.nc h0002.nc h0003.nc in.nc in_grp.nc in_grp_1.nc in_grp_2.nc in_grp_3.nc in_grp_4.nc in_grp_5.nc in_grp_6.nc in_grp_7.nc cmip5.nc hdn.nc dsm.nc obs.nc mdl_1.nc mdl_2.nc mdl_3.nc buggy.nc in_rec_zero.nc ../src/nco_c++/in.nc
MAINTAINERCLEANFILES = Makefile.in
all: all-am
@@ -487,6 +487,18 @@ in_2.nc : in_2.cdl
in_grp_3.nc : in_grp_3.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+in_grp_4.nc : in_grp_4.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+in_grp_5.nc : in_grp_5.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+in_grp_6.nc : in_grp_6.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+in_grp_7.nc : in_grp_7.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
cmip5.nc : cmip5.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
@@ -499,10 +511,13 @@ hdn.nc : hdn.cdl
obs.nc : obs.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
-mdl.nc : mdl.cdl
+mdl_1.nc : mdl_1.cdl
+ - at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
+
+mdl_2.nc : mdl_2.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
-mdl2.nc : mdl2.cdl
+mdl_3.nc : mdl_3.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
all: ${test_data} ${test_data_netCDF4}
diff --git a/data/cmip5.cdl b/data/cmip5.cdl
index f8bedf3..00942ea 100644
--- a/data/cmip5.cdl
+++ b/data/cmip5.cdl
@@ -9,30 +9,36 @@ netcdf cmip5 {
dimensions:
time=unlimited;
variables:
- float tas(time);
+ float tas1(time);
+ double time(time);
:Model = "CESM";
data:
- tas=272,272,272,272;
+ tas1=272,272,272,272;
+ time=1.,2.,3.,4.;
} // end cesm
group: ecmwf {
dimensions:
time=unlimited;
variables:
- float tas(time);
+ float tas1(time);
+ double time(time);
:Model = "ECMWF";
data:
- tas=273,273,273,273;
+ tas1=273,273,273,273;
+ time=1.,2.,3.,4.;
} // end ecmwf
group: giss {
dimensions:
time=unlimited;
variables:
- float tas(time);
+ float tas1(time);
+ double time(time);
:Model = "GISS";
data:
- tas=274,274,274,274;
+ tas1=274,274,274,274;
+ time=1.,2.,3.,4.;
} // end gfdl
} // end root group
diff --git a/data/in_grp_1.cdl b/data/in_grp_1.cdl
index 17ae82c..c640d95 100644
--- a/data/in_grp_1.cdl
+++ b/data/in_grp_1.cdl
@@ -6,18 +6,20 @@
netcdf in_grp_1 {
dimensions:
- lon1=4;
+ lon=4;
//
//g1
//
group: g1 {
variables:
- short var1(lon1);
- float var2(lon1);
+ float var1(lon);
+ float var2(lon);
+ float lon(lon);
data:
- var1=0,0,0,0;
- var2=0,0,0,0;
+ var1=1,1,1,1;
+ var2=1,1,1,1;
+ lon=1,2,3,4;
} // end g1
} // end root group
diff --git a/data/in_grp_2.cdl b/data/in_grp_2.cdl
index aeebfd6..49e1265 100644
--- a/data/in_grp_2.cdl
+++ b/data/in_grp_2.cdl
@@ -6,16 +6,18 @@
netcdf in_grp_2 {
dimensions:
- lon1=4;
+ lon=4;
//
//g1
//
group: g1 {
variables:
- float var1(lon1);
+ float var1(lon);
+ float lon(lon);
data:
- var1=0,1,1,0;
+ var1=2,2,2,2;
+ lon=1,2,3,4;
} // end g1
//
@@ -23,9 +25,11 @@ netcdf in_grp_2 {
//
group: g2 {
variables:
- float var2(lon1);
+ float var2(lon);
+ float lon(lon);
data:
- var2=0,1,1,0;
+ var2=2,2,2,2;
+ lon=1,2,3,4;
} // end g2
} // end root group
\ No newline at end of file
diff --git a/data/in_grp_3.cdl b/data/in_grp_3.cdl
index ca9e5d3..8801e69 100644
--- a/data/in_grp_3.cdl
+++ b/data/in_grp_3.cdl
@@ -346,16 +346,7 @@ netcdf in_grp_3 {
data:
two_dmn_var=1.5,5.5,9.5,13.5,17.5,21.5;
- group: g19g1g1 { //test full name --cnk_dmn
- dimensions:
- lev=3;
- variables:
- float two_dmn_var(lat,lev);
- two_dmn_var:_DeflateLevel=1;
- data:
- two_dmn_var=1.5,5.5,9.5,13.5,17.5,21.5;
-
- } // end g19g1g1
+
} // end g19g1
group: g19g2 {
diff --git a/data/in_grp_4.cdl b/data/in_grp_4.cdl
new file mode 100644
index 0000000..3a35222
--- /dev/null
+++ b/data/in_grp_4.cdl
@@ -0,0 +1,71 @@
+// Purpose: Generate test case for nces average members whose hyperslabs resolve to the same size; pair of files are in_grp_4.cdl and in_grp_5.cdl
+// Generate netCDF files with:
+// ncgen -k netCDF-4 -b -o ~/nco/data/in_grp_4.nc ~/nco/data/in_grp_4.cdl
+
+netcdf in_grp_4 {
+
+ group: cesm {
+
+ group: cesm_01 {
+
+ dimensions:
+ lat=2;
+ lon=4;
+ time=unlimited;
+
+ variables:
+ double time(time);
+ float lat(lat);
+ float lon(lon);
+
+ float three_dmn_rec_var(time,lat,lon);
+
+ data:
+ lat=-90,90;
+ lon=0,90,180,270;
+ time=1.,2.,3.,4.,5.,6.,7.,8.,9.,10.;
+
+ three_dmn_rec_var=1, 2, 3, 4, 5, 6, 7, 8,
+ 9,10,11,12,13,14,15,16,
+ 17,18,19,20,21,22,23,24,
+ 25,26,27,28,29,30,31,32,
+ 33,34,35,36,37,38,39,40,
+ 41,42,43,44,45,46,47,48,
+ 49,50,51,52,53,54,55,56,
+ 57,58,59,60,61,62,63,64,
+ 65,66,67,68,69,70,71,72,
+ 73,74,75,76,77,78,79,80;
+
+ } // cesm_01
+
+ group: cesm_02 {
+
+ dimensions:
+ lat=2;
+ lon=3;
+ time=unlimited;
+
+ variables:
+ double time(time);
+ float lat(lat);
+ float lon(lon);
+
+ float three_dmn_rec_var(time,lat,lon);
+
+ data:
+ lat=-90,90;
+ lon=0,90,180;
+ time=1.,2.,3.,4.,5.,6.;
+
+ three_dmn_rec_var=1, 2, 3, 4, 5, 6,
+ 7,8,9,10,11,12,
+ 13,14,15,16,17,18,
+ 19,20,21,22,23,24,
+ 25,26,27,28,29,30,
+ 31,32,33,34,35,36;
+
+ } // cesm_02
+
+ } // cesm
+
+} // root group
diff --git a/data/in_grp_5.cdl b/data/in_grp_5.cdl
new file mode 100644
index 0000000..ef3d530
--- /dev/null
+++ b/data/in_grp_5.cdl
@@ -0,0 +1,71 @@
+// Purpose: Generate test case for nces average members whose hyperslabs resolve to the same size; pair of files are in_grp_4.cdl and in_grp_5.cdl
+// Generate netCDF files with:
+// ncgen -k netCDF-4 -b -o ~/nco/data/in_grp_5.nc ~/nco/data/in_grp_5.cdl
+
+netcdf in_grp_5 {
+
+ group: cesm {
+
+ group: cesm_03 {
+
+ dimensions:
+ lat=2;
+ lon=3;
+ time=unlimited;
+
+ variables:
+ double time(time);
+ float lat(lat);
+ float lon(lon);
+
+ float three_dmn_rec_var(time,lat,lon);
+
+ data:
+ lat=-90,90;
+ lon=0,90,180,270;
+ time=1.,2.,3.,4.,5.,6.;
+
+ three_dmn_rec_var=1, 2, 3, 4, 5, 6,
+ 7,8,9,10,11,12,
+ 13,14,15,16,17,18,
+ 19,20,21,22,23,24,
+ 25,26,27,28,29,30,
+ 31,32,33,34,35,36;
+
+ } // cesm_03
+
+ group: cesm_04 {
+
+ dimensions:
+ lat=2;
+ lon=4;
+ time=unlimited;
+
+ variables:
+ double time(time);
+ float lat(lat);
+ float lon(lon);
+
+ float three_dmn_rec_var(time,lat,lon);
+
+ data:
+ lat=-90,90;
+ lon=0,90,180,270;
+ time=1.,2.,3.,4.,5.,6.,7.,8.,9.,10.;
+
+ three_dmn_rec_var=1, 2, 3, 4, 5, 6, 7, 8,
+ 9,10,11,12,13,14,15,16,
+ 17,18,19,20,21,22,23,24,
+ 25,26,27,28,29,30,31,32,
+ 33,34,35,36,37,38,39,40,
+ 41,42,43,44,45,46,47,48,
+ 49,50,51,52,53,54,55,56,
+ 57,58,59,60,61,62,63,64,
+ 65,66,67,68,69,70,71,72,
+ 73,74,75,76,77,78,79,80;
+
+ } // cesm_04
+
+ } // cesm
+
+} // root group
diff --git a/data/in_grp_6.cdl b/data/in_grp_6.cdl
new file mode 100644
index 0000000..7fe3420
--- /dev/null
+++ b/data/in_grp_6.cdl
@@ -0,0 +1,76 @@
+// Purpose: Generate test case for nces ensembles
+// Generate netCDF files with:
+// ncgen -k netCDF-4 -b -o ~/nco/data/in_grp_6.nc ~/nco/data/in_grp_6.cdl
+
+netcdf in_grp_6 {
+
+ group: cesm {
+
+ group: cesm_01 {
+
+ dimensions:
+ lat=2;
+ lon=4;
+ time=unlimited;
+
+ variables:
+ double time(time);
+ float lat(lat);
+ float lon(lon);
+
+ float three_dmn_rec_var(time,lat,lon);
+
+ data:
+ lat=-90,90;
+ lon=0,90,180,270;
+ time=1.,2.,3.,4.,5.,6.,7.,8.,9.,10.;
+
+ three_dmn_rec_var=1, 2, 3, 4, 5, 6, 7, 8,
+ 9,10,11,12,13,14,15,16,
+ 17,18,19,20,21,22,23,24,
+ 25,26,27,28,29,30,31,32,
+ 33,34,35,36,37,38,39,40,
+ 41,42,43,44,45,46,47,48,
+ 49,50,51,52,53,54,55,56,
+ 57,58,59,60,61,62,63,64,
+ 65,66,67,68,69,70,71,72,
+ 73,74,75,76,77,78,79,80;
+
+ } // cesm_01
+
+ group: cesm_02 {
+
+
+ dimensions:
+ lat=2;
+ lon=4;
+ time=unlimited;
+
+ variables:
+ double time(time);
+ float lat(lat);
+ float lon(lon);
+
+ float three_dmn_rec_var(time,lat,lon);
+
+ data:
+ lat=-90,90;
+ lon=0,90,180,270;
+ time=1.,2.,3.,4.,5.,6.,7.,8.,9.,10.;
+
+ three_dmn_rec_var=1, 2, 3, 4, 5, 6, 7, 8,
+ 9,10,11,12,13,14,15,16,
+ 17,18,19,20,21,22,23,24,
+ 25,26,27,28,29,30,31,32,
+ 33,34,35,36,37,38,39,40,
+ 41,42,43,44,45,46,47,48,
+ 49,50,51,52,53,54,55,56,
+ 57,58,59,60,61,62,63,64,
+ 65,66,67,68,69,70,71,72,
+ 73,74,75,76,77,78,79,80;
+
+ } // cesm_02
+
+ } // cesm
+
+} // root group
diff --git a/data/in_grp_7.cdl b/data/in_grp_7.cdl
new file mode 100644
index 0000000..d8f1fa2
--- /dev/null
+++ b/data/in_grp_7.cdl
@@ -0,0 +1,119 @@
+// Purpose: Generate test case for nces ensembles
+// Generate netCDF files with:
+// ncgen -k netCDF-4 -b -o ~/nco/data/in_grp_7.nc ~/nco/data/in_grp_7.cdl
+// separated from in_grp_3.cdl dur to netCDF 4.1 repeated dimensions IDs bug
+
+netcdf in_grp_7 {
+
+ //
+ //g19 test cases for ncpdq; same variables as ncpdq netCDF3 tests
+ //
+
+ group: g19 {
+
+ dimensions:
+ lat=2;
+ lev=3;
+ lon=4;
+ time=unlimited;
+
+ variables:
+ float lat(lat);
+ float lon(lon);
+ float lev(lev);
+ float lev_wgt(lev);
+ double time(time);
+
+ data:
+ lat=-90,90;
+ lon=0,90,180,270;
+ lev=100,500,1000;
+ lev_wgt=10,2,1;
+ time=1.,2.,3.,4.,5.,6.,7.,8.,9.,10.;
+
+ group: g19g1 {
+ variables:
+ float two_dmn_var(lat,lev);
+ two_dmn_var:long_name = "two dimensional variable";
+ two_dmn_var:units = "fraction";
+
+ data:
+ two_dmn_var=1.5,5.5,9.5,13.5,17.5,21.5;
+
+ group: g19g1g1 { //test full name --cnk_dmn
+ dimensions:
+ lev=3;
+ variables:
+ float two_dmn_var(lat,lev);
+ two_dmn_var:_DeflateLevel=1;
+ data:
+ two_dmn_var=1.5,5.5,9.5,13.5,17.5,21.5;
+
+ } // end g19g1g1
+ } // end g19g1
+
+ group: g19g2 {
+ variables:
+ float two_dmn_rec_var(time,lev);
+ two_dmn_rec_var:long_name = "two dimensional record variable";
+ two_dmn_rec_var:units = "watt meter-2";
+ data:
+ two_dmn_rec_var=1.,2.0,3.,
+ 1.,2.1,3.,
+ 1.,2.2,3.,
+ 1.,2.3,3.,
+ 1.,2.4,3.,
+ 1.,2.5,3.,
+ 1.,2.6,3.,
+ 1.,2.7,3.,
+ 1.,2.8,3.,
+ 1.,2.9,3.;
+
+
+ } // end g19g2
+
+
+ group: g19g3 {
+ variables:
+ double three_dmn_var_dbl(time,lat,lon);
+ three_dmn_var_dbl:long_name = "three dimensional record variable of type double";
+ three_dmn_var_dbl:units = "watt meter-2";
+ three_dmn_var_dbl:_FillValue = -99.;
+
+
+ data:
+ three_dmn_var_dbl= 1, 2, 3, 4, 5, 6, 7, 8,
+ 9,10,11,12,13,14,15,16,
+ 17,18,19,20,21,22,23,24,
+ -99,-99,-99,-99,-99,-99,-99,-99,
+ 33,34,35,36,37,38,39,40,
+ 41,42,43,44,45,46,47,48,
+ 49,50,51,52,53,54,55,56,
+ -99,58,59,60,61,62,63,64,
+ 65,66,67,68,69,70,71,72,
+ -99,74,75,76,77,78,79,-99;
+
+
+ } // end g19g3
+
+
+ group: g19g4 {
+ variables:
+ short rec_var_dbl_mss_val_dbl_pck(time);
+ rec_var_dbl_mss_val_dbl_pck:long_name = "record variable, double, packed as short, with double missing values";
+ rec_var_dbl_mss_val_dbl_pck:purpose = "Packed version of rec_var_dbl_mss_val_dbl_upk";
+ rec_var_dbl_mss_val_dbl_pck:_FillValue = -999s;
+ rec_var_dbl_mss_val_dbl_pck:missing_value = -999.;
+ rec_var_dbl_mss_val_dbl_pck:scale_factor = -9.15541313801785e-05;
+ rec_var_dbl_mss_val_dbl_pck:add_offset = 5.;
+ double upk;
+ upk:long_name = "Unpacked scalar variable";
+ upk:note = "Unpacked value is 3.0d0, upk=unpack(pck)= 2.0d0*1s + 1.0d0 = 3.0d0. Packing this variable should create an NC_SHORT scalar = 0s with packing attribute add_offset=3.0d and either no scale_factor (ncap) or scale_factor = 0.0d (ncpdq).";
+ data:
+ upk=3.;
+ rec_var_dbl_mss_val_dbl_pck=-999,32767,21845,10922,0,-10922,-21845,-32767,-999,-999;
+ } // end g19g4
+
+ } // end g19
+
+} // root group
diff --git a/data/mdl.cdl b/data/mdl_1.cdl
similarity index 87%
copy from data/mdl.cdl
copy to data/mdl_1.cdl
index 8d3897d..cdce24d 100644
--- a/data/mdl.cdl
+++ b/data/mdl_1.cdl
@@ -1,8 +1,10 @@
// -*-C++-*-
// Generate netCDF file with:
-// ncgen -k netCDF-4 -b -o ~/nco/data/mdl.nc ~/nco/data/mdl.cdl
+// ncgen -k netCDF-4 -b -o ~/nco/data/mdl_1.nc ~/nco/data/mdl_1.cdl
-netcdf mdl {
+netcdf mdl_1 {
+
+ :Conventions = "CF-1.5";
group: cesm {
@@ -19,10 +21,12 @@ netcdf mdl {
float tas1(time);
float tas2(time);
double time(time);
+ float gw(time); //test CF fixed variables (using time as dimension, usually dimension is lat)
data:
tas1=272.1,272.1,272.1,272.1;
tas2=272.1,272.1,272.1,272.1;
time=1.,2.,3.,4.;
+ gw=1.,1.,1.,1.;
} // cesm_01
@@ -39,10 +43,12 @@ netcdf mdl {
float tas1(time);
float tas2(time);
double time(time);
+ float gw(time);
data:
tas1=272.2,272.2,272.2,272.2;
tas2=272.2,272.2,272.2,272.2;
time=1.,2.,3.,4.;
+ gw=2.,2.,2.,2.;
} // cesm_02
diff --git a/data/mdl2.cdl b/data/mdl_2.cdl
similarity index 94%
rename from data/mdl2.cdl
rename to data/mdl_2.cdl
index d12f4ec..32bb1ae 100644
--- a/data/mdl2.cdl
+++ b/data/mdl_2.cdl
@@ -1,8 +1,8 @@
// -*-C++-*-
// Generate netCDF file with:
-// ncgen -k netCDF-4 -b -o ~/nco/data/mdl.nc ~/nco/data/mdl.cdl
+// ncgen -k netCDF-4 -b -o ~/nco/data/mdl_2.nc ~/nco/data/mdl_2.cdl
-netcdf mdl {
+netcdf mdl_2 {
group: cesm {
diff --git a/data/mdl.cdl b/data/mdl_3.cdl
similarity index 73%
rename from data/mdl.cdl
rename to data/mdl_3.cdl
index 8d3897d..a8c5bdf 100644
--- a/data/mdl.cdl
+++ b/data/mdl_3.cdl
@@ -1,8 +1,8 @@
// -*-C++-*-
// Generate netCDF file with:
-// ncgen -k netCDF-4 -b -o ~/nco/data/mdl.nc ~/nco/data/mdl.cdl
+// ncgen -k netCDF-4 -b -o ~/nco/data/mdl_3.nc ~/nco/data/mdl_3.cdl
-netcdf mdl {
+netcdf mdl_3 {
group: cesm {
@@ -69,26 +69,7 @@ netcdf mdl {
time=1.,2.,3.,4.;
} // ecmwf_01
-
- group: ecmwf_02 {
- :Conventions = "CF-1.5";
- :history = "yada yada yada";
- :Scenario = "Historical";
- :Model = "ECMWF";
- :Realization = "2";
-
- dimensions:
- time=unlimited;
- variables:
- float tas1(time);
- float tas2(time);
- double time(time);
- data:
- tas1=273.2,273.2,273.2,273.2;
- tas2=273.2,273.2,273.2,273.2;
- time=1.,2.,3.,4.;
-
- } // ecmwf_02
+
} // ecmwf
diff --git a/data/obs.cdl b/data/obs.cdl
index 516e1d6..35c5055 100644
--- a/data/obs.cdl
+++ b/data/obs.cdl
@@ -5,8 +5,10 @@ netcdf obs {
dimensions:
time=4;
variables:
- float tas(time);
+ float tas1(time);
+ double time(time);
data:
- tas=273,273,273,273;
+ tas1=273,273,273,273;
+ time=1.,2.,3.,4.;
} // end root group
diff --git a/doc/ANNOUNCE b/doc/ANNOUNCE
index 54d4398..a6c5d28 100644
--- a/doc/ANNOUNCE
+++ b/doc/ANNOUNCE
@@ -1,85 +1,65 @@
-$Header: /cvsroot/nco/nco/doc/ANNOUNCE,v 1.693 2014/02/20 21:46:29 zender Exp $ -*-text-*-
+$Header: /cvsroot/nco/nco/doc/ANNOUNCE,v 1.700 2014/04/02 19:23:46 zender Exp $ -*-text-*-
-The netCDF Operators NCO version 4.4.2 are ready.
+The netCDF Operators NCO version 4.4.3 are ready.
http://nco.sf.net (Homepage)
http://dust.ess.uci.edu/nco (Homepage "mirror")
-This release is mainly a bugfix release. Memory issues that caused
-problems on LLVM/clang (usually Mac OS) and RHEL/CentOS (but not
-trusty old Fedora!) have been fixed. Thank you to everyone who
-reported issues. nces --nsm_grp now works as advertised with
-coordinates.
+This release is mainly a bugfix and stability release.
+The new features may interest those using hierarchical group files,
+needing Python wrappers for NCO, and those accessing strided data
+over DAP.
-The one new feature is support for key parts of the CF cell_methods
-convention.
-
-Work on NCO 4.4.3 is underway, focused on stability and speed.
+Work on NCO 4.4.4 is underway, still focused on stability and speed.
There will be more netCDF4 mop-up, improved group broadcasting
-algorithms, and, possibly, improved HDF4 support, and cache
-manipulation for chunking.
+algorithms, and, possibly, improved HDF4 support, and new chunking
+features.
Enjoy,
Charlie
-"New stuff" in 4.4.2 summary (full details always in ChangeLog):
+"New stuff" in 4.4.3 summary (full details always in ChangeLog):
NEW FEATURES:
-A. cell_methods: ncwa and ncra now support key parts of the CF
- cell_methods convention. Averaging foo(time,lat,lon) now
- results in ncwa creating or appending the cell_methods attribute
- "time, lat, lon: mean" to foo in the output file.
- Pre-existing cell_methods are preserved and appended to.
- cell_methods are turned-on by default. Turn-off with --no_cll_mth.
- ncwa --op_typ=max in.nc out.nc # Output gets cell_methods
- ncwa --no_cll_mth in.nc out.nc # Turn-off cell_methods
- http://nco.sf.net/nco.html#cll_mth
+A. Group broadcasting works with ensembles. Now files containing
+ ensembles (sets of replicated experiments where all ensemble
+ members stored in groups residing under a common group) may be
+ used in binary operations (i.e., ncbo) with "scalar files",
+ i.e., files with the same variables but without ensembles.
+ This is useful, for example, in comparing multiple model results
+ to a single set of observations.
+ ncbo cmip5.nc obs.nc -p ~/nco/data ~/foo.nc
+ http://nco.sf.net/nco.html#grp_brd
+
+A. Contributed Python wrappers: Check-out NCOpy by Joe Hamman
+ http://nco.sf.net#python
BUG FIXES:
-A. nces --nsm_grp now outputs only the group statisitics. In 4.4.0 and
- 4.4.1 nces --nsm_grp would, inadvertently, also sometimes copy
- coordinate variables of member groups to member groups in the
- output file. This did not take much space (because only coordinates
- were copied), nor did it affect nces --nsm_fl, so we did not notice
- it for some time. Now fixed.
-
-B. Groups matched via regular expressions in group-subsetting now
- have their associated variables flagged in intersection mode.
- This mumbo-jumbo means that regular expressions work better now.
- Any variable(s), group(s), or intersection of the two can be
- obtained with surgical precision with regular expressions.
-
-C. Fix build problems exposed by LLVM on Mac OS X 10.9 Mavericks.
- The underlying memory problems could cause segfaults for other
- OSs including RHEL and CentOS. Issues reported by George White.
-
-D. ncwa now always outputs averages of coordinates, even when
- operation on (non-coordinate) variables is other like max, min.
- This complies with longstanding intent & documentation that
- coordinate variables always return averages, never extrema or other
- statistics. ncra and nces have long-implemented this convention.
-
-E. The -X option for auxiliary coordinates now works fully when
- latitude and longitude coordinates are nested in group hierarchies.
- The most in-scope latitude/longitude are used for each variable.
- We said this worked in 4.4.1. This time we mean it :)
- http://nco.sf.net/nco.html#aux
-
-F. ncap2 sometimes failed when converting netCDF3->netCDF4 files
- because it had uninitialized deflation levels. Fixed.
-
-G. Chunking: Matt Thompson reported a problem that manifested when
- multiple --cnk_dmn options were employed. Strange chunk-sizes or
- segfaults could result. Fixed.
+A. NCO now employs a much faster access method for hyperslabs.
+ The new method dramatically speeds-up access to strided hyperslabs
+ across DAP connections. Thanks to Rich Signell, Jeff Whittaker, and
+ Anil for help identifying the problem and the solution.
+
+B. ncwa and ncpdq could sometimes process (i.e., average, permute
+ or pack) over dimensions besides those specified by the user.
+ This only occurred if the specified dimension name was a proper
+ subset of the name of another dimension. In that case, both would
+ be processed. Reported by Marie-Alice Foujols.
+
+C. Fix a problem where cell_methods could be written multiple times in
+ ensemble datasets.
+
+D. Segregate regression tests so there are fewer failures on older
+ netCDF libraries.
KNOWN ISSUES NOT YET FIXED:
This section of ANNOUNCE reports and reminds users of the
existence and severity of known, not yet fixed, problems.
- These problems occur with NCO 4.4.2 built/tested with netCDF
- 4.3.1 on top of HDF5 hdf5-1.8.9 with these methods:
+ These problems occur with NCO 4.4.3 built/tested with netCDF
+ 4.3.2-rc1 on top of HDF5 hdf5-1.8.12 with these methods:
cd ~/nco;./configure --enable-netcdf4 # Configure mechanism -or-
cd ~/nco/bld;make dir;make allinone # Old Makefile mechanism
diff --git a/doc/ChangeLog b/doc/ChangeLog
index 2ced10c..24b7490 100644
--- a/doc/ChangeLog
+++ b/doc/ChangeLog
@@ -1,3 +1,110 @@
+2014-04-01 Charlie Zender <zender at uci.edu>
+
+ * NCO 4.4.3 release procedure:
+ Changes since nco-4_4_2: DAP srd fix, nsm brd, rgr wrk
+ cd ~/nco;cvs tag -d nco-4_4_3;cvs tag -d nco-4_4_3-1
+ cd ~/nco;cvs commit -m "Preparing nco-4.4.3 release"
+ cvs tag -c nco-4_4_3;cvs tag -c nco-4_4_3-1
+
+2014-04-01 Pedro Vicente <pvicente at uci.edu>
+
+ * Data file in_grp_7.cdl with group previously in in_grp_3.cdl, to avoid netCDF 4.1 repeated dimension IDs bug
+
+ * Regression script NCO_rgr.pm detects return code made by function nco_get_prg_info()
+
+ * nco_get_prg_info() Make return code 41 for netCDF version 4.1x linkage and return code 43 for netCDF version 4.3.1.x linkage
+
+2014-03-27 Pedro Vicente <pvicente at uci.edu>
+
+ * ncge: Detect NCAR CCM/CCSM/CF conventions for handling fixed variables
+
+ * nco_var_is_fix() Variable should be treated as a fixed variable
+
+ * nces #21 Test CF fixed variables
+
+2014-03-26 Pedro Vicente <pvicente at uci.edu>
+
+ * ncwa #58-62: Cell methods regressions
+
+ * ncwa #63: Cell methods test with repeated dimension names (test absolute dimension name)
+
+ * nco_cnv_cf_cll_mth_add() Use absolute dimension name to match dimensions
+
+2014-03-19 Pedro Vicente <pvicente at uci.edu>
+
+ * ncbo #29: Process cases where both an absolute path variable exists in 2 files and
+ a relative variable match exists as a result of processing ncge with 1 ensemble member
+
+2014-03-13 Pedro Vicente <pvicente at uci.edu>
+
+ * nces #20: Checking of conforming dimensions between ensemble variables
+
+ * nco_chk_nsm() Check if ensembles dimensions are valid
+
+2014-03-12 Pedro Vicente <pvicente at uci.edu>
+
+ * Add test files in_grp_4.cdl, in_grp_5.cdl; generate test case for nces average members
+ whose hyperslabs resolve to the same size
+
+2014-03-10 Charlie Zender <zender at uci.edu>
+
+ * Build NCO on rhea at ORNL
+
+2014-03-10 Pedro Vicente <pvicente at uci.edu>
+
+ * ncbo #29. Process relative matches, second file greater (obs.nc cmip5.nc)
+
+2014-03-09 Pedro Vicente <pvicente at uci.edu>
+
+ * ncbo #27. Process ensembles in file 2 (obs.nc) with common variable at root in file 1 (mdl.nc)
+ Check fixed variables
+
+ * ncbo #28. Process relative matches, first file greater (cmip5.nc obs.nc)
+
+ * nco_prc_rel_cmn_nm(). Process relative matches.
+
+2014-03-06 Pedro Vicente <pvicente at uci.edu>
+
+ * ncbo #26. Process ensembles in file 2 (obs.nc) with common variable at root in file 1 (mdl.nc)
+
+ * nco_prc_nsm(). Process ensembles in file 2 with common variable at root in file 1
+
+2014-03-05 Pedro Vicente <pvicente at uci.edu>
+
+ * ncbo #25. Process ensembles in file 1 (mdl.nc) with common variable at root in file 2 (obs.nc)
+
+ * nco_prc_nsm(). Process ensembles in file 1 with common variable at root in file 2
+
+2014-03-04 Pedro Vicente <pvicente at uci.edu>
+
+ * ncbo #24. Process variables belonging to ensembles in both files
+
+ * nco_prc_cmn_nsm(). Process variables belonging to ensembles in both files
+
+2014-03-04 Charlie Zender <zender at uci.edu>
+
+ * User reported extreme slowdown accessing 3-D data with strides from DAP server
+ Info from R. Signell and J. Whitaker suggests using nco_get_vars() instead of nco_get_varm()
+ All NCO hyperslab code uses nco_get_varm() instead of nco_get_vars(), and supplies NULL * as mapping vector
+ Replacing all instances of nco_get_varm() with nco_get_vars() solves access speed problem on DAP
+
+2014-03-03 Charlie Zender <zender at uci.edu>
+
+ * Add NCOpy by Joe Hamman to homepage
+
+2014-02-27 Charlie Zender <zender at uci.edu>
+
+ * Document HDF Group H4CF tool h4tonccf
+
+2014-02-26 Charlie Zender <zender at uci.edu>
+
+ * Warn about record chunk sizes only after records have been written
+
+2014-02-25 Charlie Zender <zender at uci.edu>
+
+ * Diagnose/fix ncwa/ncpdq dimension-matching algorithm
+ Old algorithm matched any dimension that contained specified string
+
2014-02-20 Charlie Zender <zender at uci.edu>
* NCO 4.4.2 release procedure:
@@ -860,7 +967,7 @@
cd ~/nco;cvs commit -m "Preparing nco-4.3.6 release"
cvs tag -c nco-4_3_6;cvs tag -c nco-4_3_6-1
- * Add mdl.cdl
+ * Add mdl_1.cdl
2013-09-26 Pedro Vicente <pvicente at uci.edu>
@@ -6681,7 +6788,7 @@
* The first iteration of hyperslabing in ncap2
* Can hyperslab on LHS with scalar on RHS eg time(5:9)=.4;
- or var on RHS.
+ or var on RHS.
* Can also hyperslab on RHS eg three_dmn_var(1,,)=three_dmn_var(9,,);
@@ -9665,7 +9772,7 @@
2004-01-03 Charlie Zender <zender at uci.edu>
* Fix bug where nco_put_varm() called nc_get_varm_float() instead
- of nc_put_varm_float()
+ of nc_put_varm_float()
* Replace nco_netcdf.h prototypes with type-safe const'ified prototypes
@@ -9683,9 +9790,9 @@
* Improve qsort() comparison functions nco_cmp_*() based on
responses to comp.lang.c thread 20040101:
1. Avoid overflow conditions by not performing subtraction
- 2. Preserve const-ness by using comparison rather than using
+ 2. Preserve const-ness by using comparison rather than using
casting and subtraction
-
+
2003-12-29 Charlie Zender <zender at uci.edu>
* De-lint code with --enable-debug-custom
@@ -11725,8 +11832,8 @@
stride limits. One line fix to lmt_evl() restored old lmt_evl()
dim_idx code to all operators except ncra and ncrcat. The new
lmt_evl() code simply will not (and should not) handle wrapped
- coordinates for the record dimension in multi-file operators.
-
+ coordinates for the record dimension in multi-file operators.
+
1999-05-11 Charlie Zender <zender at z.ppp.ucar.edu>
* Tagged this as nco1_1_31
@@ -11761,16 +11868,16 @@
* Implemented stride for the record dimension in ncra and ncrcat,
e.g., ncra -d time,1,100,12 in1.nc in2.nc ... out.nc should now
- work correctly across files. Currently stride only works on the
+ work correctly across files. Currently stride only works on the
record dimension of ncra and ncrcat, however, not the rest of
the dimensions.
* Implemented index-based hyperslabbing across files in the record
- dimension in the multi-file operators ncra and ncrcat, e.g.,
+ dimension in the multi-file operators ncra and ncrcat, e.g.,
ncra -d time,1,100 in1.nc in2.nc ... out.nc. The User's Guide said
this feature had already been implemented, but that, apparently,
was not true. The symptom was an "index out of range error" from
- netCDF.
+ netCDF.
1999-04-27 Charlie Zender <zender at sanitas-e0.cgd.ucar.edu>
@@ -11796,7 +11903,7 @@
* New version requires -lm for log() and ceil() functions
Added -lm to Makefile for some architecture which were missing it
-
+
* Tagged and released this as nco1_1_24
* Fixed bug where ncrcat and ncra omitted the last slice of the
@@ -11804,8 +11911,8 @@
user-specified hyperslab information was provided for some
dimensions BUT not for the record dimension. This bug only
affected ncrcat and ncra and only under these conditions. Thanks
- to John Sheldon <jps at server1.gfdl.gov> for pointing this out.
-
+ to John Sheldon <jps at server1.gfdl.gov> for pointing this out.
+
1999-04-04 Charlie Zender <zender at z.ppp.ucar.edu>
* Tagged and released this as nco1_1_22
diff --git a/doc/MANIFEST b/doc/MANIFEST
index 987637b..5503493 100644
--- a/doc/MANIFEST
+++ b/doc/MANIFEST
@@ -1,4 +1,4 @@
-$Header: /cvsroot/nco/nco/doc/MANIFEST,v 1.61 2014/02/20 16:43:22 zender Exp $ -*-text-*-
+$Header: /cvsroot/nco/nco/doc/MANIFEST,v 1.65 2014/04/01 17:45:20 pvicente Exp $ -*-text-*-
This file enumerates the files in the NCO distribution and, where
appropriate, describes the purpose of the file.
@@ -80,12 +80,17 @@ nco/data/in_4.cdl CDL file to generate netCDF4 test file in_4.nc
nco/data/in_grp.cdl CDL file to test netCDF4 group functionality
nco/data/in_grp_1.cdl CDL file to test ncbo functionality on groups
nco/data/in_grp_2.cdl CDL file to test ncbo functionality on groups
+nco/data/in_grp_3.cdl CDL file to test ncbo functionality on groups
+nco/data/in_grp_4.cdl CDL file to test ncbo functionality on groups
+nco/data/in_grp_5.cdl CDL file to test ncbo functionality on groups
+nco/data/in_grp_6.cdl CDL file to test ncbo functionality on groups
+nco/data/in_grp_7.cdl CDL file to test ncbo functionality on groups
nco/data/in_1.cdl CDL file to test 2 input file operators
nco/data/in_2.cdl CDL file to test 2 input file operators
nco/data/cmip5.cdl CDL file to test ncbo functionality on groups
nco/data/dsm.cdl CDL file to test ncdismember
-nco/data/mdl.cdl CDL file to test ensemble operations
-nco/data/mdl2.cdl CDL file to test ensemble operations
+nco/data/mdl_1.cdl CDL file to test ensemble operations
+nco/data/mdl_2.cdl CDL file to test ensemble operations
nco/data/obs.cdl CDL file to test group broadcasting
nco/data/in_rec_zero.cdl CDL file to test zero-record files
nco/data/ncap.in Sample ncap input script
diff --git a/doc/TAG b/doc/TAG
index 61d7a53..abd3a5d 100644
--- a/doc/TAG
+++ b/doc/TAG
@@ -1 +1 @@
-$Name: nco-4_4_2 $
+$Name: nco-4_4_3 $
diff --git a/doc/VERSION b/doc/VERSION
index f939222..f0f76fb 100644
--- a/doc/VERSION
+++ b/doc/VERSION
@@ -1 +1 @@
-4.4.2
\ No newline at end of file
+4.4.3
\ No newline at end of file
diff --git a/doc/debian.txt b/doc/debian.txt
index 1c3efe5..9f8c239 100644
--- a/doc/debian.txt
+++ b/doc/debian.txt
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/doc/debian.txt,v 1.200 2014/02/05 21:17:07 zender Exp $ -*-text-*-
+# $Header: /cvsroot/nco/nco/doc/debian.txt,v 1.201 2014/04/02 05:40:24 zender Exp $ -*-text-*-
# Purpose: Debian information for NCO netCDF Operators project
# Notes describe procedure to manipulate Debian-specific distribution
@@ -29,19 +29,19 @@ apt-get install dh-make debhelper devscripts fakeroot gnupg debian-policy develo
2. Debian build procedure recommends placing entire package source in
subdirectory of main package.
- For starters, we wish to create .debs of tagged releases, e.g., nco-4.4.2
- First we create a clean source distribution of nco and place it in nco-4.4.2
- Once automated, we will use cvs co -rnco-4_4_2 to get source
+ For starters, we wish to create .debs of tagged releases, e.g., nco-4.4.3
+ First we create a clean source distribution of nco and place it in nco-4.4.3
+ Once automated, we will use cvs co -rnco-4_4_3 to get source
Until we know what is necessary, however, we just copy a snapshot
2.1 Clean all build files from development directory
cd ~/nco;make distclean;cd bld;make clean;cd ~
tar cvzf ./nco/nco.tar.gz ./nco/*
-cd ~/nco;tar xvzf nco.tar.gz;mv nco nco-4.4.2
-/bin/rm nco.tar.gz;tar cvzf nco-4.4.2.tar.gz ./nco-4.4.2/*
-cd ~/nco/nco-4.4.2
-dh_make -e zender at uci.edu -f ../nco-4.4.2.tar.gz
+cd ~/nco;tar xvzf nco.tar.gz;mv nco nco-4.4.3
+/bin/rm nco.tar.gz;tar cvzf nco-4.4.3.tar.gz ./nco-4.4.3/*
+cd ~/nco/nco-4.4.3
+dh_make -e zender at uci.edu -f ../nco-4.4.3.tar.gz
2.2 The preceding steps created template debian files for a .deb,
Those files now reside in ~/nco/debian.
@@ -56,7 +56,7 @@ dh_make -e zender at uci.edu -f ../nco-4.4.2.tar.gz
from previous build
cd ~/nco;/bin/rm *.gz
- cd ~/nco/nco-4.4.2
+ cd ~/nco/nco-4.4.3
dpkg-buildpackage -rfakeroot > foo 2>&1
dpkg-buildpackage -rsudo > foo 2>&1
@@ -85,12 +85,12 @@ patch -p0 < nco_X.Y.Z-3.diff # Patch destination with Debian diff
make tags
# Put cute version-specific string in nco_ctl.c:nco_nmn_get()
# Install correct version numbers before updating Debian
-# tags-query replace 4_4_2 with X_Y_Z+1
-# tags-query replace 4.4.2 with X.Y.Z+1
+# tags-query replace 4_4_3 with X_Y_Z+1
+# tags-query replace 4.4.3 with X.Y.Z+1
# If tags-query replace does not work, be sure to manually change
# versions in configure.ac, debian/files, doc/ANNOUNCE, doc/debian.txt,
# doc/index.shtml, doc/nco.texi, bld/nco_dst.pl, doc/VERSION
- cd ~/nco/debian;dch -b --force-distribution --distribution=unstable -v 4.4.2-1 # Update changelog (-b forces this version number)
+ cd ~/nco/debian;dch -b --force-distribution --distribution=unstable -v 4.4.3-1 # Update changelog (-b forces this version number)
emacs ~/nco/bld/nco.spec # Update changelog
# For unknown reason rules file may lose its executable bit
chmod a+x ~/nco/debian/rules
@@ -98,22 +98,22 @@ patch -p0 < nco_X.Y.Z-3.diff # Patch destination with Debian diff
cd ~/nco;aclocal;autoheader;automake --foreign;autoconf
# Save all files in emacs before tagging
# Tag CVS code after changing files in ~/nco/debian
- cd ~/nco;cvs commit -m "Preparing nco-4.4.2 release";cvs tag -c nco-4_4_2
- ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4_4_2
+ cd ~/nco;cvs commit -m "Preparing nco-4.4.3 release";cvs tag -c nco-4_4_3
+ ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4_4_3
# Upload tarball to SF https://sourceforge.net/projects/nco/files
- cd;scp dust.ess.uci.edu:/var/www/html/nco/src/nco-4.4.2.tar.gz .
+ cd;scp dust.ess.uci.edu:/var/www/html/nco/src/nco-4.4.3.tar.gz .
7. Ubuntu PPA
https://help.launchpad.net/Packaging/PPA
-dput NCO nco_4.4.2-2~ppa1_source.changes
+dput NCO nco_4.4.3-2~ppa1_source.changes
sudo apt-key adv --recv-keys --keyserver keyserver.ubuntu.com
# Location of build diagnostics for mentors to help
-http://dust.ess.uci.edu/nco/src/nco_4.4.2-1.dpkg-buildpackage.txt
-http://dust.ess.uci.edu/nco/src/nco_4.4.2-1.dsc
-http://dust.ess.uci.edu/nco/src/nco_4.4.2-1_i386.changes
-http://dust.ess.uci.edu/nco/src/nco_4.4.2-1_i386.deb
-http://dust.ess.uci.edu/nco/src/nco_4.4.2.orig.tar.gz
+http://dust.ess.uci.edu/nco/src/nco_4.4.3-1.dpkg-buildpackage.txt
+http://dust.ess.uci.edu/nco/src/nco_4.4.3-1.dsc
+http://dust.ess.uci.edu/nco/src/nco_4.4.3-1_i386.changes
+http://dust.ess.uci.edu/nco/src/nco_4.4.3-1_i386.deb
+http://dust.ess.uci.edu/nco/src/nco_4.4.3.orig.tar.gz
# Becoming a Debian developer
http://www.debian.org/devel/join/newmaint
@@ -167,31 +167,31 @@ Matej Vela <vela at debian.org>, Daniel Baumann <daniel at debian.org>, Warren Turkal
# export LD_LIBRARY_PATH=/usr/lib:/lib:/usr/X11R6/lib
# sudo aptitude install antlr bison flex gsl-bin libgsl0-dev libantlr-dev netcdf-bin libnetcdfc7 libnetcdf-dev texinfo libcurl4-gnutls-dev libexpat1-dev libxml2-dev udunits-bin libudunits2-0 libudunits2-dev
cd ~/nco;cvc
-sudo /bin/rm -rf ${DATA}/nco-4.4.2 ${DATA}/nco_4.4.2* ${DATA}/debian # Cleanup last build. sudo necessary for removal because dpkg-buildpackage uses sudo?
-# cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_2-1 -d nco-4.4.2 nco # Export based on tag
-cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -D "1 second ago" -d nco-4.4.2 nco # Export most recent
-tar cvzf ./nco_4.4.2.orig.tar.gz --exclude='nco-4.4.2/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.2
-/bin/rm -rf ${DATA}/nco-4.4.2 # Remove cvs-exported directory
-tar xvzf ./nco_4.4.2.orig.tar.gz # Untar to get directory without excluded files
-mkdir -p ${DATA}/nco-4.4.2/debian/source;cd ~/nco/debian;/bin/cp changelog compat control convert copyright doc-base files info rules ${DATA}/nco-4.4.2/debian;cd ~/nco/debian/source;/bin/cp format ${DATA}/nco-4.4.2/debian/source # Replace debian directory with _CURRENT_ (main trunk) settings
+sudo /bin/rm -rf ${DATA}/nco-4.4.3 ${DATA}/nco_4.4.3* ${DATA}/debian # Cleanup last build. sudo necessary for removal because dpkg-buildpackage uses sudo?
+# cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_3-1 -d nco-4.4.3 nco # Export based on tag
+cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -D "1 second ago" -d nco-4.4.3 nco # Export most recent
+tar cvzf ./nco_4.4.3.orig.tar.gz --exclude='nco-4.4.3/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.3
+/bin/rm -rf ${DATA}/nco-4.4.3 # Remove cvs-exported directory
+tar xvzf ./nco_4.4.3.orig.tar.gz # Untar to get directory without excluded files
+mkdir -p ${DATA}/nco-4.4.3/debian/source;cd ~/nco/debian;/bin/cp changelog compat control convert copyright doc-base files info rules ${DATA}/nco-4.4.3/debian;cd ~/nco/debian/source;/bin/cp format ${DATA}/nco-4.4.3/debian/source # Replace debian directory with _CURRENT_ (main trunk) settings
#export DEB_BUILD_OPTIONS='disable-dap-netcdf disable-netcdf4 disable-udunits2'; # Disable optional packages based on available Debian support
-#cd ${DATA}/nco-4.4.2;dpkg-buildpackage -rsudo -uc -us > ~/foo.nco 2>&1 # -uc -us: Do not sign changes or source files
-#cd ${DATA}/nco-4.4.2;dpkg-buildpackage -rsudo -sa > ~/foo.nco 2>&1 # -sa: Include _orig.tar.gz in .changes
-cd ${DATA}/nco-4.4.2;dpkg-buildpackage -rsudo > ~/foo.nco 2>&1
+#cd ${DATA}/nco-4.4.3;dpkg-buildpackage -rsudo -uc -us > ~/foo.nco 2>&1 # -uc -us: Do not sign changes or source files
+#cd ${DATA}/nco-4.4.3;dpkg-buildpackage -rsudo -sa > ~/foo.nco 2>&1 # -sa: Include _orig.tar.gz in .changes
+cd ${DATA}/nco-4.4.3;dpkg-buildpackage -rsudo > ~/foo.nco 2>&1
sudo dpkg --remove nco
-sudo dpkg --install ${DATA}/nco_4.4.2-1_*.deb
+sudo dpkg --install ${DATA}/nco_4.4.3-1_*.deb
cd ~/nco/bld;MY_BIN_DIR=/usr/bin ../bm/nco_bm.pl --regress
# http://lintian.debian.org/full/zender@uci.edu.html
-lintian ${DATA}/nco_4.4.2-1_*.deb
-ls -l ${DATA}/nco_4.4.2*
+lintian ${DATA}/nco_4.4.3-1_*.deb
+ls -l ${DATA}/nco_4.4.3*
m ~/foo.nco
# Upload Ubuntu (rather than Debian) packages to websites
-scp ${DATA}/nco_4.4.2* dust.ess.uci.edu:/var/www/html/nco/src
-scp ${DATA}/nco_4.4.2* zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
+scp ${DATA}/nco_4.4.3* dust.ess.uci.edu:/var/www/html/nco/src
+scp ${DATA}/nco_4.4.3* zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
# NB: Make sure RPMs build before uploading to debian, since changing
# Debian versions is a PITA
# NB: Only upload pbuilder Debian Sid (not personal Ubuntu) .deb builds to Debian mentors
-# cd ${DATA};dupload -t mentors nco_4.4.2-1_*.changes
+# cd ${DATA};dupload -t mentors nco_4.4.3-1_*.changes
bsrc # Reset shell environment for regular development
# New build system #2
@@ -205,52 +205,52 @@ DIST=sid sudo pbuilder update # Update chroot before building package in it
# dget http://ftp.debian.org/debian/pool/main/n/nco/nco_3.9.0-1.dsc
# dget http://ftp.debian.org/debian/pool/main/n/netcdf/netcdf_3.6.1-1.dsc
# apt-get source nco # Get package source
-sudo /bin/rm /var/cache/pbuilder/result/nco_4.4.2* # Cleanup prior build
+sudo /bin/rm /var/cache/pbuilder/result/nco_4.4.3* # Cleanup prior build
# To pass DEB_BUILD_OPTIONS to pbuilder while using sudo, one must first
# modify sudoers with visudo to prevent sudo from resetting environment
#export DEB_BUILD_OPTIONS='disable-dap-netcdf disable-netcdf4 disable-udunits2'; # Disable optional packages based on available Debian support
-cd ${DATA};DIST=sid sudo pbuilder build nco_4.4.2-1.dsc > ~/foo.nco.pbuilder 2>&1
-cd /var/cache/pbuilder/result;debsign -k6F635D10 nco_4.4.2-1_*.changes
-lintian /var/cache/pbuilder/result/nco_4.4.2-1_*.deb
+cd ${DATA};DIST=sid sudo pbuilder build nco_4.4.3-1.dsc > ~/foo.nco.pbuilder 2>&1
+cd /var/cache/pbuilder/result;debsign -k6F635D10 nco_4.4.3-1_*.changes
+lintian /var/cache/pbuilder/result/nco_4.4.3-1_*.deb
sudo dpkg --remove nco
-sudo dpkg --install /var/cache/pbuilder/result/nco_4.4.2-1_*.deb
+sudo dpkg --install /var/cache/pbuilder/result/nco_4.4.3-1_*.deb
cd ~/nco/bld;MY_BIN_DIR=/usr/bin ../bm/nco_bm.pl --regress
# NB: Upload pbuilder Debian Sid packages to Debian mentors, but not
# to personal or NCO websites since most people use Ubuntu not Debian
# NB: Debian versions are a PITA, ensure RPMs build before uploading to Debian
-cd /var/cache/pbuilder/result;dupload -t mentors nco_4.4.2-1_*.changes
+cd /var/cache/pbuilder/result;dupload -t mentors nco_4.4.3-1_*.changes
# RPM builds as root
export rpm_root='/usr/src/redhat'
# export sudo_sng='' # sudo not-necessary when builing in user directories
export sudo_sng='sudo' # sudo necessary when building in system directories
cd ~/nco;cvc;cvu
-/bin/rm -rf ${DATA}/nco-4.4.2 ${DATA}/nco-4.4.2* # Cleanup last build
+/bin/rm -rf ${DATA}/nco-4.4.3 ${DATA}/nco-4.4.3* # Cleanup last build
${sudo_sng} /bin/rm -r -f \
-${rpm_root}/BUILD/nco-4.4.2 \
-${rpm_root}/RPMS/i386/nco-4.4.2-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-debuginfo-4.4.2-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-devel-4.4.2-?.i386.rpm \
-${rpm_root}/SOURCES/nco-4.4.2.tar.gz \
-${rpm_root}/SPECS/nco-4.4.2.spec \
-${rpm_root}/SRPMS/nco-4.4.2-?.src.rpm
-cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_2-1 -d nco-4.4.2 nco # Export based on tag
-${sudo_sng} ln -s ${HOME}/nco/bld/nco.spec ${rpm_root}/SPECS/nco-4.4.2.spec
-tar cvzf ./nco-4.4.2.tar.gz --exclude='nco-4.4.2/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.2
-${sudo_sng} /bin/cp ${DATA}/nco-4.4.2.tar.gz ${rpm_root}/SOURCES
+${rpm_root}/BUILD/nco-4.4.3 \
+${rpm_root}/RPMS/i386/nco-4.4.3-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-debuginfo-4.4.3-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-devel-4.4.3-?.i386.rpm \
+${rpm_root}/SOURCES/nco-4.4.3.tar.gz \
+${rpm_root}/SPECS/nco-4.4.3.spec \
+${rpm_root}/SRPMS/nco-4.4.3-?.src.rpm
+cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_3-1 -d nco-4.4.3 nco # Export based on tag
+${sudo_sng} ln -s ${HOME}/nco/bld/nco.spec ${rpm_root}/SPECS/nco-4.4.3.spec
+tar cvzf ./nco-4.4.3.tar.gz --exclude='nco-4.4.3/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.3
+${sudo_sng} /bin/cp ${DATA}/nco-4.4.3.tar.gz ${rpm_root}/SOURCES
cd ${rpm_root}/SPECS
-${sudo_sng} rpmbuild -ba --sign nco-4.4.2.spec > ~/foo.nco 2>&1
+${sudo_sng} rpmbuild -ba --sign nco-4.4.3.spec > ~/foo.nco 2>&1
scp \
-${rpm_root}/RPMS/i386/nco-4.4.2-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-debuginfo-4.4.2-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-devel-4.4.2-?.i386.rpm \
-${rpm_root}/SRPMS/nco-4.4.2-?.src.rpm \
+${rpm_root}/RPMS/i386/nco-4.4.3-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-debuginfo-4.4.3-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-devel-4.4.3-?.i386.rpm \
+${rpm_root}/SRPMS/nco-4.4.3-?.src.rpm \
dust.ess.uci.edu:/var/www/html/nco/src
scp \
-${rpm_root}/RPMS/i386/nco-4.4.2-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-debuginfo-4.4.2-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-devel-4.4.2-?.i386.rpm \
-${rpm_root}/SRPMS/nco-4.4.2-?.src.rpm \
+${rpm_root}/RPMS/i386/nco-4.4.3-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-debuginfo-4.4.3-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-devel-4.4.3-?.i386.rpm \
+${rpm_root}/SRPMS/nco-4.4.3-?.src.rpm \
zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
# RPM builds as user
@@ -259,33 +259,33 @@ zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
export rpm_root="${DATA}/rpm/nco"
#cd ~/nco;cvc;cvu # This risks committing unwanted *.[ch]pp files
mkdir -p ${DATA}/rpm/nco/TMP ${DATA}/rpm/nco/BUILD
-/bin/rm -rf ${DATA}/nco-4.4.2 ${DATA}/nco-4.4.2* # Cleanup last build
+/bin/rm -rf ${DATA}/nco-4.4.3 ${DATA}/nco-4.4.3* # Cleanup last build
/bin/rm -r -f \
-${rpm_root}/nco-4.4.2-?.src.rpm \
-${rpm_root}/nco-4.4.2.spec \
-${rpm_root}/nco-4.4.2.tar.gz \
-${rpm_root}/*/nco-4.4.2-?.*.rpm \
-${rpm_root}/*/nco-debuginfo-4.4.2-?.*.rpm \
-${rpm_root}/*/nco-devel-4.4.2-?.*.rpm
-# cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_2-1 -d nco-4.4.2 nco # Export based on tag
-cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -D "1 second ago" -dnco-4.4.2 nco # Export most recent and build as 4.4.2-1
-tar cvzf ./nco-4.4.2.tar.gz --exclude='nco-4.4.2/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.2
-/bin/cp ${DATA}/nco-4.4.2.tar.gz ${rpm_root}
+${rpm_root}/nco-4.4.3-?.src.rpm \
+${rpm_root}/nco-4.4.3.spec \
+${rpm_root}/nco-4.4.3.tar.gz \
+${rpm_root}/*/nco-4.4.3-?.*.rpm \
+${rpm_root}/*/nco-debuginfo-4.4.3-?.*.rpm \
+${rpm_root}/*/nco-devel-4.4.3-?.*.rpm
+# cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_3-1 -d nco-4.4.3 nco # Export based on tag
+cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -D "1 second ago" -dnco-4.4.3 nco # Export most recent and build as 4.4.3-1
+tar cvzf ./nco-4.4.3.tar.gz --exclude='nco-4.4.3/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.3
+/bin/cp ${DATA}/nco-4.4.3.tar.gz ${rpm_root}
ln -s ${HOME}/nco/bld/nco.spec ${rpm_root}/nco.spec
cd ${rpm_root}
rpmbuild -ba --sign nco.spec > ~/foo.nco 2>&1
-rpmlint ${rpm_root}/*/nco-4.4.2-?.*.rpm
+rpmlint ${rpm_root}/*/nco-4.4.3-?.*.rpm
sudo yum remove nco
-sudo yum install ${rpm_root}/*/nco-4.4.2-?.*.rpm
+sudo yum install ${rpm_root}/*/nco-4.4.3-?.*.rpm
scp \
-${rpm_root}/*/nco-4.4.2-?.*.rpm \
-${rpm_root}/*/nco-debuginfo-4.4.2-?.*.rpm \
-${rpm_root}/*/nco-devel-4.4.2-?.*.rpm \
-${rpm_root}/nco-4.4.2-?.*.src.rpm \
+${rpm_root}/*/nco-4.4.3-?.*.rpm \
+${rpm_root}/*/nco-debuginfo-4.4.3-?.*.rpm \
+${rpm_root}/*/nco-devel-4.4.3-?.*.rpm \
+${rpm_root}/nco-4.4.3-?.*.src.rpm \
dust.ess.uci.edu:/var/www/html/nco/src
scp \
-${rpm_root}/*/nco-4.4.2-?.*.rpm \
-${rpm_root}/*/nco-debuginfo-4.4.2-?.*.rpm \
-${rpm_root}/*/nco-devel-4.4.2-?.*.rpm \
-${rpm_root}/nco-4.4.2-?.*.src.rpm \
+${rpm_root}/*/nco-4.4.3-?.*.rpm \
+${rpm_root}/*/nco-debuginfo-4.4.3-?.*.rpm \
+${rpm_root}/*/nco-devel-4.4.3-?.*.rpm \
+${rpm_root}/nco-4.4.3-?.*.src.rpm \
zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
diff --git a/doc/index.shtml b/doc/index.shtml
index 8debcde..2c9778a 100644
--- a/doc/index.shtml
+++ b/doc/index.shtml
@@ -1,4 +1,4 @@
-<!-- $Header: /cvsroot/nco/nco/doc/index.shtml,v 1.870 2014/02/20 22:03:55 zender Exp $
+<!-- $Header: /cvsroot/nco/nco/doc/index.shtml,v 1.879 2014/04/02 05:40:24 zender Exp $
Purpose: NCO homepage
URL:
@@ -68,7 +68,7 @@ Try to disable Spammers' machines:
<p><h1 align="center">Welcome to the netCDF Operator (NCO) Homepage</h1>
<p><h2>
-Current NCO version is 4.4.2 last updated on <!--#flastmod file="VERSION"-->
+Current NCO version is 4.4.3 last updated on <!--#flastmod file="VERSION"-->
</h2>
<table border=0 width=100%>
@@ -119,7 +119,8 @@ Keep the size <250×250 pixels.<br>
NCO manipulates data stored in
<a href="http://www.unidata.ucar.edu/packages/netcdf">netCDF</a>-accessible
formats, including
-<a href="http://hdfgroup.org/products/hdf4">HDF4</a> and
+<a href="http://opendap.org">DAP</a>,
+<a href="http://hdfgroup.org/products/hdf4">HDF4</a>, and
<a href="http://hdfgroup.org/HDF5">HDF5</a>.
It also exploits the geophysical expressivity of many
<a href="http://cf-pcmdi.llnl.gov/documents/cf-conventions/latest-cf-conventions-document-1">CF</a>
@@ -146,8 +147,10 @@ and
<h2>NCO Milestones</h2>
<ul>
-<li>2014 Mar 25: (TBD) NCO <a href="http://dust.ess.uci.edu/smn/pst_nco_esds_201403.pdf">Poster</a> for NASA ESDSWG, Greenbelt, Maryland</li>
-<li>2014 Feb ??: NCO 4.4.3 (<i>In progress</i>)
+<li>2014 Apr ??: NCO 4.4.4 (<i>In progress</i>)
+<li>2014 Apr 02: NCO 4.4.3 (Stability)
+<li>2014 Mar 27: NCO <a href="http://dust.ess.uci.edu/smn/smn_nco_gsfc_201403.pdf">Talk</a> at NASA GSFC, Greenbelt, Maryland</li>
+<li>2014 Mar 25: NCO <a href="http://dust.ess.uci.edu/smn/pst_nco_esds_201403.pdf">Poster</a> for NASA ESDSWG, Greenbelt, Maryland</li>
<li>2014 Feb 20: NCO 4.4.2 (Stability)
<li>2014 Jan 29: NCO 4.4.1 (Stability)
<li>2014 Jan 09: NCO 4.4.0 (Stability)
@@ -397,10 +400,7 @@ If you send an endorsement, remember to include (at least) your Name, Title, and
/usr/bin/scp /home/pvicente/nco/doc/cesm-eg.fig1.png pvicente,nco at web.sf.net:/home/project-web/nco/htdocs
/usr/bin/scp /home/pvicente/nco/doc/cesm-eg.fig2.png pvicente,nco at web.sf.net:/home/project-web/nco/htdocs
/usr/bin/scp /home/pvicente/nco/doc/cesm-eg.fig3.png pvicente,nco at web.sf.net:/home/project-web/nco/htdocs
-
-->
-
-
<hr></p>
@@ -620,15 +620,19 @@ Releases receive unique CVS tags and their tarballs are stored
You can also retrieve the source of tagged versions directly
<a name="#Source">with CVS</a>.
<ul>
-<li><b>NCO 4.4.4</b>: (<i>Future</i>)
+<li><b>NCO 4.4.5</b>: (<i>Future</i>)
extensive hashing?;
netCDF4 compound types?;
Optimize diskless files?;</li>
-<li><b>NCO 4.4.3</b>: (<i>In Progress, features completed or being worked on include</i>)
+<li><b>NCO 4.4.4</b>: (<i>In Progress, features completed or being worked on include</i>)
<tt>cnk_map=rew</tt>;
<a href="http://nco.sf.net/nco.html#cnk">Chunking</a> bytes not elements, caching;</li>
-<li><b>NCO 4.4.2</b>: (<i>Current Stable Release</i>)
-Bugfixes for <tt>nces</tt>, LLVM/clang builds, <tt>-X</tt>;</li>
+<li><b>NCO 4.4.3</b>: (<i>Current Stable Release</i>)
+Faster DAP access to strided data;
+<a href="http://nco.sf.net/nco.html#grp_brd">Group broadcasting</a> for ensembles;
+<li><b>NCO 4.4.2</b>:
+CF <tt>cell_methods</tt> support;
+Bugfixes for <tt>nces</tt> memory, LLVM/clang builds, <tt>-X</tt>, RX's with groups, <tt>--cnk_dmn</tt>;</li>
<li><b>NCO 4.4.1</b>:
Group support for <tt>-X</tt> and <tt>--cnk_dmn</tt>;
Chunk and uncompress simultaneously;
@@ -952,7 +956,7 @@ Thanks to NSF for supporting AIX machines at NCAR over the years.
<h3><a href="http://www.debian.org">Debian</a> and <a href="http://www.ubuntu.com">Ubuntu</a> GNU/Linux</a></h3>
<ul>
<!--
-<li><a href="http://www.debian.org">Debian</a> and <a href="http://www.ubuntu.com">Ubuntu</a> GNU/Linux-compatible Intel systems, prebuilt binary executable <a href="http://www.debian.org">deb</a>: <a href="http://packages.debian.org/testing/math/nco.html">nco-4.4.2</a></li>
+<li><a href="http://www.debian.org">Debian</a> and <a href="http://www.ubuntu.com">Ubuntu</a> GNU/Linux-compatible Intel systems, prebuilt binary executable <a href="http://www.debian.org">deb</a>: <a href="http://packages.debian.org/testing/math/nco.html">nco-4.4.3</a></li>
-->
<a href="http://packages.debian.org/unstable/science/nco">Debian NCO</a> and
<a href="http://packages.ubuntu.com/natty/nco">Ubuntu NCO</a> homepages.
@@ -960,12 +964,12 @@ Thanks to NSF for supporting AIX machines at NCAR over the years.
NCO packages in the Debian/Ubuntu repositories (i.e., Sid and Raring) generally lag the packages distributed here by 6–12 months.
<a name="beta"></a><a name="prerelease"> <!-- http://nco.sf.net#beta -->
Newer (beta- or pre-release) packages are often available for intrepid Debian/Ubuntu users as described <a href="http://nco.cvs.sf.net/nco/nco/doc/beta.txt">here</a>.
-<dt>Debian package for most recent NCO release (install with, e.g., ‘<tt>dpkg --install nco_4.4.2-1_i386.deb</tt>’):</dt>
-<li><a href="src/nco_4.4.2-1_amd64.deb">nco_4.4.2-1_amd64.deb</a> (<!--#fsize file="src/nco_4.4.2-1_amd64.deb"-->): Executables AMD64-compatible (last updated <!--#flastmod file="src/nco_4.4.2-1_amd64.deb"-->)</li>
-<li><a href="src/nco_4.4.2-1.dsc">nco_4.4.2-1.dsc</a> (<!--#fsize file="src/nco_4.4.2-1.dsc"-->): Description (last updated <!--#flastmod file="src/nco_4.4.2-1.dsc"-->)</li>
-<li><a href="src/nco_4.4.2-1_amd64.changes">nco_4.4.2-1_amd64.changes</a> (<!--#fsize file="src/nco_4.4.2-1_amd64.changes"-->): Changes since last deb package (last updated <!--#flastmod file="src/nco_4.4.2-1_amd64.changes"-->)</li>
-<li><a href="src/nco_4.4.2.orig.tar.gz">nco_4.4.2.orig.tar.gz</a> (<!--#fsize file="src/nco_4.4.2.orig.tar.gz"-->): Upstream Source (last updated <!--#flastmod file="src/nco_4.4.2.orig.tar.gz"-->)</li>
-<li><a href="src/nco_4.4.2-1.diff.gz">nco_4.4.2-1.diff.gz</a> (<!--#fsize file="src/nco_4.4.2-1_amd64.changes"-->): Debian patch to upstream source (last updated <!--#flastmod file="src/nco_4.4.2-1_amd64.changes"-->)</li>
+<dt>Debian package for most recent NCO release (install with, e.g., ‘<tt>dpkg --install nco_4.4.3-1_i386.deb</tt>’):</dt>
+<li><a href="src/nco_4.4.3-1_amd64.deb">nco_4.4.3-1_amd64.deb</a> (<!--#fsize file="src/nco_4.4.3-1_amd64.deb"-->): Executables AMD64-compatible (last updated <!--#flastmod file="src/nco_4.4.3-1_amd64.deb"-->)</li>
+<li><a href="src/nco_4.4.3-1.dsc">nco_4.4.3-1.dsc</a> (<!--#fsize file="src/nco_4.4.3-1.dsc"-->): Description (last updated <!--#flastmod file="src/nco_4.4.3-1.dsc"-->)</li>
+<li><a href="src/nco_4.4.3-1_amd64.changes">nco_4.4.3-1_amd64.changes</a> (<!--#fsize file="src/nco_4.4.3-1_amd64.changes"-->): Changes since last deb package (last updated <!--#flastmod file="src/nco_4.4.3-1_amd64.changes"-->)</li>
+<li><a href="src/nco_4.4.3.orig.tar.gz">nco_4.4.3.orig.tar.gz</a> (<!--#fsize file="src/nco_4.4.3.orig.tar.gz"-->): Upstream Source (last updated <!--#flastmod file="src/nco_4.4.3.orig.tar.gz"-->)</li>
+<li><a href="src/nco_4.4.3-1.diff.gz">nco_4.4.3-1.diff.gz</a> (<!--#fsize file="src/nco_4.4.3-1_amd64.changes"-->): Debian patch to upstream source (last updated <!--#flastmod file="src/nco_4.4.3-1_amd64.changes"-->)</li>
Thanks to Daniel Baumann, Barry deFreese, Francesco Lovergine,
Brian Mays, Rorik Peterson, and Matej Vela for their help packaging
NCO for Debian over the years.
@@ -1010,10 +1014,10 @@ Thanks to Gavin Burris and Kyle Wilcox for documenting build procedures for RHEL
<ul>
<!--
/usr/bin/scp /home/pvicente/nco/doc/index.shtml pvicente,nco at web.sf.net:/home/project-web/nco/htdocs
-/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.1.macosx.10.9.tar.gz pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
+/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.3.macosx.10.9.tar.gz pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
-->
The most up-to-date binaries are probably those in the tarball below. Those unfamiliar with installing executables from tarballs may try the (older) <a href="http://en.wikipedia.org/wiki/Apple_Disk_Image">DMG</a> files (you may need to add <tt>/opt/local/bin</tt> to your executable path to access those operators).
-<li><a href="src/nco-4.4.1.macosx.10.9.tar.gz">nco-4.4.1.macosx.10.9.tar.gz</a> (<!--#fsize file="src/nco-4.4.1.macosx.10.9.tar.gz"-->): Executables MacOSX 10.9-compatible (last updated <!--#flastmod file="src/nco-4.4.1.macosx.10.9.tar.gz"-->).
+<li><a href="src/nco-4.4.2.macosx.10.9.tar.gz">nco-4.4.2.macosx.10.9.tar.gz</a> (<!--#fsize file="src/nco-4.4.2.macosx.10.9.tar.gz"-->): Executables MacOSX 10.9-compatible (last updated <!--#flastmod file="src/nco-4.4.2.macosx.10.9.tar.gz"-->).
(NB: These executables require the <a href="http://trac.macosforge.org/projects/macports/wiki">MacPorts</a> dependencies for <a href="http://svn.macports.org/repository/macports/trunk/dports/science/nco">NCO</a>). Maintained by NCO Project.</li>
<li><a href="src/nco-4.0.3_x86_10.6.dmg">nco-4.0.3_x86_10.6.dmg</a> (<!--#fsize file="src/nco-4.0.3_x86_10.6.dmg"-->): For Mac OS 10.6 (last updated <!--#flastmod file="src/nco-4.0.3_x86_10.6.dmg"-->). Maintained by Chad Cantwell.</li>
<li><a href="src/nco-4.0.7_x86_10.6.dmg">nco-4.0.7_x86_10.6.dmg</a> (<!--#fsize file="src/nco-4.0.7_x86_10.6.dmg"-->): For Mac OS 10.6 (last updated <!--#flastmod file="src/nco-4.0.7_x86_10.6.dmg"-->). Maintained by Chad Cantwell.</li>
@@ -1021,10 +1025,15 @@ The most up-to-date binaries are probably those in the tarball below. Those unfa
<li><a href="http://trac.macosforge.org/projects/macports/wiki">MacPorts</a> infrastructure for <a href="http://svn.macports.org/repository/macports/trunk/dports/science/nco">NCO</a>: <a href="http://svn.macports.org/repository/macports/trunk/dports/science/nco">Portfile</a> for NCO 3.9.9. Maintained by Takeshi Enomoto.</li>
</ul>
+<a name="python"></a> <!-- http://nco.sf.net#python -->
+<a name="NCOpy"></a> <!-- http://nco.sf.net#NCOpy -->
+<a name="pyt"></a> <!-- http://nco.sf.net#pyt -->
+<h3>Python Bindings <a href="https://github.com/jhamman/nco-bindings">Source</a> and <a href="http://www.hydro.washington.edu/~jhamman/hydro-logic/blog/2014/01/29/NCOpy">Documentation</a>
+
<a name="visual"></a> <!-- http://nco.sf.net#visual -->
<a name="mvs"></a> <!-- http://nco.sf.net#mvs -->
<a name="windows"></a> <!-- http://nco.sf.net#windows -->
-<h3><a href="http://www.microsoft.com">Microsoft</a> Windows</a>
+<h3><a href="http://www.microsoft.com">Microsoft Windows</a>
(native build, compiled with <a href="http://www.microsoft.com/visualstudio/en-us/products/2010-editions/express">Visual Studio 2010</a>, use this if unsure)</h3>
These native Windows executables should be stand-alone, i.e., not
require users to have any additional software.
@@ -1033,17 +1042,17 @@ To build NCO from source yourself using MSVC or Qt, please see the <a href="nco_
<ul>
<!-- Copy files from http://glace.ess.uci.edu
/usr/bin/scp /home/pvicente/nco/doc/index.shtml pvicente,nco at web.sf.net:/home/project-web/nco/htdocs
-/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.1.windows.mvs.exe pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
-/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.1.win32.cygwin.tar.gz pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
-/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.1.macosx.10.9.tar.gz pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
+/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.3.windows.mvs.exe pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
+/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.3.win32.cygwin.tar.gz pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
+/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.3.macosx.10.9.tar.gz pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
-->
-<li><a href="src/nco-4.4.1.windows.mvs.exe">nco-4.4.1.windows.mvs.exe</a> (<!--#fsize file="src/nco-4.4.1.windows.mvs.exe"-->) : Windows Self-Extracting Installer (last updated <!--#flastmod file="src/nco-4.4.1.windows.mvs.exe"-->). Maintained by NCO Project.</li>
+<li><a href="src/nco-4.4.2.windows.mvs.exe">nco-4.4.2.windows.mvs.exe</a> (<!--#fsize file="src/nco-4.4.2.windows.mvs.exe"-->) : Windows Self-Extracting Installer (last updated <!--#flastmod file="src/nco-4.4.2.windows.mvs.exe"-->). Maintained by NCO Project.</li>
</ul>
<a name="cygwin"></a> <!-- http://nco.sf.net#cygwin -->
<h3><a href="http://www.microsoft.com">Microsoft</a> Windows</a> (running <a href="http://www.cygwin.org">Cygwin</a> environment, compiled with GNU-toolchain)</h3>
<ul>
-<li><a href="src/nco-4.4.1.win32.cygwin.tar.gz">nco-4.4.1.win32.cygwin.tar.gz</a> (<!--#fsize file="src/nco-4.4.1.win32.cygwin.tar.gz"-->): Executables Cygwin-compatible (last updated <!--#flastmod file="src/nco-4.4.1.win32.cygwin.tar.gz"-->). Maintained by NCO Project.</li>
+<li><a href="src/nco-4.4.2.win32.cygwin.tar.gz">nco-4.4.2.win32.cygwin.tar.gz</a> (<!--#fsize file="src/nco-4.4.2.win32.cygwin.tar.gz"-->): Executables Cygwin-compatible (last updated <!--#flastmod file="src/nco-4.4.2.win32.cygwin.tar.gz"-->). Maintained by NCO Project.</li>
First install <tt>curl</tt> (in the "Web" category of Cygwin setup),
and point the environment variable <tt>UDUNITS2_XML_PATH</tt> to the
<tt>udunits2.xml</tt> file, e.g., with
@@ -1170,10 +1179,10 @@ The best way to acquire NCO sources is with <a href="http://www.cvshome.org">CVS
The second best way is to download the source as a compressed tarfile:
<ul>
<li>
-<a href="src/nco-4.4.2.tar.gz">nco-4.4.2.tar.gz</a>
-(<!--#fsize file="src/nco-4.4.2.tar.gz"--> compressed tar-file)<br>
-<!--#exec cmd="openssl dgst -md5 src/nco-4.4.2.tar.gz"--><br>
-<!--#exec cmd="openssl dgst -sha1 src/nco-4.4.2.tar.gz"-->
+<a href="src/nco-4.4.3.tar.gz">nco-4.4.3.tar.gz</a>
+(<!--#fsize file="src/nco-4.4.3.tar.gz"--> compressed tar-file)<br>
+<!--#exec cmd="openssl dgst -md5 src/nco-4.4.3.tar.gz"--><br>
+<!--#exec cmd="openssl dgst -sha1 src/nco-4.4.3.tar.gz"-->
</li>
</ul>
@@ -1196,19 +1205,19 @@ Hit <tt>return</tt> when asked for the CVS password.
This login procedure is only required the first time you access the CVS server.
Then you may retrieve any NCO distribution you wish.
Usually you wish to retrieve a recent tagged (i.e., released) version.
-This command retrieves and places NCO version <tt>4.4.2</tt> (which is
-tagged as <tt>nco-4_4_2</tt> due to CVS rules) into local directory
-<tt>nco-4.4.2</tt>:
-<p><tt>cvs -z3 -d:pserver:anonymous at nco.cvs.sf.net:/cvsroot/nco co -r nco-4_4_2 -d nco-4.4.2 nco</tt></p>
+This command retrieves and places NCO version <tt>4.4.3</tt> (which is
+tagged as <tt>nco-4_4_3</tt> due to CVS rules) into local directory
+<tt>nco-4.4.3</tt>:
+<p><tt>cvs -z3 -d:pserver:anonymous at nco.cvs.sf.net:/cvsroot/nco co -r nco-4_4_3 -d nco-4.4.3 nco</tt></p>
This command retrieves the current (“bleeding edge”)
development version of NCO into a local directory named <tt>nco</tt>:
<p><tt>cvs -z3 -d:pserver:anonymous at nco.cvs.sf.net:/cvsroot/nco co -kk nco</tt></p>
Track changes to the development version using
<p><tt>cd nco;cvs update -kk</tt></p>
One difference between running a "tagged" release
-(e.g., <tt>nco-4_4_2</tt>) and the development version is that the
+(e.g., <tt>nco-4_4_3</tt>) and the development version is that the
tagged release operators will print a valid version number (e.g.,
-<tt>4.4.2</tt>) when asked to do so with the <tt>-r</tt> flag
+<tt>4.4.3</tt>) when asked to do so with the <tt>-r</tt> flag
(e.g., <tt>ncks -r</tt>).
The development version simply places today's date in place of the
version.
@@ -1321,7 +1330,7 @@ For Mac OS X with MacPorts:
<tt>
<dt>wget http://dust.ess.uci.edu/nco/nco.tar.gz</dt>
<dt>tar xvzf nco.tar.gz</dt>
-<dt>cd nco-4.4.2</dt>
+<dt>cd nco-4.4.3</dt>
<dt>./configure --prefix=/usr/local</dt>
<dt>make</dt>
<dt>sudo make install</dt>
diff --git a/doc/nco.dvi b/doc/nco.dvi
index b458a68..8c8fb48 100644
Binary files a/doc/nco.dvi and b/doc/nco.dvi differ
diff --git a/doc/nco.html b/doc/nco.html
index 7de6b23..7752699 100644
--- a/doc/nco.html
+++ b/doc/nco.html
@@ -2,10 +2,10 @@
<html>
<!-- Created by GNU Texinfo 5.1, http://www.gnu.org/software/texinfo/ -->
<head>
-<title>NCO 4.4.2 User Guide</title>
+<title>NCO 4.4.3 User Guide</title>
-<meta name="description" content="NCO 4.4.2 User Guide">
-<meta name="keywords" content="NCO 4.4.2 User Guide">
+<meta name="description" content="NCO 4.4.3 User Guide">
+<meta name="keywords" content="NCO 4.4.3 User Guide">
<meta name="resource-type" content="document">
<meta name="distribution" content="global">
<meta name="Generator" content="makeinfo">
@@ -47,7 +47,7 @@ ul.no-bullet {list-style: none}
</head>
<body lang="en" bgcolor="#FFFFFF" text="#000000" link="#0000FF" vlink="#800080" alink="#FF0000">
-<h1 class="settitle" align="center"><acronym>NCO</acronym> 4.4.2 User Guide</h1>
+<h1 class="settitle" align="center"><acronym>NCO</acronym> 4.4.3 User Guide</h1>
@@ -355,8 +355,8 @@ examples from the field of climate modeling and analysis.
The <acronym>NCO</acronym> homepage is <a href="http://nco.sf.net">http://nco.sf.net</a>, and
there is a mirror at <a href="http://dust.ess.uci.edu/nco">http://dust.ess.uci.edu/nco</a>.
</p>
-<p>This documentation is for <acronym>NCO</acronym> version 4.4.2.
-It was last updated 19 February 2014.
+<p>This documentation is for <acronym>NCO</acronym> version 4.4.3.
+It was last updated 2 April 2014.
Corrections, additions, and rewrites of this documentation are very
welcome.
</p>
@@ -636,7 +636,7 @@ descriptions of <a href="http://nco.sf.net/#bug">Known Problems</a> etc.
are on our homepage
(<a href="http://nco.sf.net/">http://nco.sf.net/</a>).
</p>
-<p>There are twelve operators in the current version (4.4.2).
+<p>There are twelve operators in the current version (4.4.3).
The function of each is explained in <a href="#Operator-Reference-Manual">Operator Reference Manual</a>.
Many of the tasks that <acronym>NCO</acronym> can accomplish are described during
the explanation of common <acronym>NCO</acronym> Features (see <a href="#Common-features">Common features</a>).
@@ -1170,7 +1170,10 @@ netCDF3 input, i.e., to convert netCDF3 to netCDF4.
See <a href="#File-Formats-and-Conversion">File Formats and Conversion</a> for more details.
</p>
<a name="hdf4"></a> <!-- http://nco.sf.net/nco.html#hdf4 -->
-<a name="HDF4"></a> <!-- http://nco.sf.net/nco.html#HDF4 --><a name="index-HDF4"></a>
+<a name="HDF4"></a> <!-- http://nco.sf.net/nco.html#HDF4 --><a name="index-H4CF"></a>
+<a name="index-h4tonccf"></a>
+<a name="index-ncl_005fconvert2nc"></a>
+<a name="index-HDF4"></a>
<a name="index-_002d_002dhdf4"></a>
<p>When linked to a netCDF library that was built with <acronym>HDF4</acronym>
support
@@ -1219,25 +1222,27 @@ ncks --hdf4 fl.hdf fl.nc # Convert HDF4->netCDF4 (NCO 4.3.7-4.3.9)
</pre></div>
<p>The most efficient and accurate way to convert <acronym>HDF4</acronym> data to
netCDF format is to convert to netCDF4 using <acronym>NCO</acronym> as above.
-It suffices when the data will only be processed by <acronym>NCO</acronym>, or
-other netCDF4-aware tools.
-However, many tools are not fully netCDF4-aware, and so conversion to
-netCDF3 may be desirable.
+Many <acronym>HDF4</acronym> producers (<acronym>NASA</acronym>!) love to use netCDF4
+types, e.g., unsigned bytes, so this procedure is the most typical.
+Conversion of <acronym>HDF4</acronym> to netCDF4 as above suffices when the data
+will only be processed by <acronym>NCO</acronym> and other netCDF4-aware tools.
</p>
-<p>Obtaining a netCDF3 file from an <acronym>HDF4</acronym> is now easy, even though
-the <acronym>HDF4</acronym> file may contain netCDF4 atomic types (e.g., unsigned
-bytes, 64-bit integers):
+<p>However, many tools are not fully netCDF4-aware, and so conversion to
+netCDF3 may be desirable.
+Obtaining a netCDF3 file from an <acronym>HDF4</acronym> is now easy:
</p><div class="example">
<pre class="example">ncks -3 fl.hdf fl.nc # HDF4->netCDF3 (NCO 4.4.0+, netCDF 4.3.1+)
-ncks -7 -L 1 fl.hdf fl.nc # HDF4->netCDF4 (NCO 4.4.0+, netCDF 4.3.1+)
+ncks -6 fl.hdf fl.nc # HDF4->netCDF3 64-bit (NCO 4.4.0+, ...)
+ncks -7 -L 1 fl.hdf fl.nc # HDF4->netCDF4 classic (NCO 4.4.0+, ...)
ncks --hdf4 -3 fl.hdf fl.nc # HDF4->netCDF3 (netCDF 4.3.0-)
+ncks --hdf4 -6 fl.hdf fl.nc # HDF4->netCDF3 64-bit (netCDF 4.3.0-)
ncks --hdf4 -7 fl.hdf fl.nc # HDF4->netCDF4 classic (netCDF 4.3.0-)
</pre></div>
<p>As of <acronym>NCO</acronym> version 4.4.0 (January, 2014), these commands work
-with netCDF4 atomic types
-<a name="DOCF9" href="#FOOT9"><sup>9</sup></a>.
-Many <acronym>HDF4</acronym> producers (<acronym>NASA</acronym>!) love to use netCDF4
-types, e.g., unsigned bytes.
+even when the <acronym>HDF4</acronym> file contains netCDF4 atomic types (e.g.,
+unsigned bytes, 64-bit integers) because <acronym>NCO</acronym> can autoconvert
+everything to atomic types supported by netCDF3
+<a name="DOCF9" href="#FOOT9"><sup>9</sup></a>.
</p>
<a name="index-RPM"></a>
<a name="index-Debian"></a>
@@ -3249,6 +3254,31 @@ the local machine) for the number-crunching to begin.
The advantages of this are obvious if you are examining small parts of
large files stored at remote locations.
</p>
+<p>Natually there are many versions of <acronym>OPeNDAP</acronym> servers supplying
+data and bugs in the server can appear to be bugs in <acronym>NCO</acronym>.
+However, with very few exceptions
+<a name="DOCF26" href="#FOOT26"><sup>26</sup></a> an <acronym>NCO</acronym> command that works
+on a local file must work across an <acronym>OPeNDAP</acronym> connection or else
+there is a bug in the server.
+This is because <acronym>NCO</acronym> does nothing special to handle files
+served by <acronym>OPeNDAP</acronym>, the whole process is (supposed to be)
+completely transparent to the client <acronym>NCO</acronym> software.
+Therefore it is often useful to try <acronym>NCO</acronym> commands on various
+<acronym>OPeNDAP</acronym> servers in order to isolate whether a problem may be
+due to a bug in the <acronym>OPeNDAP</acronym> server on a particular machine.
+For this purpose, one might try variations of the following commands
+that access files on public <acronym>OPeNDAP</acronym> servers:
+</p><div class="example">
+<pre class="example"># Strided access to HDF5 file
+ncks -v Time -d Time,0,10,2 http://eosdap.hdfgroup.uiuc.edu:8080/opendap/data/NASAFILES/hdf5/BUV-Nimbus04_L3zm_v01-00-2012m0203t144121.h5
+# Strided access to netCDF3 file
+ncks -O -D 1 -d time,1 -d lev,0 -d lat,0,100,10 -d lon,0,100,10 -v u_velocity http://nomads.ncep.noaa.gov:9090/dods/rtofs/rtofs_global20140303/rtofs_glo_2ds_forecast_daily_prog ~/foo.nc
+</pre></div>
+<p>These servers were operational at the time of writing, March 2014.
+Unfortunately, administrators often move or rename path directories.
+Recommendations for additional public <acronym>OPeNDAP</acronym> servers on
+which to test <acronym>NCO</acronym> are welcome.
+</p>
<a name="rtn"></a> <!-- http://nco.sf.net/nco.html#rtn --><hr>
<a name="Retaining-Retrieved-Files"></a>
<div class="header">
@@ -3347,6 +3377,7 @@ Next: <a href="#Large-File-Support" accesskey="n" rel="next">Large File Support<
<a name="index-_002d6"></a>
<a name="index-_002d7"></a>
<a name="index-_002d_002d4"></a>
+<a name="index-_002d_002d6"></a>
<a name="index-_002d_002d7"></a>
<a name="index-_002d_002dnetcdf4"></a>
<a name="index-_002d_002dfl_005ffmt"></a>
@@ -3357,7 +3388,7 @@ Next: <a href="#Large-File-Support" accesskey="n" rel="next">Large File Support<
<code>ncecat</code>, <code>ncflint</code>, <code>ncks</code>, <code>ncpdq</code>,
<code>ncra</code>, <code>ncrcat</code>, <code>ncwa</code><br>
Short options: ‘<samp>-3</samp>’, ‘<samp>-4</samp>’, ‘<samp>-6</samp>’, ‘<samp>-7</samp>’<br>
-Long options: ‘<samp>--3</samp>’, ‘<samp>--4</samp>’, ‘<samp>--64bit</samp>’, ‘<samp>--7</samp>’, ‘<samp>--fl_fmt</samp>’,
+Long options: ‘<samp>--3</samp>’, ‘<samp>--4</samp>’, ‘<samp>--6</samp>’, ‘<samp>--64bit</samp>’, ‘<samp>--7</samp>’, ‘<samp>--fl_fmt</samp>’,
‘<samp>--netcdf4</samp>’<br>
</p></td></tr></table>
<p>All <acronym>NCO</acronym> operators support (read and write) all three (or four,
@@ -3424,9 +3455,10 @@ workflows will utilize this format.
</p>
<p>As mentioned above, all operators write use the input file format for
output files unless told otherwise.
-Toggling the short option ‘<samp>-6</samp>’ or the long option ‘<samp>--64bit</samp>’
-switch (or its <var>key</var>-<var>value</var> equivalent ‘<samp>--fl_fmt=64bit</samp>’)
-produces the netCDF3 64-bit offset format named <code>64BIT</code>.
+Toggling the short option ‘<samp>-6</samp>’ or the long option ‘<samp>--6</samp>’ or
+‘<samp>--64bit</samp>’ (or their <var>key</var>-<var>value</var> equivalent
+‘<samp>--fl_fmt=64bit</samp>’) produces the netCDF3 64-bit offset format named
+<code>64BIT</code>.
<acronym>NCO</acronym> must be built with netCDF 3.6<!-- /@w --> or higher to produce
a <code>64BIT</code> file.
Using the ‘<samp>-4</samp>’ switch (or its long option equivalents
@@ -3435,7 +3467,7 @@ equivalent ‘<samp>--fl_fmt=netcdf4</samp>’ produces a <code>NETCDF4<
(i.e., with all supported <acronym>HDF5</acronym> features).
Using the ‘<samp>-7</samp>’ switch (or its long option equivalent
‘<samp>--7</samp>’
-<a name="DOCF26" href="#FOOT26"><sup>26</sup></a>, or
+<a name="DOCF27" href="#FOOT27"><sup>27</sup></a>, or
setting its <var>key</var>-<var>value</var> equivalent
‘<samp>--fl_fmt=netcdf4_classic</samp>’ produces a <code>NETCDF4_CLASSIC</code>
file (i.e., with all supported <acronym>HDF5</acronym> features like compression
@@ -3732,7 +3764,7 @@ modern netCDF interface.
<p>If you are still interested in explicit LFS support for netCDF versions
prior to 3.6<!-- /@w -->, know that LFS support depends on a complex,
interlocking set of operating system
-<a name="DOCF27" href="#FOOT27"><sup>27</sup></a>
+<a name="DOCF28" href="#FOOT28"><sup>28</sup></a>
and netCDF support issues.
The netCDF LFS
<a href="http://my.unidata.ucar.edu/content/software/netcdf/faq-lfs.html">FAQ</a>
@@ -3909,7 +3941,7 @@ The fifth command is a special case of the fourth command.
specified simultaneously and <acronym>NCO</acronym> will, by default, extract the
intersection of the lists, i.e., the specified variables found in the
specified groups
-<a name="DOCF28" href="#FOOT28"><sup>28</sup></a>.
+<a name="DOCF29" href="#FOOT29"><sup>29</sup></a>.
The ‘<samp>--unn</samp>’ option causes <acronym>NCO</acronym> to extract the
union, rather than the intersection, of the specified groups and
variables.
@@ -4374,7 +4406,7 @@ possible storage structure.
<pre class="example">ncks -O -G : -g cesm -3 ~/nco/data/cmip5.nc ~/cesm.nc # Extract /cesm to /
</pre></div>
<p>The <samp>-3</samp> switch
-<a name="DOCF29" href="#FOOT29"><sup>29</sup></a>
+<a name="DOCF30" href="#FOOT30"><sup>30</sup></a>
specifies the output dataset should be in netCDF3
format, the <samp>-G :</samp> option flattens all extracted groups, and the
<samp>-g cesm</samp> option extracts only the <code>cesm</code> group and leaves
@@ -4409,16 +4441,16 @@ directory <var>drc_out</var> specified by the second argument:
# Optional fourth argument cf_vrs is CF version to check
# Optional fifth argument opt passes straight through to ncks
# chmod a+x ~/sh/ncdismember
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp
-# ncdismember http://dust.ess.uci.edu/nco/mdl.nc /data/zender/nco/tmp
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp
+# ncdismember http://dust.ess.uci.edu/nco/mdl_1.nc /data/zender/nco/tmp
# ncdismember http://thredds-test.ucar.edu/thredds/dodsC/testdods/foo.nc /data/zender/nco/tmp
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf 1.3
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf 1.5 --fix_rec_dmn=all
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf 1.3
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf 1.5 --fix_rec_dmn=all
# Command line argument defaults
-fl_in="${HOME}/nco/data/mdl.nc" # [sng] Input file to dismember/check
+fl_in="${HOME}/nco/data/mdl_1.nc" # [sng] Input file to dismember/check
drc_out="${DATA}/nco/tmp" # [sng] Output directory
flg_cf='0' # [flg] Perform CF-compliance check
cf_vrs='1.5' # [sng] Compliance-check this CF version (e.g., '1.5')
@@ -4463,15 +4495,15 @@ EOF
chmod 755 ~/ncdismember # Make command executable
/bin/mv -f ~/ncdismember ~/sh # Store in location on $PATH, e.g., /usr/local/bin
-zender at roulee:~$ ncdismember ~/nco/data/mdl.nc ${DATA}/nco/tmp
-NCO dismembering file /home/zender/nco/data/mdl.nc
-/data/zender/nco/tmp/mdl.nc/cesm.cesm_01.nc
-/data/zender/nco/tmp/mdl.nc/cesm.cesm_02.nc
-/data/zender/nco/tmp/mdl.nc/cesm.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.ecmwf_01.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.ecmwf_02.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.nc
-/data/zender/nco/tmp/mdl.nc/root.nc
+zender at roulee:~$ ncdismember ~/nco/data/mdl_1.nc ${DATA}/nco/tmp
+NCO dismembering file /home/zender/nco/data/mdl_1.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.cesm_01.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.cesm_02.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.ecmwf_01.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.ecmwf_02.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.nc
+/data/zender/nco/tmp/mdl_1.nc/root.nc
</pre></div>
<p>A (potentially more portable) binary executable could be written to
dismember all groups with a single invocation, yet dismembering without
@@ -4502,11 +4534,11 @@ group in a file.
When invoked with the optional third argumnt ‘<samp>cf</samp>’,
<code>ncdismember</code> passes each file it generates to the freely
available
-<a name="DOCF30" href="#FOOT30"><sup>30</sup></a>
+<a name="DOCF31" href="#FOOT31"><sup>31</sup></a>
<code>cfchecker</code> command.
</p><div class="example">
-<pre class="verbatim">zender at roulee:~$ ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf
-NCO dismembering file /home/zender/nco/data/mdl.nc
+<pre class="verbatim">zender at roulee:~$ ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf
+NCO dismembering file /home/zender/nco/data/mdl_1.nc
CFchecker reports CF-compliance of each group in flat netCDF3 format
WARNING: Using the default (non-CF) Udunits database
cesm.cesm_01.nc:
@@ -4601,12 +4633,12 @@ LDFLAGS="-L${H5DIR}/lib -L${H4DIR}/lib" \
./configure --enable-hdf4 --enable-hdf4-file-tests
make && make check && make installas
-# 4. NCO version 4.4.2. No RPM for this version. Must install by hand.
+# 4. NCO version 4.4.3. No RPM for this version. Must install by hand.
# Earlier versions of NCO are relatively useless for ncdismember
cd ${DATA}/tmp
-wget http://nco.sourceforge.net/src/nco-4.4.2.tar.gz .
-tar xvzf nco-4.4.2.tar.gz
-cd nco-4.4.2
+wget http://nco.sourceforge.net/src/nco-4.4.3.tar.gz .
+tar xvzf nco-4.4.3.tar.gz
+cd nco-4.4.3
./configure --prefix=${NCODIR}
make && make install
@@ -4639,7 +4671,7 @@ sudo python setup.py install
mkdir -p ${DATA}/nco/tmp/hdf
# Many datasets work with a simpler command...
ncdismember ~/nco/data/in.nc ${DATA}/nco/tmp/hdf cf 1.5
-ncdismember ~/nco/data/mdl.nc ${DATA}/nco/tmp/hdf cf 1.5
+ncdismember ~/nco/data/mdl_1.nc ${DATA}/nco/tmp/hdf cf 1.5
ncdismember ${DATA}/hdf/AMSR_E_L2_Rain_V10_200905312326_A.hdf \
${DATA}/nco/tmp/hdf cf 1.5
ncdismember ${DATA}/hdf/BUV-Nimbus04_L3zm_v01-00-2012m0203t144121.h5 \
@@ -5071,7 +5103,7 @@ Or they may be thought of as groups of a specifed duration.
The feature and the terminology to describe it are new.
For now, we call this the <em>subcycle feature</em>, sometimes abbreviated
<acronym>SSC</acronym>
-<a name="DOCF31" href="#FOOT31"><sup>31</sup></a>.
+<a name="DOCF32" href="#FOOT32"><sup>32</sup></a>.
</p>
<p>The subcycle feature allows processing of groups of records
separated by regular intervals of records.
@@ -5954,7 +5986,7 @@ Supporting both of these attributes simultaneously is not practical.
Hence the behavior <acronym>NCO</acronym> once applied to <var>missing_value</var> it
now applies to any <var>_FillValue</var>.
<acronym>NCO</acronym> now treats any <var>missing_value</var> as normal data
-<a name="DOCF32" href="#FOOT32"><sup>32</sup></a>.
+<a name="DOCF33" href="#FOOT33"><sup>33</sup></a>.
</p>
<a name="index-ncrename"></a>
<a name="index-ncatted-3"></a>
@@ -5990,7 +6022,7 @@ treated as missing data.
If not, then <acronym>NCO</acronym> converts <var>_FillValue</var> from
<var>att_type</var> to <var>var_type</var> by using the implicit conversion rules
of C<!-- /@w -->, or, if <var>att_type</var> is <code>NC_CHAR</code>
-<a name="DOCF33" href="#FOOT33"><sup>33</sup></a>, by typecasting the results of the C function<!-- /@w -->
+<a name="DOCF34" href="#FOOT34"><sup>34</sup></a>, by typecasting the results of the C function<!-- /@w -->
<code>strtod(<var>_FillValue</var>)</code>.
<a name="index-ncatted-1"></a>
You may use the <acronym>NCO</acronym> operator <code>ncatted</code> to change the
@@ -6564,7 +6596,7 @@ invoke to read and write files.
By default, netCDF uses the preferred I/O block size returned as the
‘<samp>st_blksize</samp>’ member of the ‘<samp>stat</samp>’ structure returned by the
<code>stat()</code> system call
-<a name="DOCF34" href="#FOOT34"><sup>34</sup></a>.
+<a name="DOCF35" href="#FOOT35"><sup>35</sup></a>.
Otherwise, netCDF uses twice the system pagesize.
Larger sizes can increase access speed by reducing the number of
system calls netCDF makes to read/write data from/to disk.
@@ -6755,7 +6787,7 @@ The packed variable is stored (usually) as type <code>NC_SHORT</code>
with the two attributes required to unpack the variable,
<code>scale_factor</code> and <code>add_offset</code>, stored at the original
(unpacked) precision of the variable
-<a name="DOCF35" href="#FOOT35"><sup>35</sup></a>.
+<a name="DOCF36" href="#FOOT36"><sup>36</sup></a>.
Let <var>min</var> and <var>max</var> be the minimum and maximum values
of <var>x</var>.<!-- /@w -->
</p><br>
@@ -7200,14 +7232,14 @@ A straightforward average without promotion results in garbage since the
intermediate value which holds their sum is also of type <code>NC_SHORT</code>
and thus overflows on (i.e., cannot represent) values greater than
32,767
-<a name="DOCF36" href="#FOOT36"><sup>36</sup></a>.
+<a name="DOCF37" href="#FOOT37"><sup>37</sup></a>.
There are valid reasons for expecting this operation to succeed and
the <acronym>NCO</acronym> philosophy is to make operators do what you want, not
what is purest.
Thus, unlike C and Fortran, but like many other higher level interpreted
languages, <acronym>NCO</acronym> arithmetic operators will perform automatic type
conversion on integers when all the following conditions are met
-<a name="DOCF37" href="#FOOT37"><sup>37</sup></a>:
+<a name="DOCF38" href="#FOOT38"><sup>38</sup></a>:
</p><ol>
<li> The requested operation is arithmetic.
This is why type conversion is limited to the operators <code>ncap2</code>,
@@ -7257,7 +7289,7 @@ variables’ original storage type (e.g., from <code>NC_DOUBLE</code> to
<acronym>NCO</acronym> has handled this demotion in three ways in its history.
Prior to October, 2011 (version 4.0.8), <acronym>NCO</acronym> employed the
C library<!-- /@w --> truncate function, <code>trunc()</code>
-<a name="DOCF38" href="#FOOT38"><sup>38</sup></a>.
+<a name="DOCF39" href="#FOOT39"><sup>39</sup></a>.
Truncation rounds <var>x</var> to the nearest integer not larger in absolute
value.
For example, truncation rounds <code>1.0d</code>, <code>1.5d</code>, and
@@ -7330,10 +7362,10 @@ Single-precision (four-byte) numbers contain about seven significant
figures, while double-precision contain about sixteen.
More, err, precisely, the <acronym>IEEE</acronym> single-precision representation
gives from 6 to 9<!-- /@w --> significant decimal digits precision
-<a name="DOCF39" href="#FOOT39"><sup>39</sup></a>.
+<a name="DOCF40" href="#FOOT40"><sup>40</sup></a>.
And the <acronym>IEEE</acronym> double-precision representation
gives from 15 to 17<!-- /@w --> significant decimal digits precision
-<a name="DOCF40" href="#FOOT40"><sup>40</sup></a>.
+<a name="DOCF41" href="#FOOT41"><sup>41</sup></a>.
Hence double-precision numbers represent about nine digits more
precision than single-precision numbers.
</p>
@@ -7368,7 +7400,7 @@ our judgement, the performance penalty of always doing so would outweigh
the potential benefits.
The now-classic text “Numerical Recipes in C<!-- /@w -->” discusses this point
under the section “Implicit Conversion of Float to Double”
-<a name="DOCF41" href="#FOOT41"><sup>41</sup></a>.
+<a name="DOCF42" href="#FOOT42"><sup>42</sup></a>.
That said, such promotion is warranted in some circumstances.
</p>
<p>For example, rounding errors can accumulate to worrisome levels during
@@ -7400,7 +7432,7 @@ In Method 1<!-- /@w --> we derive the 15-year ensemble January average in t
steps, as the average of three five-year averages.
This method is naturally used when each input file contains multiple
years and multiple input files are needed
-<a name="DOCF42" href="#FOOT42"><sup>42</sup></a>.
+<a name="DOCF43" href="#FOOT43"><sup>43</sup></a>.
In Method 2<!-- /@w --> we obtain 15-year ensemble January average in a single
step, by averaging all 15 Januaries at one time:
</p><div class="example">
@@ -7593,7 +7625,7 @@ Thus about 50,000 single-precision floating point operations caused
the loss of two to three significant digits of precision.
The net error of a series of independent rounding errors is a random
walk phenomena
-<a name="DOCF43" href="#FOOT43"><sup>43</sup></a>.
+<a name="DOCF44" href="#FOOT44"><sup>44</sup></a>.
Successive rounding errors displace the answer further from the truth.
An ensemble of such averages will, on average, have no net bias.
In other words, the expectation value of a series of <acronym>IEEE</acronym>
@@ -7909,10 +7941,10 @@ Skip this section if you never work with <acronym>CF</acronym> metadata.
<p>The <acronym>CF</acronym> netCDF conventions are described
<a href="http://cf-pcmdi.llnl.gov/documents/cf-conventions/1.6/cf-conventions.html#coordinate-system">here</a>.
Most <acronym>CF</acronym> netCDF conventions are transparent to <acronym>NCO</acronym>
-<a name="DOCF44" href="#FOOT44"><sup>44</sup></a>.
+<a name="DOCF45" href="#FOOT45"><sup>45</sup></a>.
There are no known pitfalls associated with using any <acronym>NCO</acronym>
operator on files adhering to these conventions
-<a name="DOCF45" href="#FOOT45"><sup>45</sup></a>.
+<a name="DOCF46" href="#FOOT46"><sup>46</sup></a>.
However, to facilitate maximum user friendliness, <acronym>NCO</acronym> applies
special rules to certain variables in <acronym>CF</acronym> files.
The special functions are not required by the <acronym>CF</acronym> netCDF
@@ -8225,7 +8257,7 @@ in-depth examples of <code>ncap2</code> solutions to complex problems.
<p>DESCRIPTION
</p>
<p><code>ncap2</code> arithmetically processes netCDF files
-<a name="DOCF46" href="#FOOT46"><sup>46</sup></a>.
+<a name="DOCF47" href="#FOOT47"><sup>47</sup></a>.
<a name="index-script-file"></a>
<a name="index-_002d_002dscript_002dfile"></a>
<a name="index-_002d_002dfl_005fspt"></a>
@@ -10308,7 +10340,7 @@ build, use <code>ncap2 -f | grep ^gsl</code>.
The <acronym>NCO</acronym> wrappers for <acronym>GSL</acronym> functions automatically
call the error-handling version of the <acronym>GSL</acronym> function when
available
-<a name="DOCF47" href="#FOOT47"><sup>47</sup></a>.
+<a name="DOCF48" href="#FOOT48"><sup>48</sup></a>.
This allows <acronym>NCO</acronym> to return a missing value when the
<acronym>GSL</acronym> library encounters a domain error or a floating point
exception.
@@ -11547,7 +11579,7 @@ and are indicated with an asterisk
<a name="index-double_002dprecision"></a>
<a name="index-long-double"></a>
<a name="index-NC_005fDOUBLE"></a>
-<a name="DOCF48" href="#FOOT48"><sup>48</sup></a>.
+<a name="DOCF49" href="#FOOT49"><sup>49</sup></a>.
and are indicated with an asterisk.
<a name="index-_002df"></a>
<a name="index-_002d_002dprn_005ffnc_005ftbl"></a>
@@ -11555,7 +11587,7 @@ and are indicated with an asterisk.
Use the ‘<samp>-f</samp>’ (or ‘<samp>fnc_tbl</samp>’ or ‘<samp>prn_fnc_tbl</samp>’) switch
to print a complete list of functions supported on your platform.
<a name="index-Linux"></a>
-<a name="DOCF49" href="#FOOT49"><sup>49</sup></a>
+<a name="DOCF50" href="#FOOT50"><sup>50</sup></a>
</p>
<a name="xmp_ncap"></a> <!-- http://nco.sf.net/nco.html#xmp_ncap -->
<a name="xmp_ncap2"></a> <!-- http://nco.sf.net/nco.html#xmp_ncap2 -->
@@ -12251,11 +12283,11 @@ Examples: ‘<samp>ncbo --op_typ=/ 1.nc 2.nc 3.nc</samp>’, ‘<sam
i.e., ‘<samp>+</samp>’, ‘<samp>-</samp>’, ‘<samp>*</samp>’, and ‘<samp>/</samp>’<!-- /@w -->.
Some of these single characters may have special meanings to the shell
<a name="index-naked-characters"></a>
-<a name="DOCF50" href="#FOOT50"><sup>50</sup></a>.
+<a name="DOCF51" href="#FOOT51"><sup>51</sup></a>.
<a name="index-Bash-shell"></a>
Place these characters inside quotes to keep them from being interpreted
(globbed) by the shell
-<a name="DOCF51" href="#FOOT51"><sup>51</sup></a>.
+<a name="DOCF52" href="#FOOT52"><sup>52</sup></a>.
<a name="index-globbing-4"></a>
<a name="index-shell-4"></a>
<a name="index-quotes-2"></a>
@@ -12300,12 +12332,12 @@ Should users or system adminitrators decide to activate them, the
procedure is simple.
For example, to use ‘<samp>ncadd</samp>’ instead of ‘<samp>ncbo --op_typ=add</samp>’,
simply create a symbolic link from <code>ncbo</code> to <code>ncadd</code>
-<a name="DOCF52" href="#FOOT52"><sup>52</sup></a>.
+<a name="DOCF53" href="#FOOT53"><sup>53</sup></a>.
The alternatate invocations supported for each operation type are listed
above.
Alternatively, users may always define ‘<samp>ncadd</samp>’ as an <em>alias</em> to
‘<samp>ncbo --op_typ=add</samp>’
-<a name="DOCF53" href="#FOOT53"><sup>53</sup></a>.
+<a name="DOCF54" href="#FOOT54"><sup>54</sup></a>.
</p>
<p>It is important to maintain portability in <acronym>NCO</acronym> scripts.
Therefore we recommend that site-specfic invocations (e.g.,
@@ -12323,7 +12355,7 @@ stores the results in <var>file_3</var>.
<a name="index-broadcasting-variables-2"></a>
Variables in <var>file_1</var> or <var>file_2</var> are <em>broadcast</em> to conform
to the corresponding variable in the other input file if
-necessary<a name="DOCF54" href="#FOOT54"><sup>54</sup></a>.
+necessary<a name="DOCF55" href="#FOOT55"><sup>55</sup></a>.
Now <code>ncbo</code> is completely symmetric with respect to <var>file_1</var>
and <var>file_2</var>, i.e.,
<em><var>file_1</var> - <var>file_2</var> = - (<var>file_2</var> - <var>file_1</var></em>.
@@ -12359,7 +12391,7 @@ dimension of size 1<!-- /@w --> rather than having no <code>time</code> dim
all
<a name="index-degenerate-dimension-3"></a>
<a name="index-_002db-1"></a>
-<a name="DOCF55" href="#FOOT55"><sup>55</sup></a>.
+<a name="DOCF56" href="#FOOT56"><sup>56</sup></a>.
In this case the input files to <code>ncbo</code>, <var>file_1</var> and
<var>file_2</var>, will have unequally sized <code>time</code> dimensions which
causes <code>ncbo</code> to fail.
@@ -12383,6 +12415,7 @@ Finally, we note that <code>ncflint</code> (see <a href="#ncflint-netCDF-File-In
As such, it also performs file subtraction, addition, multiplication,
albeit in a more convoluted way than <code>ncbo</code>.
</p>
+<a name="grp_brd"></a> <!-- http://nco.sf.net/nco.html#grp_brd -->
<a name="brd_grp"></a> <!-- http://nco.sf.net/nco.html#brd_grp -->
<a name="gb"></a> <!-- http://nco.sf.net/nco.html#gb -->
<a name="GB"></a> <!-- http://nco.sf.net/nco.html#GB --><a name="index-broadcasting-groups-1"></a>
@@ -12569,7 +12602,7 @@ input groups within each file.
Each file (or group) receives an equal weight.
<code>nces</code> was formerly (until <acronym>NCO</acronym> version 4.3.9,
released December, 2013) known as <code>ncea</code> (netCDF Ensemble
-Averager)<a name="DOCF56" href="#FOOT56"><sup>56</sup></a>.
+Averager)<a name="DOCF57" href="#FOOT57"><sup>57</sup></a>.
<a name="index-ensemble-1"></a>
For example, <code>nces</code> will average a set of files or groups,
weighting each file or group evenly.
@@ -12591,7 +12624,7 @@ is the operator to use.
<p>Variables in the <var>output-file</var> are the same size as the variable
hyperslab in each input file or group, and each input file or group
must be the same size after hyperslabbing
-<a name="DOCF57" href="#FOOT57"><sup>57</sup></a>
+<a name="DOCF58" href="#FOOT58"><sup>58</sup></a>
<a name="index-record-dimension-3"></a>
<a name="index-hyperslab-2"></a>
<code>nces</code> does allow files to differ in the record dimension size
@@ -13305,7 +13338,7 @@ if any) must agree (conform) in both files.
Then the variable values (and any coordinate dimension values)
from <var>input-file</var> will overwrite the corresponding variable values
(and coordinate dimension values, if any) in <var>output-file</var>
-<a name="DOCF58" href="#FOOT58"><sup>58</sup></a>.
+<a name="DOCF59" href="#FOOT59"><sup>59</sup></a>.
</p>
<p>Since there can only be one record dimension in a file, the record
dimension must have the same name (though not necessarily the same size) in
@@ -13489,7 +13522,7 @@ into an <acronym>HDF</acronym> file:
<pre class="example">/usr/hdf4/bin/ncgen -b -o ~/in.hdf ~/in.cdl # HDF ncgen (local builds)
/usr/bin/hncgen -b -o ~/in.hdf ~/in.cdl # Same as HDF ncgen (RPM packages?)
/usr/bin/ncgen-hdf -b -o ~/in.hdf ~/in.cdl # Same as HDF ncgen (Debian packages?)
-hdp dumpsds ~/in.hdf # ncdump-equivalent for HDF4 files
+hdp dumpsds ~/in.hdf # ncdump/h5dump-equivalent for HDF4
</pre></div>
<p>Note that <acronym>HDF4</acronym> does not support netCDF-style groups, so the
above commands fail when the input file contains groups.
@@ -14441,7 +14474,7 @@ The record dimension is always the most slowly varying dimension in a
record variable (see <a href="#C-and-Fortran-Index-Conventions">C and Fortran Index Conventions</a>).
The specified re-ordering fails if it requires creating more than
one record dimension amongst all the output variables
-<a name="DOCF59" href="#FOOT59"><sup>59</sup></a>.
+<a name="DOCF60" href="#FOOT60"><sup>60</sup></a>.
</p>
<p>Two special cases of dimension re-ordering and reversal deserve special
mention.
@@ -14497,7 +14530,7 @@ and using the append feature with ‘<samp>-A</samp>’ (see <a href="#A
<p>Users may wish to unpack data packed with the <acronym>HDF</acronym> convention,
and then re-pack it with the netCDF convention so that all their
datasets use the same packing convention prior to intercomparison.
-<a name="index-ncl_005fconvert2nc"></a>
+<a name="index-ncl_005fconvert2nc-1"></a>
<a name="index-NCL-1"></a>
</p><div class="example">
<pre class="example"># One-step procedure: For NCO 4.4.0+, netCDF 4.3.1+
@@ -14517,7 +14550,7 @@ ncl_convert2nc modis.hdf
ncpdq --hdf_upk -P xst_new modis.nc modis.nc
</pre></div>
<p><acronym>NCO</acronym> now
-<a name="DOCF60" href="#FOOT60"><sup>60</sup></a>
+<a name="DOCF61" href="#FOOT61"><sup>61</sup></a>
automatically detects <acronym>HDF4</acronym> files.
In this case it produces an output file <samp>modis.nc</samp> which preserves
the <acronym>HDF</acronym> packing used in the input file.
@@ -14528,7 +14561,7 @@ and then repacks those same variables using the netCDF algorithm
As described above the ‘<samp>--P xst_new</samp>’ packing policy only repacks
variables that are already packed.
Not-packed variables are copied directly without loss of precision
-<a name="DOCF61" href="#FOOT61"><sup>61</sup></a>.
+<a name="DOCF62" href="#FOOT62"><sup>62</sup></a>.
</p>
<p>Re-order file <samp>in.nc</samp> so that the dimension <code>lon</code> always
precedes the dimension <code>lat</code> and store the results in
@@ -15282,7 +15315,7 @@ of the hyperslab.
<a name="index-_002dI"></a>
Option ‘<samp>-I</samp>’ overrides this default behavior and causes
<code>ncwa</code> not to weight or mask coordinate variables
-<a name="DOCF62" href="#FOOT62"><sup>62</sup></a>.
+<a name="DOCF63" href="#FOOT63"><sup>63</sup></a>.
In the above case, this causes the value of <code>latitude</code> in the
<var>output-file</var> to be 45.0<!-- /@w -->, an appealing result.
Thus, ‘<samp>-I</samp>’ specifies simple arithmetic averages for the coordinate
@@ -15290,7 +15323,7 @@ variables.
In the case of latitude, ‘<samp>-I</samp>’ specifies that you prefer to archive
the arithmetic mean latitude of the averaged hyperslabs rather than the
area-weighted mean latitude.
-<a name="DOCF63" href="#FOOT63"><sup>63</sup></a>.
+<a name="DOCF64" href="#FOOT64"><sup>64</sup></a>.
</p>
<a name="index-average-1"></a>
<a name="index-operation-types-2"></a>
@@ -15334,7 +15367,7 @@ the ‘<samp>-B</samp>’ or ‘<samp>--mask_condition</samp>’
The older method is to use the three switches ‘<samp>-m</samp>’, ‘<samp>-T</samp>’, and
‘<samp>-M</samp>’ to specify the <var>mask_var</var>, <var>mask_comp</var>, and
<var>mask_val</var>, respectively.
-<a name="DOCF64" href="#FOOT64"><sup>64</sup></a>.
+<a name="DOCF65" href="#FOOT65"><sup>65</sup></a>.
The <var>mask_condition</var> string is automatically parsed into its three
constituents <var>mask_var</var>, <var>mask_comp</var>, and <var>mask_val</var>.
</p>
@@ -15464,7 +15497,7 @@ for the <samp>85_0112.nc</samp> file described by the sample header above.
<a name="index-climate-model-5"></a>
<p>Compute the meridional (latitudinal) mean, with values weighted by
the corresponding element of <var>gw</var>
-<a name="DOCF65" href="#FOOT65"><sup>65</sup></a>:
+<a name="DOCF66" href="#FOOT66"><sup>66</sup></a>:
</p><div class="example">
<pre class="example">ncwa -w gw -a lat in.nc out.nc
</pre></div>
@@ -15482,7 +15515,7 @@ The sum of the Gaussian weights is 2.0.<!-- /@w -->
<a name="index-climate-model-6"></a>
<p>Compute the area-mean over the globe using only points for which
<var>ORO</var> < 0.5
-<a name="DOCF66" href="#FOOT66"><sup>66</sup></a>:
+<a name="DOCF67" href="#FOOT67"><sup>67</sup></a>:
</p><div class="example">
<pre class="example">ncwa -B 'ORO < 0.5' -w gw -a lat,lon in.nc out.nc
ncwa -m ORO -M 0.5 -T lt -w gw -a lat,lon in.nc out.nc
@@ -15490,7 +15523,7 @@ ncwa -m ORO -M 0.5 -T lt -w gw -a lat,lon in.nc out.nc
<p>It is considerably simpler to specify the complete <var>mask_cond</var> with
the single string argument to ‘<samp>-B</samp>’ than with the three separate
switches ‘<samp>-m</samp>’, ‘<samp>-T</samp>’, and ‘<samp>-M</samp>’
-<a name="DOCF67" href="#FOOT67"><sup>67</sup></a>.
+<a name="DOCF68" href="#FOOT68"><sup>68</sup></a>.
If in doubt, enclose the <var>mask_cond</var> within quotes since some
of the comparators have special meanings to the shell.
</p>
@@ -15557,7 +15590,7 @@ contains more information on how to contribute.
<a href="https://www.paypal.com/xclick/business=zender%40uci.edu&item_name=NCO+development&item_number=nco_dnt_dvl&no_note=1&tax=0¤cy_code=USD">PayPal</a>.
<acronym>NCO</acronym> has been shared for over 10 years<!-- /@w --> yet only two
users have contributed any money to the developers
-<a name="DOCF68" href="#FOOT68"><sup>68</sup></a>.
+<a name="DOCF69" href="#FOOT69"><sup>69</sup></a>.
So you could be the third!
</p>
<a name="dvl"></a> <!-- http://nco.sf.net/nco.html#dvl -->
@@ -15607,7 +15640,7 @@ acknowledged separately below.
<dd><a name="index-Charlie-Zender-1"></a>
</dd>
<dt>Charlie Zender</dt>
-<dd><p>All concept, design and implementation from 1995-2000.
+<dd><p>All concept, design and implementation from 1995–2000.
Since then autotools, bug-squashing, <acronym>CDL</acronym>, chunking,
documentation, anchoring, recursion, <acronym>GPE</acronym>, packing,
<acronym>NCO</acronym> library redesign, <code>ncap2</code> features,
@@ -15634,11 +15667,15 @@ Long command-line options.
Original UDUnits support.
Debianization.
Numerous bug-fixes.
+<a name="index-Joe-Hamman"></a>
+</p></dd>
+<dt>Joe Hamman</dt>
+<dd><p>Python bindings (NCOpy).
<a name="index-Daniel-Wang"></a>
</p></dd>
<dt>Daniel Wang</dt>
-<dd><p>Script Workflow Analysis for MultiProcessing (SWAMP).
-RPM support.
+<dd><p>Script Workflow Analysis for MultiProcessing (<acronym>SWAMP</acronym>).
+<acronym>RPM</acronym> support.
<a name="index-Harry-Mangalam"></a>
</p></dd>
<dt>Harry Mangalam</dt>
@@ -16379,7 +16416,7 @@ done
</pre></div>
<p>With the use of <tt class="key">group</tt>, the above script
-will be shortened to just TWO LINES<!-- /@w -->.
+will be shortened to just ONE LINE<!-- /@w -->.
<a name="index-groups_002c-averaging"></a>
</p><div class="example">
<pre class="example"># Data from cmb_fl_grp.sh
@@ -16387,8 +16424,6 @@ will be shortened to just TWO LINES<!-- /@w -->.
nces -O --nsm_grp --nsm_sfx='_avg' \
sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512.nc \
sn_LImon_all-mdl_all-xpt_nsm-avg.nc
-ncra -O -g 'avg$' sn_LImon_all-mdl_all-xpt_nsm-avg.nc \
- sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc
</pre></div>
<p>The input file, <samp>sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512.nc</samp>, produced by <samp>cmb_fl_grp.sh</samp>,
includes all the ensemble members as groups.
@@ -16396,12 +16431,12 @@ The option ‘<samp>--nsm_grp</samp>’ denotes
that we are using <a href="http://nco.sf.net/nco.html#nsm_grp">group ensembles mode</a> of <code>nces</code>,
instead of <a href="http://nco.sf.net/nco.html#nsm_fl">file ensembles mode</a>, ‘<samp>--nsm_fl</samp>’.
The option ‘<samp>--nsm_sfx='_avg'</samp>’ instructs <code>nces</code>
-to store the output as a new child group <samp>/[model]/[model name]_avg</samp>,
-instead of in the parent group <samp>/[model]</samp>.
+to store the output as a new child group <samp>/[model]/[model name]_avg/var</samp>;
+otherwise, the output will be stored directly in the parent group <samp>/[model]/var</samp>.
In the final output file, <samp>sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc</samp>,
sub-groups with a suffix of ‘avg’ are the long-term averages of each model.
-Here, ‘<samp>-g 'avg$'</samp>’ is used to retrieve groups having ’avg’ at the end of their names,
-i.e., the long-term average groups.
+One thing to notice is that for now,
+ensembles with only one ensemble member will be left untouched.
</p>
<hr>
<a name="Annual-Average-over-Regions"></a>
@@ -16871,11 +16906,11 @@ the script will be shortened.
drc='../data/grp/'
# Constants
-pfx='sn_LImon_all-mdl_all-xpt_all-nsm_200001-20051'
+pfx='sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512'
# Greenland
ncwa -O -w gw -d lat,60.0,75.0 -d lon,300.0,340.0 -a lat,lon \
- ${drc}${pfx}.nc ${drc}${pfx}_grl
+ ${drc}${pfx}.nc ${drc}${pfx}_grl.nc
# Anomaly from annual average of each year
for yyyy in {2000..2005}; do
@@ -17680,6 +17715,7 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-_002d-_0028subtraction_0029"><code>-</code> (subtraction)</a>:</td><td> </td><td valign="top"><a href="#Intrinsic-mathematical-methods">Intrinsic mathematical methods</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002d3"><code>--3</code></a>:</td><td> </td><td valign="top"><a href="#File-Formats-and-Conversion">File Formats and Conversion</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002d4"><code>--4</code></a>:</td><td> </td><td valign="top"><a href="#File-Formats-and-Conversion">File Formats and Conversion</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-_002d_002d6"><code>--6</code></a>:</td><td> </td><td valign="top"><a href="#File-Formats-and-Conversion">File Formats and Conversion</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002d64bit"><code>--64bit</code></a>:</td><td> </td><td valign="top"><a href="#File-Formats-and-Conversion">File Formats and Conversion</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002d7"><code>--7</code></a>:</td><td> </td><td valign="top"><a href="#File-Formats-and-Conversion">File Formats and Conversion</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dabc"><code>--abc</code></a>:</td><td> </td><td valign="top"><a href="#ncks-netCDF-Kitchen-Sink">ncks netCDF Kitchen Sink</a></td></tr>
@@ -18620,6 +18656,8 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-gw-1"><code>gw</code></a>:</td><td> </td><td valign="top"><a href="#Normalization-and-Integration">Normalization and Integration</a></td></tr>
<tr><td colspan="4"> <hr></td></tr>
<tr><th><a name="General-Index_cp_letter-H">H</a></th><td></td><td></td></tr>
+<tr><td></td><td valign="top"><a href="#index-H4CF"><acronym>H4CF</acronym></a>:</td><td> </td><td valign="top"><a href="#netCDF2_002f3_002f4-and-HDF4_002f5-Support">netCDF2/3/4 and HDF4/5 Support</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-h4tonccf"><code>h4tonccf</code></a>:</td><td> </td><td valign="top"><a href="#netCDF2_002f3_002f4-and-HDF4_002f5-Support">netCDF2/3/4 and HDF4/5 Support</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Harry-Mangalam">Harry Mangalam</a>:</td><td> </td><td valign="top"><a href="#Contributors">Contributors</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-hash">hash</a>:</td><td> </td><td valign="top"><a href="#MD5-digests">MD5 digests</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-HDF"><acronym>HDF</acronym></a>:</td><td> </td><td valign="top"><a href="#netCDF2_002f3_002f4-and-HDF4_002f5-Support">netCDF2/3/4 and HDF4/5 Support</a></td></tr>
@@ -18721,6 +18759,7 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><th><a name="General-Index_cp_letter-J">J</a></th><td></td><td></td></tr>
<tr><td></td><td valign="top"><a href="#index-James-Gallagher">James Gallagher</a>:</td><td> </td><td valign="top"><a href="#Contributors">Contributors</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Jim-Edwards">Jim Edwards</a>:</td><td> </td><td valign="top"><a href="#Contributors">Contributors</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-Joe-Hamman">Joe Hamman</a>:</td><td> </td><td valign="top"><a href="#Contributors">Contributors</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-John-Caron">John Caron</a>:</td><td> </td><td valign="top"><a href="#Contributors">Contributors</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Juliana-Rew">Juliana Rew</a>:</td><td> </td><td valign="top"><a href="#Contributors">Contributors</a></td></tr>
<tr><td colspan="4"> <hr></td></tr>
@@ -18928,7 +18967,8 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-NCL"><acronym>NCL</acronym></a>:</td><td> </td><td valign="top"><a href="#Philosophy">Philosophy</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-NCL-1"><acronym>NCL</acronym></a>:</td><td> </td><td valign="top"><a href="#ncpdq-netCDF-Permute-Dimensions-Quickly">ncpdq netCDF Permute Dimensions Quickly</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-nclist"><code>nclist</code></a>:</td><td> </td><td valign="top"><a href="#Filters-for-ncks">Filters for <code>ncks</code></a></td></tr>
-<tr><td></td><td valign="top"><a href="#index-ncl_005fconvert2nc"><code>ncl_convert2nc</code></a>:</td><td> </td><td valign="top"><a href="#ncpdq-netCDF-Permute-Dimensions-Quickly">ncpdq netCDF Permute Dimensions Quickly</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-ncl_005fconvert2nc"><code>ncl_convert2nc</code></a>:</td><td> </td><td valign="top"><a href="#netCDF2_002f3_002f4-and-HDF4_002f5-Support">netCDF2/3/4 and HDF4/5 Support</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-ncl_005fconvert2nc-1"><code>ncl_convert2nc</code></a>:</td><td> </td><td valign="top"><a href="#ncpdq-netCDF-Permute-Dimensions-Quickly">ncpdq netCDF Permute Dimensions Quickly</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-ncmax"><code>ncmax</code></a>:</td><td> </td><td valign="top"><a href="#Filters-for-ncks">Filters for <code>ncks</code></a></td></tr>
<tr><td></td><td valign="top"><a href="#index-ncmdn"><code>ncmdn</code></a>:</td><td> </td><td valign="top"><a href="#Filters-for-ncks">Filters for <code>ncks</code></a></td></tr>
<tr><td></td><td valign="top"><a href="#index-ncmin"><code>ncmin</code></a>:</td><td> </td><td valign="top"><a href="#Filters-for-ncks">Filters for <code>ncks</code></a></td></tr>
@@ -19706,7 +19746,14 @@ Unsigned bytes stay unsigned bytes.
64-bit integers stay 64-bit integers.
Strings stay strings.
Hence, <code>ncks</code> conversions often result in smaller files than
-<code>ncl_convert2nc</code> conversions.</p>
+<code>ncl_convert2nc</code> conversions.
+Finally, in February 2014, we learned that the <acronym>HDF</acronym> group
+has a project called <acronym>H4CF</acronym> whose goal is to make <acronym>HDF4</acronym>
+files accessible to <acronym>CF</acronym> tools and conventions.
+Their project includes a tool named <code>h4tonccf</code> that converts
+<acronym>HDF4</acronym> files to netCDF3 or netCDF4 files.
+We know of no features in <code>h4tonccf</code> that are not in
+<acronym>NCO</acronym>. Corrections welcome.</p>
<h3><a name="FOOT10" href="#DOCF10">(10)</a></h3>
<p>The <code>ncrename</code> and <code>ncatted</code> operators are
exceptions to this rule.
@@ -19827,61 +19874,68 @@ If you know more about this, please consider writing a section
on "<acronym>OPeNDAP</acronym> Capabilities of Interest to <acronym>NCO</acronym> Users"
for incorporation in the <cite>NCO User Guide</cite>.</p>
<h3><a name="FOOT26" href="#DOCF26">(26)</a></h3>
+<p>For example, <acronym>DAP</acronym> servers do not like variables with
+periods (“.”) in their names even though this is perfectly legal with
+netCDF.
+Such names may cause the <acronym>DAP</acronym> service to fail because
+<acronym>DAP</acronym> interprets the period as structure delimiter in an
+<acronym>HTTP</acronym> query string.</p>
+<h3><a name="FOOT27" href="#DOCF27">(27)</a></h3>
<p>The reason (and mnemonic) for ‘<samp>-7</samp>’ is that <code>NETCDF4_CLASSIC</code>
files include great features of both netCDF3 (compatibility) and
netCDF4 (compression, chunking) and, well, <em>3+4=7</em>.</p>
-<h3><a name="FOOT27" href="#DOCF27">(27)</a></h3>
-<p>Linux and <acronym>AIX</acronym> do support <acronym>LFS</acronym>.</p>
<h3><a name="FOOT28" href="#DOCF28">(28)</a></h3>
+<p>Linux and <acronym>AIX</acronym> do support <acronym>LFS</acronym>.</p>
+<h3><a name="FOOT29" href="#DOCF29">(29)</a></h3>
<p>Intersection-mode can also be explicitly invoked with the ‘<samp>--nsx</samp>’
or ‘<samp>--intersection</samp>’ switches.
These switches are supplied for clarity and consistency and do
absolutely nothing since intersection-mode is the default.</p>
-<h3><a name="FOOT29" href="#DOCF29">(29)</a></h3>
+<h3><a name="FOOT30" href="#DOCF30">(30)</a></h3>
<p>Note that the <samp>-3</samp> switch should appear <em>after</em> the
<samp>-G</samp> and <samp>-g</samp> switches.
This is due to an artifact of the <acronym>GPE</acronym> implementation which we
wish to remove in the future.</p>
-<h3><a name="FOOT30" href="#DOCF30">(30)</a></h3>
+<h3><a name="FOOT31" href="#DOCF31">(31)</a></h3>
<p>CFchecker is developed by Michael Decker and Martin Schultz at
Forschungszentrum Jülich and distributed at
<a href="https://bitbucket.org/mde_/cfchecker">https://bitbucket.org/mde_/cfchecker</a>.</p>
-<h3><a name="FOOT31" href="#DOCF31">(31)</a></h3>
+<h3><a name="FOOT32" href="#DOCF32">(32)</a></h3>
<p>When originally released in 2012 this was called the
<em>duration feature</em>, and was abbreviated <acronym>DRN</acronym>.</p>
-<h3><a name="FOOT32" href="#DOCF32">(32)</a></h3>
+<h3><a name="FOOT33" href="#DOCF33">(33)</a></h3>
<p>The old functionality, i.e., where the ignored values are indicated by
<code>missing_value</code> not <code>_FillValue</code>, may still be selected
<em>at <acronym>NCO</acronym> build time</em> by compiling <acronym>NCO</acronym>
with the token definition
<kbd>CPPFLAGS='-UNCO_USE_FILL_VALUE'</kbd>.
</p>
-<h3><a name="FOOT33" href="#DOCF33">(33)</a></h3>
+<h3><a name="FOOT34" href="#DOCF34">(34)</a></h3>
<p>For example, the <acronym>DOE</acronym> <acronym>ARM</acronym> program often
uses <var>att_type</var> = <code>NC_CHAR</code> and <var>_FillValue</var> =
‘<samp>-99999.</samp>’.
</p>
-<h3><a name="FOOT34" href="#DOCF34">(34)</a></h3>
+<h3><a name="FOOT35" href="#DOCF35">(35)</a></h3>
<p>On modern Linux systems the block size defaults to 8192 B<!-- /@w -->.
The GLADE filesystem at NCAR has a block size of 512 kB<!-- /@w -->.</p>
-<h3><a name="FOOT35" href="#DOCF35">(35)</a></h3>
+<h3><a name="FOOT36" href="#DOCF36">(36)</a></h3>
<p>Although not a part of the standard, <acronym>NCO</acronym> enforces
the policy that the <code>_FillValue</code> attribute, if any, of a packed
variable is also stored at the original precision.</p>
-<h3><a name="FOOT36" href="#DOCF36">(36)</a></h3>
+<h3><a name="FOOT37" href="#DOCF37">(37)</a></h3>
<p><em>32767 = 2^15-1</em>
</p>
-<h3><a name="FOOT37" href="#DOCF37">(37)</a></h3>
+<h3><a name="FOOT38" href="#DOCF38">(38)</a></h3>
<p>Operators began performing automatic type conversions before
arithmetic in <acronym>NCO</acronym> version 1.2<!-- /@w -->, August, 2000.
Previous versions never performed unnecessary type conversion for
arithmetic.</p>
-<h3><a name="FOOT38" href="#DOCF38">(38)</a></h3>
+<h3><a name="FOOT39" href="#DOCF39">(39)</a></h3>
<a name="index-C-language-2"></a>
<p>The actual type conversions with trunction were handled by intrinsic
type conversion, so the <code>trunc()</code> function was never explicitly
called, although the results would be the same if it were.</p>
-<h3><a name="FOOT39" href="#DOCF39">(39)</a></h3>
+<h3><a name="FOOT40" href="#DOCF40">(40)</a></h3>
<p>According to Wikipedia’s summary of <acronym>IEEE</acronym> standard
754, “If a decimal string with at most 6 significant digits is
converted to IEEE 754 single-precision and then converted back to the
@@ -19889,7 +19943,7 @@ same number of significant decimal, then the final string should match
the original; and if an IEEE 754 single-precision is converted to a
decimal string with at least 9 significant decimal and then converted
back to single, then the final number must match the original”.</p>
-<h3><a name="FOOT40" href="#DOCF40">(40)</a></h3>
+<h3><a name="FOOT41" href="#DOCF41">(41)</a></h3>
<p>According to Wikipedia’s summary of <acronym>IEEE</acronym> standard
754, “If a decimal string with at most 15 significant digits is
converted to IEEE 754 double-precision representation and then converted
@@ -19898,7 +19952,7 @@ final string should match the original; and if an IEEE 754 double
precision is converted to a decimal string with at least 17 significant
digits and then converted back to double, then the final number must
match the original”.</p>
-<h3><a name="FOOT41" href="#DOCF41">(41)</a></h3>
+<h3><a name="FOOT42" href="#DOCF42">(42)</a></h3>
<p>See page 21<!-- /@w --> in Section 1.2 of the First edition for this
gem:
</p><blockquote>
@@ -19907,19 +19961,19 @@ that the implicit conversion rules are, in fact, sheer madness!
In effect, they make it impossible to write efficient numerical
programs.
</p></blockquote>
-<h3><a name="FOOT42" href="#DOCF42">(42)</a></h3>
+<h3><a name="FOOT43" href="#DOCF43">(43)</a></h3>
<p>For example, the <acronym>CMIP5</acronym> archive tends to distribute
monthly average timeseries in 50-year chunks.</p>
-<h3><a name="FOOT43" href="#DOCF43">(43)</a></h3>
+<h3><a name="FOOT44" href="#DOCF44">(44)</a></h3>
<a name="index-Michael-Prather"></a>
<p>Thanks to Michael J.<!-- /@w --> Prather for explaining this to me.</p>
-<h3><a name="FOOT44" href="#DOCF44">(44)</a></h3>
+<h3><a name="FOOT45" href="#DOCF45">(45)</a></h3>
<p>The exception is appending/altering the attributes <code>x_op</code>,
<code>y_op</code>, <code>z_op</code>, and <code>t_op</code> for variables which have been
averaged across space and time dimensions.
This feature is scheduled for future inclusion in <acronym>NCO</acronym>.
</p>
-<h3><a name="FOOT45" href="#DOCF45">(45)</a></h3>
+<h3><a name="FOOT46" href="#DOCF46">(46)</a></h3>
<p>The <acronym>CF</acronym> conventions recommend <code>time</code> be stored in the
format <var>time</var> since <var>base_time</var>, e.g., the <code>units</code>
attribute of <code>time</code> might be
@@ -19934,21 +19988,21 @@ The analogous problem has been fixed in <acronym>ARM</acronym> files
(see <a href="#ARM-Conventions">ARM Conventions</a>) and could be fixed for <acronym>CF</acronym> files if
there is sufficient lobbying.
</p>
-<h3><a name="FOOT46" href="#DOCF46">(46)</a></h3>
+<h3><a name="FOOT47" href="#DOCF47">(47)</a></h3>
<p><code>ncap2</code> is the successor to <code>ncap</code> which was
put into maintenance mode in November, 2006.
This documentation refers to <code>ncap2</code>, which has a superset of
the <code>ncap</code> functionality.
Eventually <code>ncap</code> will be deprecated in favor <code>ncap2</code>.
<code>ncap2</code> may be renamed <code>ncap</code> in 2013.</p>
-<h3><a name="FOOT47" href="#DOCF47">(47)</a></h3>
+<h3><a name="FOOT48" href="#DOCF48">(48)</a></h3>
<p>These are the <acronym>GSL</acronym> standard function names postfixed with
<code>_e</code>.
<acronym>NCO</acronym> calls these functions automatically, without the
<acronym>NCO</acronym> command having to specifically indicate the <code>_e</code>
function suffix.
</p>
-<h3><a name="FOOT48" href="#DOCF48">(48)</a></h3>
+<h3><a name="FOOT49" href="#DOCF49">(49)</a></h3>
<p>ANSI C<!-- /@w --> compilers are guaranteed to support double-precision versions
of these functions.
These functions normally operate on netCDF variables of type <code>NC_DOUBLE</code>
@@ -19965,15 +20019,15 @@ performing the operation, and then re-casting.
<acronym>NCO</acronym> uses the faster intrinsic functions when they are
available, and uses the casting method when they are not.
</p>
-<h3><a name="FOOT49" href="#DOCF49">(49)</a></h3>
+<h3><a name="FOOT50" href="#DOCF50">(50)</a></h3>
<p>Linux supports more of these intrinsic functions than
other OSs.</p>
-<h3><a name="FOOT50" href="#DOCF50">(50)</a></h3>
+<h3><a name="FOOT51" href="#DOCF51">(51)</a></h3>
<p>A naked<!-- /@w --> (i.e., unprotected or unquoted) ‘<samp>*</samp>’ is a
wildcard character.
A naked<!-- /@w --> ‘<samp>-</samp>’ may confuse the command line parser.
A naked<!-- /@w --> ‘<samp>+</samp>’ and ‘<samp>/</samp>’ are relatively harmless.</p>
-<h3><a name="FOOT51" href="#DOCF51">(51)</a></h3>
+<h3><a name="FOOT52" href="#DOCF52">(52)</a></h3>
<p>The widely used shell Bash correctly interprets all these
special characters even when they are not quoted.
That is, Bash does not prevent <acronym>NCO</acronym> from correctly interpreting
@@ -19981,30 +20035,30 @@ the intended arithmetic operation when the following arguments are given
(without quotes) to <code>ncbo</code>:
‘<samp>--op_typ=+</samp>’, ‘<samp>--op_typ=-</samp>’, ‘<samp>--op_typ=*</samp>’,
and ‘<samp>--op_typ=/</samp>’</p>
-<h3><a name="FOOT52" href="#DOCF52">(52)</a></h3>
-<p>The command to do this is ‘<samp>ln -s -f ncbo ncadd</samp>’</p>
<h3><a name="FOOT53" href="#DOCF53">(53)</a></h3>
-<p>The command to do this is ‘<samp>alias ncadd='ncbo --op_typ=add'</samp>’</p>
+<p>The command to do this is ‘<samp>ln -s -f ncbo ncadd</samp>’</p>
<h3><a name="FOOT54" href="#DOCF54">(54)</a></h3>
+<p>The command to do this is ‘<samp>alias ncadd='ncbo --op_typ=add'</samp>’</p>
+<h3><a name="FOOT55" href="#DOCF55">(55)</a></h3>
<p>Prior to <acronym>NCO</acronym> version 4.3.1 (May, 2013), <code>ncbo</code>
would only broadcast variables in <var>file_2</var> to conform to
<var>file_1</var>.
Variables in <var>file_1</var> were <em>never</em> broadcast to conform to the
dimensions in <var>file_2</var>.</p>
-<h3><a name="FOOT55" href="#DOCF55">(55)</a></h3>
+<h3><a name="FOOT56" href="#DOCF56">(56)</a></h3>
<p>This is because <code>ncra</code> collapses the record dimension
to a size of 1<!-- /@w --> (making it a <em>degenerate</em> dimension), but does
not remove it, while, unless ‘<samp>-b</samp>’ is given, <code>ncwa</code> removes
all averaged dimensions.
In other words, by default <code>ncra</code> changes variable size though
not rank, while, <code>ncwa</code> changes both variable size and rank.</p>
-<h3><a name="FOOT56" href="#DOCF56">(56)</a></h3>
+<h3><a name="FOOT57" href="#DOCF57">(57)</a></h3>
<p>The old ncea command was deprecated in <acronym>NCO</acronym> version 4.3.9,
released December, 2013.
<acronym>NCO</acronym> will attempt to maintain back-compatibility and work
as expected with invocations of <code>ncea</code> for as long as possible.
Please replace <code>ncea</code> by <code>nces</code> in all future work.</p>
-<h3><a name="FOOT57" href="#DOCF57">(57)</a></h3>
+<h3><a name="FOOT58" href="#DOCF58">(58)</a></h3>
<p>As of <acronym>NCO</acronym> version 4.4.2 (released February, 2014)
<code>nces</code> allows hyperslabs in all dimensions so long as the
hyperslabs resolve to the same size.
@@ -20014,7 +20068,7 @@ the hypserslabs may (and usually do) change the size of the dimensions
from the input to the output files.
Prior to this, <code>nces</code> was only guaranteed to work on hyperslabs
in the record dimension that resolved to the same size.</p>
-<h3><a name="FOOT58" href="#DOCF58">(58)</a></h3>
+<h3><a name="FOOT59" href="#DOCF59">(59)</a></h3>
<p>Those familiar with netCDF mechanics might wish to know what is
happening here: <code>ncks</code> does not attempt to redefine the variable
in <var>output-file</var> to match its definition in <var>input-file</var>,
@@ -20022,10 +20076,10 @@ in <var>output-file</var> to match its definition in <var>input-file</var>,
coordinate dimensions, if any, from <var>input-file</var> to
<var>output-file</var>.
</p>
-<h3><a name="FOOT59" href="#DOCF59">(59)</a></h3>
+<h3><a name="FOOT60" href="#DOCF60">(60)</a></h3>
<p>This limitation, imposed by the netCDF storage layer,
may be relaxed in the future with netCDF4.</p>
-<h3><a name="FOOT60" href="#DOCF60">(60)</a></h3>
+<h3><a name="FOOT61" href="#DOCF61">(61)</a></h3>
<p>Prior to <acronym>NCO</acronym> 4.4.0 and netCDF 4.3.1 (January, 2014),
<acronym>NCO</acronym> requires the ‘<samp>--hdf4</samp>’ switch to correctly read
HDF4 input files.
@@ -20037,38 +20091,38 @@ software necessary to workaround netCDF library flaws handling
<acronym>HDF4</acronym> files to netCDF files.
In those cases, use the <code>ncl_convert2nc</code> command distributed
with <acronym>NCL</acronym> to convert <acronym>HDF4</acronym> files to netCDF.</p>
-<h3><a name="FOOT61" href="#DOCF61">(61)</a></h3>
+<h3><a name="FOOT62" href="#DOCF62">(62)</a></h3>
<p><code>ncpdq</code> does not support packing data using the
<acronym>HDF</acronym> convention.
Although it is now straightforward to support this, we think it might
sow more confusion than it reaps.
Let us know if you disagree and would like <acronym>NCO</acronym> to support
packing data with <acronym>HDF</acronym> algorithm.</p>
-<h3><a name="FOOT62" href="#DOCF62">(62)</a></h3>
+<h3><a name="FOOT63" href="#DOCF63">(63)</a></h3>
<p>The default behavior of (‘<samp>-I</samp>’) changed on
19981201—before this date the default was not to weight or mask
coordinate variables.</p>
-<h3><a name="FOOT63" href="#DOCF63">(63)</a></h3>
+<h3><a name="FOOT64" href="#DOCF64">(64)</a></h3>
<p>If <code>lat_wgt</code> contains Gaussian weights then the value of
<code>latitude</code> in the <var>output-file</var> will be the area-weighted
centroid of the hyperslab.
For the example given, this is about 30 degrees.<!-- /@w --></p>
-<h3><a name="FOOT64" href="#DOCF64">(64)</a></h3>
+<h3><a name="FOOT65" href="#DOCF65">(65)</a></h3>
<p>The three switches ‘<samp>-m</samp>’, ‘<samp>-T</samp>’, and ‘<samp>-M</samp>’ are
maintained for backward compatibility and may be deprecated in the
future.
It is safest to write scripts using ‘<samp>--mask_condition</samp>’.</p>
-<h3><a name="FOOT65" href="#DOCF65">(65)</a></h3>
+<h3><a name="FOOT66" href="#DOCF66">(66)</a></h3>
<p><code>gw</code> stands for <em>Gaussian weight</em> in many
climate models.</p>
-<h3><a name="FOOT66" href="#DOCF66">(66)</a></h3>
+<h3><a name="FOOT67" href="#DOCF67">(67)</a></h3>
<p><code>ORO</code> stands for <em>Orography</em> in some climate models
and in those models <em><var>ORO</var> < 0.5</em> selects ocean gridpoints.</p>
-<h3><a name="FOOT67" href="#DOCF67">(67)</a></h3>
+<h3><a name="FOOT68" href="#DOCF68">(68)</a></h3>
<p>Unfortunately the ‘<samp>-B</samp>’ and ‘<samp>--mask_condition</samp>’
options are unsupported on Windows (with the <acronym>MVS</acronym> compiler),
which lacks a free, standard parser and lexer.</p>
-<h3><a name="FOOT68" href="#DOCF68">(68)</a></h3>
+<h3><a name="FOOT69" href="#DOCF69">(69)</a></h3>
<a name="index-chocolate"></a>
<p>Happy users have sent me a few gifts, though.
This includes a box of imported chocolate.
diff --git a/doc/nco.pdf b/doc/nco.pdf
index 2dc4536..530082f 100644
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diff --git a/doc/nco.ps b/doc/nco.ps
index a63acdc..7c5cd9c 100644
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eop end
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y(zender)g(Copyright)f(\(C\))h(1995--2008)f(Charlie)g(Zender)h(ncks)g
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909 y(T_in[$X,$Y]=)438 1019 y({100,)f(200,)h(300,)f(400,)h(500,)485
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4 v 41 w(sf)p 367 299 V 39 w(b)s(essel)p 637 299 V 40
w(In)p 761 299 V 39 w(arra)m(y)509 b(Y)112 b(status=gsl)p
2111 299 V 40 w(sf)p 2215 299 V 40 w(b)s(essel)p 2486
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4 v 41 w(sf)p 367 299 V 39 w(exp)p 545 299 V 40 w(m)m(ult)p
769 299 V 40 w(e)667 b(Y)112 b(gsl)p 1802 299 V 40 w(sf)p
1906 299 V 40 w(exp)p 2085 299 V 40 w(m)m(ult\(dbl)p
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4 v 41 w(sf)p 367 299 V 39 w(legendre)p 734 299 V 41
w(sphPlm)p 1076 299 V 38 w(deriv)p 1314 299 V 40 w(arra)m(y)-45
b(N)112 b(gsl)p 1802 299 V 40 w(sf)p 1906 299 V 40 w(legendre)p
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628 y(ram_delete\(ram_sp\);)390 847 y(print\(y_out\);)44
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956 y(yout[e1]=0.0;)390 1176 y(yout=gsl_fit_linear_est\()o(xout)o(,)42
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408 y(//)47 b(b3_avg)f(=)i(-0.00903446534258;)390 518
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847 y(b4[$b1]=10.0;)390 956 y(b5[$b1]=20.0;)390 1066
@@ -23860,7 +23892,7 @@ b(The)31 b(example)g(ab)s(o)m(v)m(e)h(will)f(fail)h(with)e(no)h(quotes)
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150 408 y(unless)h(it)h(is)f(quoted:)390 571 y Fy(ncap2)46
@@ -24030,7 +24062,7 @@ Fz(do-)630 4844 y(main)d(errors)p FD(.)59 b(Due)37 b(to)g(t)m(yp)s
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b Fz(Round)34 b(exactly)46 b FD(Nearest)36 b(in)m(teger)h(to)g
@@ -24040,7 +24072,7 @@ Fz(inexact)i(con)m(v)m(ersions)p FD(.)42 b(Example:)f(rin)m(t\(0)p
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b Fz(Round)27 b FD(Nearest)f(in)m(teger)g(to)f Fz(x)30
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b(Round)23 b(halfw)m(a)m(y)630 408 y(cases)28 b(a)m(w)m(a)m(y)h(from)e
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FD(10)h(\(decimal\),)i(the)c(stored)h(string)g(attribute)g(is)g(one)g
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408 y(length)36 b(for)g(eac)m(h)i(em)m(b)s(edded)d(escap)s(e)h
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+(P)m(ath)h(Editing],)i(page)e(45\).)40 b(When)25 b Fz(gp)s(e)p
2974 1340 V 40 w(dsc)30 b FD(is)24 b(not)h(pro)m(vided)150
1450 y(\(i.e.,)k(user)e(requests)g FC(GA)n(G)g FD(with)g(`)p
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@@ -25591,7 +25623,7 @@ b(,)45 b(including)40 b(the)h(record)150 4085 y(dimension.)p
eop end
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b FB(netCDF)j(File)g(In)l(terp)t(olator)150 458 y FD(SYNT)-8
b(AX)390 639 y Fy(ncflint)46 b([-3])g([-4])h([-6])g([-7])f([-A])h([-C])
g([-c])390 749 y([--cnk_dmn)e(nm,sz])h([--cnk_map)f(map])i([--cnk_plc)e
@@ -25787,7 +25819,7 @@ FD(in)i(a)150 5340 y(2:1)j(ratio)h(to)f(mak)m(e)g Fy(85_02.nc)p
FD(:)p eop end
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(85_01.nc)g(85_04.nc)f(85_02.nc)390 408 y(ncflint)h(-w)h(0.667,0.333)e
(85_01.nc)g(85_04.nc)h(85_02.nc)275 568 y FD(Multiply)30
b Fy(85.nc)f FD(b)m(y)h(3)h(and)f(b)m(y)g FA(\000)p FD(2)h(and)e(add)h
@@ -25921,7 +25953,7 @@ FD(is)31 b(usually)g(o)m(v)m(erwritten)i(b)m(y)e(the)h(corresp)s
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Fz(input-\014le)p FD(.)66 b(Th)m(us,)41 b(when)d(app)s(ending,)i(the)f
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b(case)150 408 y(v)-5 b(aluable)31 b(data)g(are)g(inadv)m(ertan)m(tly)h
@@ -26069,7 +26101,7 @@ y(netCDF4)k(\014les)f(that)h(ha)m(v)m(e)g(m)m(ultiple)g(record)f
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2694 y(\014les)44 b(\(whic)m(h)g(are)h(limited)g(to)g(at)f(most)h(one)f
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+y([Group)30 b(P)m(ath)h(Editing],)g(page)g(45\).)630
2945 y(As)41 b(of)h FC(NCO)f FD(v)m(ersion)g(4.4.0)i(\(Jan)m(uary)-8
b(,)45 b(2014\),)h(the)c(`)p Fy(--hdn)p FD(')e(or)h(`)p
Fy(--hidden)p FD(')f(options)630 3054 y(prin)m(t)35 b(hidden)e(\(ak)-5
@@ -26108,7 +26140,7 @@ b(1*4)f(=)g(4)g(bytes)870 4902 y(one)g(attribute)e(0:)i(long_name,)e
eop end
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518 y(variables:)1061 628 y(float)f(one)h(;)1061 737
y(one:long_name)d(=)k("one")e(;)965 956 y(data:)1061
1066 y(one)h(=)g(1)h(;)870 1285 y(})f(//)h(group)e(/)630
@@ -26126,9 +26158,9 @@ FD(\014le:)870 2140 y Fy(/usr/hdf4/bin/ncgen)43 b(-b)k(-o)g(~/in.hdf)e
(Same)g(as)g(HDF)g(ncgen)g(\(RPM)f(packages?\))870 2359
y(/usr/bin/ncgen-hdf)91 b(-b)47 b(-o)g(~/in.hdf)e(~/in.cdl)h(#)h(Same)g
(as)g(HDF)g(ncgen)g(\(Debian)e(packages?\))870 2469 y(hdp)i(dumpsds)f
-(~/in.hdf)1143 b(#)47 b(ncdump-equivalent)d(for)i(HDF4)h(files)630
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+(~/in.hdf)1143 b(#)47 b(ncdump/h5dump-equivalent)42 b(for)47
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2710 y(mands)29 b(fail)h(when)f(the)h(input)e(\014le)i(con)m(tains)h
(groups.)40 b(Only)29 b(netCDF4)i(and)e FC(HDF5)h FD(sup-)630
2819 y(p)s(ort)35 b(groups.)55 b(In)35 b(our)g(exp)s(erience)h(the)g
@@ -26249,7 +26281,7 @@ f(as)g(toggles)i(whic)m(h)e(rev)m(erse)h(the)f(default)630
eop end
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+b FD(4.4.3)j(User)d(Guide)630 299 y(metadata)j(in)d(o)m(v)m(erwrite)j
(mo)s(de)e(and)f(causes)i(cop)m(ying)g(of)f(global)h(metadata)h(in)e
(app)s(end)630 408 y(mo)s(de.)870 545 y Fy(ncks)810 b(in.nc)381
b(#)47 b(Print)94 b(VAs)47 b(and)g(GAs)870 655 y(ncks)476
@@ -26409,7 +26441,7 @@ b(ncks)k(--xml)f(-d)h(time,0,3)f(-v)h(two_dmn_rec_var_sng)c(in.nc)870
(f</v)o(alu)o(es>)p eop end
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+b FD(4.4.3)j(User)d(Guide)918 299 y Fy(...)918 408 y(zender@@roulee:~$)
43 b(ncks)j(--xml_spr_chr=',)e(')j(-v)g(two_dmn_rec_var_sng)c(in.nc)870
518 y(...)870 628 y(<values)j(separator=",)e(">abc,)i(bcd,)h(cde,)g
(def,)f(efg,)h(fgh,)g(ghi,)f(hij,)h(jkl,)f(klm</values>)870
@@ -26559,7 +26591,7 @@ b(${2})47 b(~/foo.nc)e(|)j(cut)e(-f)i(3-)f(-d)g(')g(')h(;)f(})390
(variable?)p eop end
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+b FD(4.4.3)j(User)d(Guide)390 299 y Fy(function)46 b(ncrng)g({)h(ncap2)
g(-O)g(-C)g(-v)g(-s)g("foo_min=${1}.min\(\);foo_ma)o(x=${)o(1}.)o
(max\()o(\);pr)o(int)o(\(foo)o(_mi)o(n,\\")o(\045f\\")o(\);p)o(rint)o
(\(\\")41 b(to)47 b(\\"\);print\(foo_max,\\"\045f\\"\)")41
@@ -26697,7 +26729,7 @@ h(NUL-terminated,)h(e.g.,)390 5340 y Fy(ncks)47 b(-v)g(fl_nm)f(in.nc)p
eop end
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FD(formatting)j(co)s(de)e(is)h(useful)e(for)h(prin)m(ting)g(m)m
(ultidimensional)h(arra)m(ys)g(of)f(c)m(haracters)i(repre-)150
408 y(sen)m(ting)c(\014xed)f(length)h(strings)390 573
@@ -26714,7 +26746,7 @@ Fy(in.nc)p FD(:)390 1285 y Fy(ncks)47 b(-x)g(-v)g(time)g(in.nc)f
(consider)f(ho)m(w)f(to)i(remo)m(v)m(e)g(a)f FC(CF)g
FD(Con)m(v)m(en)m(tion)h(comlian)m(t)h Fy(bounds)c FD(or)150
1559 y Fy(coordinates)f FD(v)-5 b(ariable)34 b(\(see)f(Section)h(3.37)h
-([CF)e(Con)m(v)m(en)m(tions],)i(page)f(96\))g(suc)m(h)f(as)g
+([CF)e(Con)m(v)m(en)m(tions],)i(page)f(97\))g(suc)m(h)f(as)g
Fy(time_bounds)p FD(.)150 1669 y FC(NCO)39 b FD(subsetting)h(assumes)f
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(and)g(axes)i(asso)s(ciated)150 1778 y(with)34 b(all)g(extracted)h(v)-5
@@ -26763,7 +26795,7 @@ Fy(lev)p FD(.)44 b(Note)33 b(that)g(limits)f(applied)g(to)h(co)s
(ordinate)f(v)-5 b(alues)33 b(are)f(sp)s(eci\014ed)f(with)h(a)g
(decimal)150 4299 y(p)s(oin)m(t,)d(and)e(limits)i(applied)f(to)g
(dimension)g(indices)g(do)g(not)g(ha)m(v)m(e)h(a)f(decimal)h(p)s(oin)m
-(t)f(See)h(Section)f(3.15)150 4408 y([Hyp)s(erslabs],)i(page)h(53.)390
+(t)f(See)h(Section)f(3.15)150 4408 y([Hyp)s(erslabs],)i(page)h(54.)390
4573 y Fy(ncks)47 b(-H)g(-d)g(time,5)f(-d)h(lat,,0.0)f(-d)h(lon,330.0,)
e(-d)i(band,0.3,0.5)390 4682 y(-d)g(lev,1000.0)e(in.nc)i(out.nc)275
4847 y FD(Assume)40 b(the)h(domain)g(of)g(the)g(monotonically)i
@@ -26780,11 +26812,11 @@ b(-d)g(lon,260.0,45.0)d(in.nc)i(out.nc)p eop end
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b(Op)s(erator)30 b(Reference)h(Man)m(ual)1897 b(185)275
299 y(F)-8 b(or)31 b(more)f(details)i(See)e(Section)h(3.20)h([W)-8
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+b(rapp)s(ed)30 b(Co)s(ordinates],)h(page)g(62.)p eop
end
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b FB(netCDF)i(P)l(erm)l(ute)h(Dimensions)f(Quic)l(kly)150
458 y FD(SYNT)-8 b(AX)390 618 y Fy(ncpdq)46 b([-3])h([-4])g([-6])f
([-7])h([-A])g([-a)f([-])p Fn(dim)p Fy([,...)m(]])i([-C])e([-c])390
@@ -26865,7 +26897,7 @@ FC(NCO)h FD(v)m(ersion)g(4.0.4)h(in)150 1177 y(Octob)s(er,)30
b(2010\))i(pac)m(ks)e(co)s(ordinate)h(v)-5 b(ariables,)30
b(or)g(the)g(sp)s(ecial)g(v)-5 b(ariables,)31 b(w)m(eigh)m(ts,)g(and)e
(other)h(grid)150 1287 y(prop)s(erties)21 b(describ)s(ed)g(in)h
-(Section)h(3.37)h([CF)e(Con)m(v)m(en)m(tions],)j(page)e(96.)39
+(Section)h(3.37)h([CF)e(Con)m(v)m(en)m(tions],)j(page)e(97.)39
b(Prior)22 b Fy(ncpdq)f FD(v)m(ersions)h(treated)150
1396 y(co)s(ordinate)35 b(v)-5 b(ariables)35 b(and)f(grid)g(prop)s
(erties)g(no)g(di\013eren)m(tly)h(from)f(other)h(v)-5
@@ -26948,7 +26980,7 @@ b(pac)m(king)f(maps)f(are)h(curren)m(tly)f(implemen)m(ted:)p
eop end
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-b FD(4.4.2)j(User)d(Guide)150 299 y Fz(P)m(ac)m(k)i(Floating)g
+b FD(4.4.3)j(User)d(Guide)150 299 y Fz(P)m(ac)m(k)i(Floating)g
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b Fz(])630 408 y FD(De\014nition:)41 b(P)m(ac)m(k)32
b(\015oating)g(precision)e(t)m(yp)s(es)h(to)g Fy(NC_SHORT)630
@@ -27076,7 +27108,7 @@ FD(capabilit)m(y)j(mak)m(es)f(it)g(p)s(ossible)e(to)i(concatenate)i
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@@ -27091,7 +27123,7 @@ h(a)g(v)-5 b(ariable.)83 b(T)-8 b(o)45 b(do)g(this,)150
(transp)s(ose)150 3257 y(a)35 b(v)-5 b(ariable's)35 b(storage)h(order,)
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d(\(see)j(Section)f(3.14)h([C)150 3367 y(and)28 b(F)-8
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+b(ortran)29 b(Index)e(Con)m(v)m(en)m(tions],)j(page)f(53\).)41
b(T)-8 b(o)29 b(do)f(this,)h(include)f(all)h(the)g(v)-5
b(ariable's)29 b(dimensions)150 3476 y(in)i(the)h(dimension)g(re-order)
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(netCDF4.)p eop end
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(relation)h(b)s(et)m(w)m(een)f Fv(N)35 b FD(and)25 b
Fv(R)q FD(.)39 b(Let)26 b(the)g Fv(S)5 b FD(-elemen)m(t)27
b(v)m(ector)g Fq(S)e FD(b)s(e)g(the)h(in)m(tersection)150
@@ -27328,7 +27360,7 @@ Fp(NCO)h Fs(to)g(supp)r(ort)f(pac)n(king)g(data)h(with)g
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Fy(lat)f FD(represen)m(ts)h(latitude)i(and)d(monotonically)j(increases)
f(increases)150 408 y(from)g(south)g(to)h(north.)77 b(Rev)m(ersing)43
b(the)f Fy(lat)g FD(dimension)g(means)g(re-ordering)h(the)f(data)i(so)e
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b FB(netCDF)i(Record)g(Av)l(erager)150 458 y FD(SYNT)-8
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b(.)41 b Fy(ncra)26 b FD(supp)s(orts)g(the)150 2871 y
Fz(stride)42 b FD(argumen)m(t)36 b(to)i(the)e(`)p Fy(-d)p
FD(')h(h)m(yp)s(erslab)e(option)i(\(see)h(Section)f(3.15)h([Hyp)s
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Fy(85.nc)p FD(,)f Fy(86.nc)p FD(,)33 b(.)22 b(.)g(.)42
b Fy(89.nc)26 b FD(along)j(the)f(record)g(dimension,)g(and)f(store)h
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%%Page: 261 267
TeXDict begin 261 266 bop 150 -116 a FD(General)31 b(Index)2902
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Fa(:)i(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f
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b Fa(:)j(:)i(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)36
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+b Fs(7)2025 1436 y(`)p Fr(xpl)p Fs(')22 b Fa(:)13 b(:)g(:)g(:)g(:)g(:)g
(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)
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+b Fs(72,)27 b(73)2025 1774 y FB(Y)2025 1891 y Fs(Y)-6
b(oric)n(k)17 b Fa(:)c(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g
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f(:)g(:)g(:)g(:)g(:)g(:)44 b Fs(15,)27 b(24)p eop end
diff --git a/doc/nco.texi b/doc/nco.texi
index f75a6c6..5a68468 100644
--- a/doc/nco.texi
+++ b/doc/nco.texi
@@ -7,7 +7,7 @@
@ignore
-$Header: /cvsroot/nco/nco/doc/nco.texi,v 1.968 2014/02/19 17:28:06 zender Exp $
+$Header: /cvsroot/nco/nco/doc/nco.texi,v 1.978 2014/04/02 05:40:24 zender Exp $
Purpose: TeXInfo documentation for NCO suite
@@ -112,12 +112,12 @@ Octave TeXInfo manual shows clean TeXInfo structure
@setfilename nco.info
@c Define edition, date, ...
- at set nco-edition 4.4.2
- at set doc-edition 4.4.2
+ at set nco-edition 4.4.3
+ at set doc-edition 4.4.3
@set copyright-years 1995--2014
@set update-year 2014
- at set update-date 19 February 2014
- at set update-month February 2014
+ at set update-date 2 April 2014
+ at set update-month April 2014
@settitle @acronym{NCO} @value{nco-edition} User Guide
@@ -1209,6 +1209,9 @@ See @ref{File Formats and Conversion} for more details.
<a name="hdf4"></a> <!-- http://nco.sf.net/nco.html#hdf4 -->
<a name="HDF4"></a> <!-- http://nco.sf.net/nco.html#HDF4 -->
@end html
+ at cindex @acronym{H4CF}
+ at cindex @command{h4tonccf}
+ at cindex @command{ncl_convert2nc}
@cindex @acronym{HDF4}
@cindex @samp{--hdf4}
When linked to a netCDF library that was built with @acronym{HDF4}
@@ -1259,22 +1262,26 @@ ncks --hdf4 fl.hdf fl.nc # Convert HDF4->netCDF4 (NCO 4.3.7-4.3.9)
@end example
The most efficient and accurate way to convert @acronym{HDF4} data to
netCDF format is to convert to netCDF4 using @acronym{NCO} as above.
-It suffices when the data will only be processed by @acronym{NCO}, or
-other netCDF4-aware tools.
+Many @acronym{HDF4} producers (@acronym{NASA}!) love to use netCDF4
+types, e.g., unsigned bytes, so this procedure is the most typical.
+Conversion of @acronym{HDF4} to netCDF4 as above suffices when the data
+will only be processed by @acronym{NCO} and other netCDF4-aware tools.
+
However, many tools are not fully netCDF4-aware, and so conversion to
netCDF3 may be desirable.
-
-Obtaining a netCDF3 file from an @acronym{HDF4} is now easy, even though
-the @acronym{HDF4} file may contain netCDF4 atomic types (e.g., unsigned
-bytes, 64-bit integers):
+Obtaining a netCDF3 file from an @acronym{HDF4} is now easy:
@example
ncks -3 fl.hdf fl.nc # HDF4->netCDF3 (NCO 4.4.0+, netCDF 4.3.1+)
-ncks -7 -L 1 fl.hdf fl.nc # HDF4->netCDF4 (NCO 4.4.0+, netCDF 4.3.1+)
+ncks -6 fl.hdf fl.nc # HDF4->netCDF3 64-bit (NCO 4.4.0+, ...)
+ncks -7 -L 1 fl.hdf fl.nc # HDF4->netCDF4 classic (NCO 4.4.0+, ...)
ncks --hdf4 -3 fl.hdf fl.nc # HDF4->netCDF3 (netCDF 4.3.0-)
+ncks --hdf4 -6 fl.hdf fl.nc # HDF4->netCDF3 64-bit (netCDF 4.3.0-)
ncks --hdf4 -7 fl.hdf fl.nc # HDF4->netCDF4 classic (netCDF 4.3.0-)
@end example
As of @acronym{NCO} version 4.4.0 (January, 2014), these commands work
-with netCDF4 atomic types
+even when the @acronym{HDF4} file contains netCDF4 atomic types (e.g.,
+unsigned bytes, 64-bit integers) because @acronym{NCO} can autoconvert
+everything to atomic types supported by netCDF3
@footnote{
Prior to @acronym{NCO} version 4.4.0 (January, 2014), we recommend the
@command{ncl_convert2nc} tool to convert @acronym{HDF} to netCDF3 when
@@ -1292,9 +1299,14 @@ Unsigned bytes stay unsigned bytes.
64-bit integers stay 64-bit integers.
Strings stay strings.
Hence, @command{ncks} conversions often result in smaller files than
- at command{ncl_convert2nc} conversions.}.
-Many @acronym{HDF4} producers (@acronym{NASA}!) love to use netCDF4
-types, e.g., unsigned bytes.
+ at command{ncl_convert2nc} conversions.
+Finally, in February 2014, we learned that the @acronym{HDF} group
+has a project called @acronym{H4CF} whose goal is to make @acronym{HDF4}
+files accessible to @acronym{CF} tools and conventions.
+Their project includes a tool named @command{h4tonccf} that converts
+ at acronym{HDF4} files to netCDF3 or netCDF4 files.
+We know of no features in @command{h4tonccf} that are not in
+ at acronym{NCO}. Corrections welcome.}.
@cindex @acronym{RPM}
@cindex Debian
@@ -3302,6 +3314,37 @@ the local machine) for the number-crunching to begin.
The advantages of this are obvious if you are examining small parts of
large files stored at remote locations.
+Natually there are many versions of @acronym{OPeNDAP} servers supplying
+data and bugs in the server can appear to be bugs in @acronym{NCO}.
+However, with very few exceptions
+ at footnote{For example, @acronym{DAP} servers do not like variables with
+periods (``.'') in their names even though this is perfectly legal with
+netCDF.
+Such names may cause the @acronym{DAP} service to fail because
+ at acronym{DAP} interprets the period as structure delimiter in an
+ at acronym{HTTP} query string.} an @acronym{NCO} command that works
+on a local file must work across an @acronym{OPeNDAP} connection or else
+there is a bug in the server.
+This is because @acronym{NCO} does nothing special to handle files
+served by @acronym{OPeNDAP}, the whole process is (supposed to be)
+completely transparent to the client @acronym{NCO} software.
+Therefore it is often useful to try @acronym{NCO} commands on various
+ at acronym{OPeNDAP} servers in order to isolate whether a problem may be
+due to a bug in the @acronym{OPeNDAP} server on a particular machine.
+For this purpose, one might try variations of the following commands
+that access files on public @acronym{OPeNDAP} servers:
+ at example
+# Strided access to HDF5 file
+ncks -v Time -d Time,0,10,2 http://eosdap.hdfgroup.uiuc.edu:8080/opendap/data/NASAFILES/hdf5/BUV-Nimbus04_L3zm_v01-00-2012m0203t144121.h5
+# Strided access to netCDF3 file
+ncks -O -D 1 -d time,1 -d lev,0 -d lat,0,100,10 -d lon,0,100,10 -v u_velocity http://nomads.ncep.noaa.gov:9090/dods/rtofs/rtofs_global20140303/rtofs_glo_2ds_forecast_daily_prog ~/foo.nc
+ at end example
+ at noindent
+These servers were operational at the time of writing, March 2014.
+Unfortunately, administrators often move or rename path directories.
+Recommendations for additional public @acronym{OPeNDAP} servers on
+which to test @acronym{NCO} are welcome.
+
@html
<a name="rtn"></a> <!-- http://nco.sf.net/nco.html#rtn -->
@end html
@@ -3395,6 +3438,7 @@ when your other preferred methods are not available locally.
@cindex @code{-6}
@cindex @code{-7}
@cindex @code{--4}
+ at cindex @code{--6}
@cindex @code{--7}
@cindex @code{--netcdf4}
@cindex @code{--fl_fmt}
@@ -3405,7 +3449,7 @@ Availability: @command{ncap2}, @command{ncbo}, @command{nces},
@command{ncecat}, @command{ncflint}, @command{ncks}, @command{ncpdq},
@command{ncra}, @command{ncrcat}, @command{ncwa}@*
Short options: @samp{-3}, @samp{-4}, @samp{-6}, @samp{-7}@*
-Long options: @samp{--3}, @samp{--4}, @samp{--64bit}, @samp{--7}, @samp{--fl_fmt},
+Long options: @samp{--3}, @samp{--4}, @samp{--6}, @samp{--64bit}, @samp{--7}, @samp{--fl_fmt},
@samp{--netcdf4}@*
@end cartouche
All @acronym{NCO} operators support (read and write) all three (or four,
@@ -3462,9 +3506,10 @@ workflows will utilize this format.
As mentioned above, all operators write use the input file format for
output files unless told otherwise.
-Toggling the short option @samp{-6} or the long option @samp{--64bit}
-switch (or its @var{key}- at var{value} equivalent @samp{--fl_fmt=64bit})
-produces the netCDF3 64-bit offset format named @code{64BIT}.
+Toggling the short option @samp{-6} or the long option @samp{--6} or
+ at samp{--64bit} (or their @var{key}- at var{value} equivalent
+ at samp{--fl_fmt=64bit}) produces the netCDF3 64-bit offset format named
+ at code{64BIT}.
@acronym{NCO} must be built with @w{netCDF 3.6} or higher to produce
a @code{64BIT} file.
Using the @samp{-4} switch (or its long option equivalents
@@ -4459,16 +4504,16 @@ cat > ~/ncdismember << 'EOF'
# Optional fourth argument cf_vrs is CF version to check
# Optional fifth argument opt passes straight through to ncks
# chmod a+x ~/sh/ncdismember
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp
-# ncdismember http://dust.ess.uci.edu/nco/mdl.nc /data/zender/nco/tmp
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp
+# ncdismember http://dust.ess.uci.edu/nco/mdl_1.nc /data/zender/nco/tmp
# ncdismember http://thredds-test.ucar.edu/thredds/dodsC/testdods/foo.nc /data/zender/nco/tmp
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf 1.3
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf 1.5 --fix_rec_dmn=all
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf 1.3
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf 1.5 --fix_rec_dmn=all
# Command line argument defaults
-fl_in="${HOME}/nco/data/mdl.nc" # [sng] Input file to dismember/check
+fl_in="${HOME}/nco/data/mdl_1.nc" # [sng] Input file to dismember/check
drc_out="${DATA}/nco/tmp" # [sng] Output directory
flg_cf='0' # [flg] Perform CF-compliance check
cf_vrs='1.5' # [sng] Compliance-check this CF version (e.g., '1.5')
@@ -4513,15 +4558,15 @@ EOF
chmod 755 ~/ncdismember # Make command executable
/bin/mv -f ~/ncdismember ~/sh # Store in location on $PATH, e.g., /usr/local/bin
-zender at roulee:~$ ncdismember ~/nco/data/mdl.nc ${DATA}/nco/tmp
-NCO dismembering file /home/zender/nco/data/mdl.nc
-/data/zender/nco/tmp/mdl.nc/cesm.cesm_01.nc
-/data/zender/nco/tmp/mdl.nc/cesm.cesm_02.nc
-/data/zender/nco/tmp/mdl.nc/cesm.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.ecmwf_01.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.ecmwf_02.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.nc
-/data/zender/nco/tmp/mdl.nc/root.nc
+zender at roulee:~$ ncdismember ~/nco/data/mdl_1.nc ${DATA}/nco/tmp
+NCO dismembering file /home/zender/nco/data/mdl_1.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.cesm_01.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.cesm_02.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.ecmwf_01.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.ecmwf_02.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.nc
+/data/zender/nco/tmp/mdl_1.nc/root.nc
@end verbatim
@end example
A (potentially more portable) binary executable could be written to
@@ -4559,8 +4604,8 @@ Forschungszentrum J@"ulich and distributed at
@command{cfchecker} command.
@example
@verbatim
-zender at roulee:~$ ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf
-NCO dismembering file /home/zender/nco/data/mdl.nc
+zender at roulee:~$ ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf
+NCO dismembering file /home/zender/nco/data/mdl_1.nc
CFchecker reports CF-compliance of each group in flat netCDF3 format
WARNING: Using the default (non-CF) Udunits database
cesm.cesm_01.nc:
@@ -4661,12 +4706,12 @@ LDFLAGS="-L${H5DIR}/lib -L${H4DIR}/lib" \
./configure --enable-hdf4 --enable-hdf4-file-tests
make && make check && make installas
-# 4. NCO version 4.4.2. No RPM for this version. Must install by hand.
+# 4. NCO version 4.4.3. No RPM for this version. Must install by hand.
# Earlier versions of NCO are relatively useless for ncdismember
cd ${DATA}/tmp
-wget http://nco.sourceforge.net/src/nco-4.4.2.tar.gz .
-tar xvzf nco-4.4.2.tar.gz
-cd nco-4.4.2
+wget http://nco.sourceforge.net/src/nco-4.4.3.tar.gz .
+tar xvzf nco-4.4.3.tar.gz
+cd nco-4.4.3
./configure --prefix=${NCODIR}
make && make install
@@ -4699,7 +4744,7 @@ sudo python setup.py install
mkdir -p ${DATA}/nco/tmp/hdf
# Many datasets work with a simpler command...
ncdismember ~/nco/data/in.nc ${DATA}/nco/tmp/hdf cf 1.5
-ncdismember ~/nco/data/mdl.nc ${DATA}/nco/tmp/hdf cf 1.5
+ncdismember ~/nco/data/mdl_1.nc ${DATA}/nco/tmp/hdf cf 1.5
ncdismember ${DATA}/hdf/AMSR_E_L2_Rain_V10_200905312326_A.hdf \
${DATA}/nco/tmp/hdf cf 1.5
ncdismember ${DATA}/hdf/BUV-Nimbus04_L3zm_v01-00-2012m0203t144121.h5 \
@@ -12804,6 +12849,7 @@ As such, it also performs file subtraction, addition, multiplication,
albeit in a more convoluted way than @command{ncbo}.
@html
+<a name="grp_brd"></a> <!-- http://nco.sf.net/nco.html#grp_brd -->
<a name="brd_grp"></a> <!-- http://nco.sf.net/nco.html#brd_grp -->
<a name="gb"></a> <!-- http://nco.sf.net/nco.html#gb -->
<a name="GB"></a> <!-- http://nco.sf.net/nco.html#GB -->
@@ -14031,7 +14077,7 @@ into an @acronym{HDF} file:
/usr/hdf4/bin/ncgen -b -o ~/in.hdf ~/in.cdl # HDF ncgen (local builds)
/usr/bin/hncgen -b -o ~/in.hdf ~/in.cdl # Same as HDF ncgen (RPM packages?)
/usr/bin/ncgen-hdf -b -o ~/in.hdf ~/in.cdl # Same as HDF ncgen (Debian packages?)
-hdp dumpsds ~/in.hdf # ncdump-equivalent for HDF4 files
+hdp dumpsds ~/in.hdf # ncdump/h5dump-equivalent for HDF4
@end example
Note that @acronym{HDF4} does not support netCDF-style groups, so the
above commands fail when the input file contains groups.
@@ -16417,7 +16463,7 @@ The primary contributors to @acronym{NCO} development have been:
@table @asis
@cindex Charlie Zender
@item Charlie Zender
-All concept, design and implementation from 1995-2000.
+All concept, design and implementation from 1995--2000.
Since then autotools, bug-squashing, @acronym{CDL}, chunking,
documentation, anchoring, recursion, @acronym{GPE}, packing,
@acronym{NCO} library redesign, @command{ncap2} features,
@@ -16442,10 +16488,13 @@ Long command-line options.
Original UDUnits support.
Debianization.
Numerous bug-fixes.
+ at cindex Joe Hamman
+ at item Joe Hamman
+Python bindings (NCOpy).
@cindex Daniel Wang
@item Daniel Wang
-Script Workflow Analysis for MultiProcessing (SWAMP).
-RPM support.
+Script Workflow Analysis for MultiProcessing (@acronym{SWAMP}).
+ at acronym{RPM} support.
@cindex Harry Mangalam
@item Harry Mangalam
Benchmarking.
@@ -16850,7 +16899,7 @@ The first example shows how to process flat files.
@end example
With the use of @key{group}, the above script
-will be shortened to just @w{TWO LINES}.
+will be shortened to just @w{ONE LINE}.
@cindex groups, averaging
@ignore
Isn't it amazing or what?!
@@ -16861,8 +16910,6 @@ Isn't it amazing or what?!
nces -O --nsm_grp --nsm_sfx='_avg' \
sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512.nc \
sn_LImon_all-mdl_all-xpt_nsm-avg.nc
-ncra -O -g 'avg$' sn_LImon_all-mdl_all-xpt_nsm-avg.nc \
- sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc
@end example
The input file, @file{sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512.nc}, produced by @file{cmb_fl_grp.sh},
includes all the ensemble members as groups.
@@ -16870,12 +16917,12 @@ The option @samp{--nsm_grp} denotes
that we are using @uref{http://nco.sf.net/nco.html#nsm_grp, group ensembles mode} of @command{nces},
instead of @uref{http://nco.sf.net/nco.html#nsm_fl, file ensembles mode}, @samp{--nsm_fl}.
The option @samp{--nsm_sfx='_avg'} instructs @command{nces}
-to store the output as a new child group @file{/[model]/[model name]_avg},
-instead of in the parent group @file{/[model]}.
+to store the output as a new child group @file{/[model]/[model name]_avg/var};
+otherwise, the output will be stored directly in the parent group @file{/[model]/var}.
In the final output file, @file{sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc},
sub-groups with a suffix of `avg' are the long-term averages of each model.
-Here, @samp{-g 'avg$'} is used to retrieve groups having 'avg' at the end of their names,
-i.e., the long-term average groups.
+One thing to notice is that for now,
+ensembles with only one ensemble member will be left untouched.
@node Annual Average over Regions, Monthly Cycle, Global Distribution of Long-term Average, CMIP5 Example
@section Annual Average over Regions
diff --git a/doc/nco.txt b/doc/nco.txt
index 200aff8..acf7f21 100644
--- a/doc/nco.txt
+++ b/doc/nco.txt
@@ -191,9 +191,9 @@ illustrates NCO use with examples from the field of climate modeling and
analysis. The NCO homepage is <http://nco.sf.net>, and there is a
mirror at <http://dust.ess.uci.edu/nco>.
- This documentation is for NCO version 4.4.2. It was last updated 19
-February 2014. Corrections, additions, and rewrites of this
-documentation are very welcome.
+ This documentation is for NCO version 4.4.3. It was last updated 2
+April 2014. Corrections, additions, and rewrites of this documentation
+are very welcome.
Enjoy,
Charlie Zender
@@ -353,7 +353,7 @@ Detailed instructions about how to download the newest version
descriptions of Known Problems (http://nco.sf.net/#bug) etc. are on our
homepage (<http://nco.sf.net/>).
- There are twelve operators in the current version (4.4.2). The
+ There are twelve operators in the current version (4.4.3). The
function of each is explained in *note Operator Reference Manual:
Operator Reference Manual. Many of the tasks that NCO can accomplish
are described during the explanation of common NCO Features (*note
@@ -696,21 +696,25 @@ it is now easy to convert HDF4 files to netCDF files directly, e.g.,
ncks fl.hdf fl.nc # Convert HDF4->netCDF4 (NCO 4.4.0+, netCDF 4.3.1+)
ncks --hdf4 fl.hdf fl.nc # Convert HDF4->netCDF4 (NCO 4.3.7-4.3.9)
The most efficient and accurate way to convert HDF4 data to netCDF
-format is to convert to netCDF4 using NCO as above. It suffices when
-the data will only be processed by NCO, or other netCDF4-aware tools.
-However, many tools are not fully netCDF4-aware, and so conversion to
-netCDF3 may be desirable.
-
- Obtaining a netCDF3 file from an HDF4 is now easy, even though the
-HDF4 file may contain netCDF4 atomic types (e.g., unsigned bytes, 64-bit
-integers):
+format is to convert to netCDF4 using NCO as above. Many HDF4 producers
+(NASA!) love to use netCDF4 types, e.g., unsigned bytes, so this
+procedure is the most typical. Conversion of HDF4 to netCDF4 as above
+suffices when the data will only be processed by NCO and other
+netCDF4-aware tools.
+
+ However, many tools are not fully netCDF4-aware, and so conversion to
+netCDF3 may be desirable. Obtaining a netCDF3 file from an HDF4 is now
+easy:
ncks -3 fl.hdf fl.nc # HDF4->netCDF3 (NCO 4.4.0+, netCDF 4.3.1+)
- ncks -7 -L 1 fl.hdf fl.nc # HDF4->netCDF4 (NCO 4.4.0+, netCDF 4.3.1+)
+ ncks -6 fl.hdf fl.nc # HDF4->netCDF3 64-bit (NCO 4.4.0+, ...)
+ ncks -7 -L 1 fl.hdf fl.nc # HDF4->netCDF4 classic (NCO 4.4.0+, ...)
ncks --hdf4 -3 fl.hdf fl.nc # HDF4->netCDF3 (netCDF 4.3.0-)
+ ncks --hdf4 -6 fl.hdf fl.nc # HDF4->netCDF3 64-bit (netCDF 4.3.0-)
ncks --hdf4 -7 fl.hdf fl.nc # HDF4->netCDF4 classic (netCDF 4.3.0-)
- As of NCO version 4.4.0 (January, 2014), these commands work with
-netCDF4 atomic types (4). Many HDF4 producers (NASA!) love to use
-netCDF4 types, e.g., unsigned bytes.
+ As of NCO version 4.4.0 (January, 2014), these commands work even
+when the HDF4 file contains netCDF4 atomic types (e.g., unsigned bytes,
+64-bit integers) because NCO can autoconvert everything to atomic types
+supported by netCDF3 (4).
As of 2012, netCDF4 is relatively stable software. Problems with
netCDF4 and HDF libraries have mainly been fixed. Binary NCO
@@ -760,7 +764,12 @@ In contrast, 'ncks' will happily convert HDF straight to netCDF4 files
with netCDF4 types. Hence 'ncks' can and does preserve the variable
types. Unsigned bytes stay unsigned bytes. 64-bit integers stay 64-bit
integers. Strings stay strings. Hence, 'ncks' conversions often result
-in smaller files than 'ncl_convert2nc' conversions.
+in smaller files than 'ncl_convert2nc' conversions. Finally, in
+February 2014, we learned that the HDF group has a project called H4CF
+whose goal is to make HDF4 files accessible to CF tools and conventions.
+Their project includes a tool named 'h4tonccf' that converts HDF4 files
+to netCDF3 or netCDF4 files. We know of no features in 'h4tonccf' that
+are not in NCO. Corrections welcome.
1.7 Help Requests and Bug Reports
=================================
@@ -1939,6 +1948,26 @@ machine) for the number-crunching to begin. The advantages of this are
obvious if you are examining small parts of large files stored at remote
locations.
+ Natually there are many versions of OPeNDAP servers supplying data
+and bugs in the server can appear to be bugs in NCO. However, with very
+few exceptions (5) an NCO command that works on a local file must work
+across an OPeNDAP connection or else there is a bug in the server. This
+is because NCO does nothing special to handle files served by OPeNDAP,
+the whole process is (supposed to be) completely transparent to the
+client NCO software. Therefore it is often useful to try NCO commands
+on various OPeNDAP servers in order to isolate whether a problem may be
+due to a bug in the OPeNDAP server on a particular machine. For this
+purpose, one might try variations of the following commands that access
+files on public OPeNDAP servers:
+ # Strided access to HDF5 file
+ ncks -v Time -d Time,0,10,2 http://eosdap.hdfgroup.uiuc.edu:8080/opendap/data/NASAFILES/hdf5/BUV-Nimbus04_L3zm_v01-00-2012m0203t144121.h5
+ # Strided access to netCDF3 file
+ ncks -O -D 1 -d time,1 -d lev,0 -d lat,0,100,10 -d lon,0,100,10 -v u_velocity http://nomads.ncep.noaa.gov:9090/dods/rtofs/rtofs_global20140303/rtofs_glo_2ds_forecast_daily_prog ~/foo.nc
+These servers were operational at the time of writing, March 2014.
+Unfortunately, administrators often move or rename path directories.
+Recommendations for additional public OPeNDAP servers on which to test
+NCO are welcome.
+
---------- Footnotes ----------
(1) DODS is being deprecated because it is ambiguous, referring both
@@ -1971,6 +2000,11 @@ including sophisticated hyperslabbing and server-side processing via
writing a section on "OPeNDAP Capabilities of Interest to NCO Users" for
incorporation in the 'NCO User Guide'.
+ (5) For example, DAP servers do not like variables with periods (".")
+in their names even though this is perfectly legal with netCDF. Such
+names may cause the DAP service to fail because DAP interprets the
+period as structure delimiter in an HTTP query string.
+
3.8 Retaining Retrieved Files
=============================
@@ -2017,7 +2051,8 @@ other preferred methods are not available locally.
Availability: 'ncap2', 'ncbo', 'nces', 'ncecat', 'ncflint', 'ncks',
'ncpdq', 'ncra', 'ncrcat', 'ncwa'
Short options: '-3', '-4', '-6', '-7'
-Long options: '--3', '--4', '--64bit', '--7', '--fl_fmt', '--netcdf4'
+Long options: '--3', '--4', '--6', '--64bit', '--7', '--fl_fmt',
+'--netcdf4'
All NCO operators support (read and write) all three (or four,
depending on how one counts) file formats supported by netCDF4. The
default output file format for all operators is the input file format.
@@ -2058,7 +2093,7 @@ will utilize this format.
As mentioned above, all operators write use the input file format for
output files unless told otherwise. Toggling the short option '-6' or
-the long option '--64bit' switch (or its KEY-VALUE equivalent
+the long option '--6' or '--64bit' (or their KEY-VALUE equivalent
'--fl_fmt=64bit') produces the netCDF3 64-bit offset format named
'64BIT'. NCO must be built with netCDF 3.6 or higher to produce a
'64BIT' file. Using the '-4' switch (or its long option equivalents
@@ -2738,16 +2773,16 @@ specified by the second argument:
# Optional fourth argument cf_vrs is CF version to check
# Optional fifth argument opt passes straight through to ncks
# chmod a+x ~/sh/ncdismember
- # ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp
- # ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp
- # ncdismember http://dust.ess.uci.edu/nco/mdl.nc /data/zender/nco/tmp
+ # ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp
+ # ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp
+ # ncdismember http://dust.ess.uci.edu/nco/mdl_1.nc /data/zender/nco/tmp
# ncdismember http://thredds-test.ucar.edu/thredds/dodsC/testdods/foo.nc /data/zender/nco/tmp
- # ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf
- # ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf 1.3
- # ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf 1.5 --fix_rec_dmn=all
+ # ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf
+ # ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf 1.3
+ # ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf 1.5 --fix_rec_dmn=all
# Command line argument defaults
- fl_in="${HOME}/nco/data/mdl.nc" # [sng] Input file to dismember/check
+ fl_in="${HOME}/nco/data/mdl_1.nc" # [sng] Input file to dismember/check
drc_out="${DATA}/nco/tmp" # [sng] Output directory
flg_cf='0' # [flg] Perform CF-compliance check
cf_vrs='1.5' # [sng] Compliance-check this CF version (e.g., '1.5')
@@ -2792,15 +2827,15 @@ specified by the second argument:
chmod 755 ~/ncdismember # Make command executable
/bin/mv -f ~/ncdismember ~/sh # Store in location on $PATH, e.g., /usr/local/bin
- zender at roulee:~$ ncdismember ~/nco/data/mdl.nc ${DATA}/nco/tmp
- NCO dismembering file /home/zender/nco/data/mdl.nc
- /data/zender/nco/tmp/mdl.nc/cesm.cesm_01.nc
- /data/zender/nco/tmp/mdl.nc/cesm.cesm_02.nc
- /data/zender/nco/tmp/mdl.nc/cesm.nc
- /data/zender/nco/tmp/mdl.nc/ecmwf.ecmwf_01.nc
- /data/zender/nco/tmp/mdl.nc/ecmwf.ecmwf_02.nc
- /data/zender/nco/tmp/mdl.nc/ecmwf.nc
- /data/zender/nco/tmp/mdl.nc/root.nc
+ zender at roulee:~$ ncdismember ~/nco/data/mdl_1.nc ${DATA}/nco/tmp
+ NCO dismembering file /home/zender/nco/data/mdl_1.nc
+ /data/zender/nco/tmp/mdl_1.nc/cesm.cesm_01.nc
+ /data/zender/nco/tmp/mdl_1.nc/cesm.cesm_02.nc
+ /data/zender/nco/tmp/mdl_1.nc/cesm.nc
+ /data/zender/nco/tmp/mdl_1.nc/ecmwf.ecmwf_01.nc
+ /data/zender/nco/tmp/mdl_1.nc/ecmwf.ecmwf_02.nc
+ /data/zender/nco/tmp/mdl_1.nc/ecmwf.nc
+ /data/zender/nco/tmp/mdl_1.nc/root.nc
A (potentially more portable) binary executable could be written to
dismember all groups with a single invocation, yet dismembering without
loss of information is possible now with this simple script on all
@@ -2820,8 +2855,8 @@ autoconverts netCDF4-only atomic-types (such as 'NC_STRING' and
group in a file. When invoked with the optional third argumnt 'cf',
'ncdismember' passes each file it generates to the freely available (2)
'cfchecker' command.
- zender at roulee:~$ ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf
- NCO dismembering file /home/zender/nco/data/mdl.nc
+ zender at roulee:~$ ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf
+ NCO dismembering file /home/zender/nco/data/mdl_1.nc
CFchecker reports CF-compliance of each group in flat netCDF3 format
WARNING: Using the default (non-CF) Udunits database
cesm.cesm_01.nc:
@@ -2910,12 +2945,12 @@ necessary to check HDF files for CF-compliance:
./configure --enable-hdf4 --enable-hdf4-file-tests
make && make check && make installas
- # 4. NCO version 4.4.2. No RPM for this version. Must install by hand.
+ # 4. NCO version 4.4.3. No RPM for this version. Must install by hand.
# Earlier versions of NCO are relatively useless for ncdismember
cd ${DATA}/tmp
- wget http://nco.sourceforge.net/src/nco-4.4.2.tar.gz .
- tar xvzf nco-4.4.2.tar.gz
- cd nco-4.4.2
+ wget http://nco.sourceforge.net/src/nco-4.4.3.tar.gz .
+ tar xvzf nco-4.4.3.tar.gz
+ cd nco-4.4.3
./configure --prefix=${NCODIR}
make && make install
@@ -2948,7 +2983,7 @@ necessary to check HDF files for CF-compliance:
mkdir -p ${DATA}/nco/tmp/hdf
# Many datasets work with a simpler command...
ncdismember ~/nco/data/in.nc ${DATA}/nco/tmp/hdf cf 1.5
- ncdismember ~/nco/data/mdl.nc ${DATA}/nco/tmp/hdf cf 1.5
+ ncdismember ~/nco/data/mdl_1.nc ${DATA}/nco/tmp/hdf cf 1.5
ncdismember ${DATA}/hdf/AMSR_E_L2_Rain_V10_200905312326_A.hdf \
${DATA}/nco/tmp/hdf cf 1.5
ncdismember ${DATA}/hdf/BUV-Nimbus04_L3zm_v01-00-2012m0203t144121.h5 \
@@ -9262,7 +9297,7 @@ features::.
/usr/hdf4/bin/ncgen -b -o ~/in.hdf ~/in.cdl # HDF ncgen (local builds)
/usr/bin/hncgen -b -o ~/in.hdf ~/in.cdl # Same as HDF ncgen (RPM packages?)
/usr/bin/ncgen-hdf -b -o ~/in.hdf ~/in.cdl # Same as HDF ncgen (Debian packages?)
- hdp dumpsds ~/in.hdf # ncdump-equivalent for HDF4 files
+ hdp dumpsds ~/in.hdf # ncdump/h5dump-equivalent for HDF4
Note that HDF4 does not support netCDF-style groups, so the above
commands fail when the input file contains groups. Only netCDF4
and HDF5 support groups. In our experience the HDF 'ncgen'
@@ -10710,8 +10745,10 @@ Henry Butowsky
Rorik Peterson
Original autotool build support. Long command-line options.
Original UDUnits support. Debianization. Numerous bug-fixes.
+Joe Hamman
+ Python bindings (NCOpy).
Daniel Wang
- Script Workflow Analysis for MultiProcessing (SWAMP). RPM support.
+ Script Workflow Analysis for MultiProcessing (SWAMP). RPM support.
Harry Mangalam
Benchmarking. OPeNDAP configuration.
Pedro Vicente
@@ -11217,26 +11254,24 @@ steps include:
done
With the use of <group>, the above script will be shortened to just
-TWO LINES.
+ONE LINE.
# Data from cmb_fl_grp.sh
# ensemble averaging
nces -O --nsm_grp --nsm_sfx='_avg' \
sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512.nc \
sn_LImon_all-mdl_all-xpt_nsm-avg.nc
- ncra -O -g 'avg$' sn_LImon_all-mdl_all-xpt_nsm-avg.nc \
- sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc
The input file, 'sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512.nc',
produced by 'cmb_fl_grp.sh', includes all the ensemble members as
groups. The option '--nsm_grp' denotes that we are using group
ensembles mode (http://nco.sf.net/nco.html#nsm_grp) of 'nces', instead
of file ensembles mode (http://nco.sf.net/nco.html#nsm_fl), '--nsm_fl'.
The option '--nsm_sfx='_avg'' instructs 'nces' to store the output as a
-new child group '/[model]/[model name]_avg', instead of in the parent
-group '/[model]'. In the final output file,
-'sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc', sub-groups with a suffix
-of 'avg' are the long-term averages of each model. Here, '-g 'avg$'' is
-used to retrieve groups having 'avg' at the end of their names, i.e.,
-the long-term average groups.
+new child group '/[model]/[model name]_avg/var'; otherwise, the output
+will be stored directly in the parent group '/[model]/var'. In the
+final output file, 'sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc',
+sub-groups with a suffix of 'avg' are the long-term averages of each
+model. One thing to notice is that for now, ensembles with only one
+ensemble member will be left untouched.
7.3 Annual Average over Regions
===============================
@@ -11665,11 +11700,11 @@ will be shortened.
drc='../data/grp/'
# Constants
- pfx='sn_LImon_all-mdl_all-xpt_all-nsm_200001-20051'
+ pfx='sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512'
# Greenland
ncwa -O -w gw -d lat,60.0,75.0 -d lon,300.0,340.0 -a lat,lon \
- ${drc}${pfx}.nc ${drc}${pfx}_grl
+ ${drc}${pfx}.nc ${drc}${pfx}_grl.nc
# Anomaly from annual average of each year
for yyyy in {2000..2005}; do
@@ -12291,923 +12326,925 @@ General Index
* Menu:
* '"' (double quote): ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* '#include': Syntax of ncap2 statements.
- (line 5534)
-* '$' (wildcard character): Subsetting Files. (line 2481)
+ (line 5569)
+* '$' (wildcard character): Subsetting Files. (line 2516)
* '%' (modulus): Intrinsic mathematical methods.
- (line 7868)
+ (line 7903)
* ''' (end quote): ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* '*': ncbo netCDF Binary Operator.
- (line 8410)
-* '*' (filename expansion): Subsetting Files. (line 2481)
+ (line 8445)
+* '*' (filename expansion): Subsetting Files. (line 2516)
* '*' (multiplication): Intrinsic mathematical methods.
- (line 7868)
-* '*' (wildcard character): Subsetting Files. (line 2488)
+ (line 7903)
+* '*' (wildcard character): Subsetting Files. (line 2523)
* '+': ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* '+' (addition): Intrinsic mathematical methods.
- (line 7868)
-* '+' (wildcard character): Subsetting Files. (line 2488)
+ (line 7903)
+* '+' (wildcard character): Subsetting Files. (line 2523)
* '-': ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* '-' (subtraction): Intrinsic mathematical methods.
- (line 7868)
+ (line 7903)
* '--3': File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '--4': File Formats and Conversion.
- (line 2034)
+ (line 2068)
+* '--6': File Formats and Conversion.
+ (line 2068)
* '--64bit': File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '--7': File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '--abc': ncks netCDF Kitchen Sink.
- (line 9236)
+ (line 9271)
* '--alphabetize': ncks netCDF Kitchen Sink.
- (line 9236)
+ (line 9271)
* '--apn': Temporary Output Files.
- (line 961)
-* '--apn' <1>: Batch Mode. (line 5192)
+ (line 970)
+* '--apn' <1>: Batch Mode. (line 5227)
* '--apn' <2>: Filters for 'ncks'.
- (line 9664)
+ (line 9699)
* '--append': Temporary Output Files.
- (line 961)
-* '--append' <1>: Batch Mode. (line 5192)
+ (line 970)
+* '--append' <1>: Batch Mode. (line 5227)
* '--append' <2>: Filters for 'ncks'.
- (line 9664)
+ (line 9699)
* '--auxiliary': Auxiliary Coordinates.
- (line 3524)
+ (line 3559)
* '--auxiliary LON_MIN,LON_MAX,LAT_MIN,LAT_MAX': Auxiliary Coordinates.
- (line 3524)
-* '--bfr_sz_hnt': Buffer sizes. (line 4295)
+ (line 3559)
+* '--bfr_sz_hnt': Buffer sizes. (line 4330)
* '--binary': ncks netCDF Kitchen Sink.
- (line 9246)
+ (line 9281)
* '--bnr': ncks netCDF Kitchen Sink.
- (line 9246)
+ (line 9281)
* '--cdl': ncks netCDF Kitchen Sink.
- (line 9288)
-* '--cell_methods': CF Conventions. (line 5348)
-* '--chunk_byte': Chunking. (line 3992)
-* '--chunk_dimension': Chunking. (line 3992)
-* '--chunk_map': Chunking. (line 3992)
-* '--chunk_policy': Chunking. (line 3992)
-* '--chunk_scalar': Chunking. (line 3992)
-* '--cll_mth': CF Conventions. (line 5348)
-* '--cnk_byt': Chunking. (line 3992)
-* '--cnk_dmn': Chunking. (line 3992)
-* '--cnk_map': Chunking. (line 3992)
-* '--cnk_map CNK_MAP': Chunking. (line 4069)
-* '--cnk_plc': Chunking. (line 3992)
-* '--cnk_scl': Chunking. (line 3992)
+ (line 9323)
+* '--cell_methods': CF Conventions. (line 5383)
+* '--chunk_byte': Chunking. (line 4027)
+* '--chunk_dimension': Chunking. (line 4027)
+* '--chunk_map': Chunking. (line 4027)
+* '--chunk_policy': Chunking. (line 4027)
+* '--chunk_scalar': Chunking. (line 4027)
+* '--cll_mth': CF Conventions. (line 5383)
+* '--cnk_byt': Chunking. (line 4027)
+* '--cnk_dmn': Chunking. (line 4027)
+* '--cnk_map': Chunking. (line 4027)
+* '--cnk_map CNK_MAP': Chunking. (line 4104)
+* '--cnk_plc': Chunking. (line 4027)
+* '--cnk_scl': Chunking. (line 4027)
* '--coords': Subsetting Coordinate Variables.
- (line 2558)
-* '--coords' <1>: CF Conventions. (line 5337)
+ (line 2593)
+* '--coords' <1>: CF Conventions. (line 5372)
* '--crd': Subsetting Coordinate Variables.
- (line 2558)
-* '--crd' <1>: CF Conventions. (line 5337)
+ (line 2593)
+* '--crd' <1>: CF Conventions. (line 5372)
* '--create_ram': Temporary Output Files.
- (line 919)
-* '--create_ram' <1>: RAM disks. (line 4326)
+ (line 928)
+* '--create_ram' <1>: RAM disks. (line 4361)
* '--data': ncks netCDF Kitchen Sink.
- (line 9336)
+ (line 9371)
* '--dbg_lvl DEBUG-LEVEL': Help Requests and Bug Reports.
- (line 834)
-* '--dbg_lvl DEBUG-LEVEL' <1>: Large Datasets. (line 1293)
+ (line 843)
+* '--dbg_lvl DEBUG-LEVEL' <1>: Large Datasets. (line 1302)
* '--dbg_lvl DEBUG-LEVEL' <2>: Command Line Options.
- (line 1576)
+ (line 1585)
* '--dbl': Promoting Single-precision to Double.
- (line 4839)
+ (line 4874)
* '--debug-level DEBUG-LEVEL': Help Requests and Bug Reports.
- (line 834)
-* '--debug-level DEBUG-LEVEL' <1>: Large Datasets. (line 1293)
-* '--deflate': Deflation. (line 4188)
-* '--dfl_lvl': Deflation. (line 4188)
-* '--dimension DIM,[MIN],[MAX],STRIDE': Stride. (line 3142)
+ (line 843)
+* '--debug-level DEBUG-LEVEL' <1>: Large Datasets. (line 1302)
+* '--deflate': Deflation. (line 4223)
+* '--dfl_lvl': Deflation. (line 4223)
+* '--dimension DIM,[MIN],[MAX],STRIDE': Stride. (line 3177)
* '--dimension DIM,[MIN],[MAX],[STRIDE],[SUBCYCLE]': Subcycle.
- (line 3254)
-* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3038)
+ (line 3289)
+* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3073)
* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs.
- (line 3330)
+ (line 3365)
* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]' <2>: Wrapped Coordinates.
- (line 3474)
+ (line 3509)
* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]' <3>: UDUnits Support.
- (line 3634)
+ (line 3669)
* '--diskless_all': Memory Requirements.
- (line 1304)
-* '--diskless_all' <1>: RAM disks. (line 4326)
-* '--dmn DIM,[MIN],[MAX],STRIDE': Stride. (line 3142)
-* '--dmn DIM,[MIN],[MAX],[STRIDE],SUBCYCLE]': Subcycle. (line 3254)
-* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3038)
-* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs. (line 3330)
+ (line 1313)
+* '--diskless_all' <1>: RAM disks. (line 4361)
+* '--dmn DIM,[MIN],[MAX],STRIDE': Stride. (line 3177)
+* '--dmn DIM,[MIN],[MAX],[STRIDE],SUBCYCLE]': Subcycle. (line 3289)
+* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3073)
+* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs. (line 3365)
* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]' <2>: Wrapped Coordinates.
- (line 3474)
+ (line 3509)
* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]' <3>: UDUnits Support.
- (line 3634)
+ (line 3669)
* '--ensemble_file': nces netCDF Ensemble Statistics.
- (line 8701)
+ (line 8736)
* '--ensemble_group': nces netCDF Ensemble Statistics.
- (line 8701)
+ (line 8736)
* '--ensemble_suffix': nces netCDF Ensemble Statistics.
- (line 8701)
-* '--exclude': Subsetting Files. (line 2315)
+ (line 8736)
+* '--exclude': Subsetting Files. (line 2350)
* '--exclude' <1>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* '--file_format': File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '--file_list': File List Attributes.
- (line 5240)
-* '--fix_rec_dmn all': Autoconversion. (line 2246)
+ (line 5275)
+* '--fix_rec_dmn all': Autoconversion. (line 2281)
* '--fix_rec_dmn DIM': ncks netCDF Kitchen Sink.
- (line 9251)
+ (line 9286)
* '--flt': Promoting Single-precision to Double.
- (line 4839)
+ (line 4874)
* '--fl_bnr': ncks netCDF Kitchen Sink.
- (line 9246)
+ (line 9281)
* '--fl_fmt': File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '--fl_lst_in': File List Attributes.
- (line 5240)
+ (line 5275)
* '--fl_out FL_OUT': Specifying Output Files.
- (line 1735)
+ (line 1744)
* '--fl_spt': ncap2 netCDF Arithmetic Processor.
- (line 5472)
+ (line 5507)
* '--fnc_tbl': Intrinsic mathematical methods.
- (line 7975)
+ (line 8010)
* '--fortran': C and Fortran Index Conventions.
- (line 3001)
+ (line 3036)
* '--gag': ncecat netCDF Ensemble Concatenator.
- (line 8873)
-* '--gag' <1>: Combine Files. (line 11076)
+ (line 8908)
+* '--gag' <1>: Combine Files. (line 11113)
* '--glb_mtd_spp': ncecat netCDF Ensemble Concatenator.
- (line 8899)
+ (line 8934)
* '--gpe GPE_DSC': Group Path Editing.
- (line 2583)
-* '--group GRP': Subsetting Files. (line 2315)
-* '--grp GRP': Subsetting Files. (line 2315)
+ (line 2618)
+* '--group GRP': Subsetting Files. (line 2350)
+* '--grp GRP': Subsetting Files. (line 2350)
* '--hdf4': netCDF2/3/4 and HDF4/5 Support.
(line 674)
-* '--hdf_unpack': Packed data. (line 4413)
-* '--hdf_upk': Packed data. (line 4413)
+* '--hdf_unpack': Packed data. (line 4448)
+* '--hdf_upk': Packed data. (line 4448)
* '--hdn': ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* '--hdr_pad HDR_PAD': Metadata Optimization.
- (line 1474)
+ (line 1483)
* '--header_pad HDR_PAD': Metadata Optimization.
- (line 1474)
+ (line 1483)
* '--hidden': ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* '--hieronymus': ncks netCDF Kitchen Sink.
- (line 9336)
-* '--history': History Attribute. (line 5212)
-* '--hst': History Attribute. (line 5212)
-* '--intersection': Subsetting Files. (line 2406)
-* '--lcl OUTPUT-PATH': Remote storage. (line 1767)
-* '--local OUTPUT-PATH': Remote storage. (line 1767)
-* '--map CNK_MAP': Chunking. (line 4069)
+ (line 9371)
+* '--history': History Attribute. (line 5247)
+* '--hst': History Attribute. (line 5247)
+* '--intersection': Subsetting Files. (line 2441)
+* '--lcl OUTPUT-PATH': Remote storage. (line 1776)
+* '--local OUTPUT-PATH': Remote storage. (line 1776)
+* '--map CNK_MAP': Chunking. (line 4104)
* '--map PCK_MAP': ncpdq netCDF Permute Dimensions Quickly.
- (line 9873)
-* '--mask-value MASK_VAL': Mask condition. (line 10581)
+ (line 9908)
+* '--mask-value MASK_VAL': Mask condition. (line 10616)
* '--mask-variable MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10513)
-* '--mask_comparator MASK_COMP': Mask condition. (line 10567)
+ (line 10548)
+* '--mask_comparator MASK_COMP': Mask condition. (line 10602)
* '--mask_condition MASK_COND': ncwa netCDF Weighted Averager.
- (line 10513)
-* '--mask_condition MASK_COND' <1>: Mask condition. (line 10567)
-* '--mask_value MASK_VAL': Mask condition. (line 10581)
+ (line 10548)
+* '--mask_condition MASK_COND' <1>: Mask condition. (line 10602)
+* '--mask_value MASK_VAL': Mask condition. (line 10616)
* '--mask_variable MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10513)
-* '--md5_dgs': MD5 digests. (line 4225)
-* '--md5_digest': MD5 digests. (line 4225)
-* '--md5_write_attribute': MD5 digests. (line 4225)
-* '--md5_wrt_att': MD5 digests. (line 4225)
+ (line 10548)
+* '--md5_dgs': MD5 digests. (line 4260)
+* '--md5_digest': MD5 digests. (line 4260)
+* '--md5_write_attribute': MD5 digests. (line 4260)
+* '--md5_wrt_att': MD5 digests. (line 4260)
* '--Metadata': ncks netCDF Kitchen Sink.
- (line 9381)
+ (line 9416)
* '--metadata': ncks netCDF Kitchen Sink.
- (line 9424)
+ (line 9459)
* '--mk_rec_dmn DIM': ncecat netCDF Ensemble Concatenator.
- (line 8958)
+ (line 8993)
* '--mk_rec_dmn DIM' <1>: ncks netCDF Kitchen Sink.
- (line 9328)
+ (line 9363)
* '--mrd': Multiple Record Dimensions.
- (line 3841)
-* '--mro': Subcycle. (line 3254)
-* '--msa': Multislabs. (line 3330)
-* '--msa_user_order': Multislabs. (line 3330)
-* '--msa_usr_rdr': Multislabs. (line 3330)
-* '--msk_cmp_typ MASK_COMP': Mask condition. (line 10567)
+ (line 3876)
+* '--mro': Subcycle. (line 3289)
+* '--msa': Multislabs. (line 3365)
+* '--msa_user_order': Multislabs. (line 3365)
+* '--msa_usr_rdr': Multislabs. (line 3365)
+* '--msk_cmp_typ MASK_COMP': Mask condition. (line 10602)
* '--msk_cnd MASK_COND': ncwa netCDF Weighted Averager.
- (line 10513)
-* '--msk_cnd_sng MASK_COND': Mask condition. (line 10567)
+ (line 10548)
+* '--msk_cnd_sng MASK_COND': Mask condition. (line 10602)
* '--msk_nm MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10513)
-* '--msk_val MASK_VAL': Mask condition. (line 10581)
+ (line 10548)
+* '--msk_val MASK_VAL': Mask condition. (line 10616)
* '--msk_var MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10513)
+ (line 10548)
* '--Mtd': ncks netCDF Kitchen Sink.
- (line 9381)
+ (line 9416)
* '--mtd': ncks netCDF Kitchen Sink.
- (line 9424)
+ (line 9459)
* '--multiple_record_dimensions': Multiple Record Dimensions.
- (line 3841)
+ (line 3876)
* '--ncml': ncks netCDF Kitchen Sink.
- (line 9473)
+ (line 9508)
* '--netcdf4': File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '--nintap LOOP': Specifying Input Files.
- (line 1632)
+ (line 1641)
* '--no-blank': ncks netCDF Kitchen Sink.
- (line 9437)
+ (line 9472)
* '--no-coords': Subsetting Coordinate Variables.
- (line 2558)
-* '--no-coords' <1>: CF Conventions. (line 5337)
+ (line 2593)
+* '--no-coords' <1>: CF Conventions. (line 5372)
* '--no-crd': Subsetting Coordinate Variables.
- (line 2558)
-* '--no-crd' <1>: CF Conventions. (line 5337)
+ (line 2593)
+* '--no-crd' <1>: CF Conventions. (line 5372)
* '--noblank': ncks netCDF Kitchen Sink.
- (line 9437)
+ (line 9472)
* '--no_blank': ncks netCDF Kitchen Sink.
- (line 9437)
-* '--no_cell_methods': CF Conventions. (line 5348)
-* '--no_cll_mth': CF Conventions. (line 5348)
+ (line 9472)
+* '--no_cell_methods': CF Conventions. (line 5383)
+* '--no_cll_mth': CF Conventions. (line 5383)
* '--no_rec_dmn DIM': ncks netCDF Kitchen Sink.
- (line 9251)
+ (line 9286)
* '--no_tmp_fl': Temporary Output Files.
- (line 919)
-* '--no_tmp_fl' <1>: RAM disks. (line 4406)
+ (line 928)
+* '--no_tmp_fl' <1>: RAM disks. (line 4441)
* '--nsm_fl': nces netCDF Ensemble Statistics.
- (line 8701)
+ (line 8736)
* '--nsm_grp': nces netCDF Ensemble Statistics.
- (line 8701)
+ (line 8736)
* '--nsm_sfx': nces netCDF Ensemble Statistics.
- (line 8701)
-* '--nsx': Subsetting Files. (line 2406)
-* '--omp_num_threads THR_NBR': OpenMP Threading. (line 1495)
+ (line 8736)
+* '--nsx': Subsetting Files. (line 2441)
+* '--omp_num_threads THR_NBR': OpenMP Threading. (line 1504)
* '--open_ram': Temporary Output Files.
- (line 919)
+ (line 928)
* '--open_ram' <1>: Memory Requirements.
- (line 1304)
-* '--open_ram' <2>: RAM disks. (line 4326)
-* '--operation OP_TYP': Operation Types. (line 4550)
+ (line 1313)
+* '--open_ram' <2>: RAM disks. (line 4361)
+* '--operation OP_TYP': Operation Types. (line 4585)
* '--operation OP_TYP' <1>: ncbo netCDF Binary Operator.
- (line 8410)
-* '--op_rlt MASK_COMP': Mask condition. (line 10567)
-* '--op_typ OP_TYP': Operation Types. (line 4550)
+ (line 8445)
+* '--op_rlt MASK_COMP': Mask condition. (line 10602)
+* '--op_typ OP_TYP': Operation Types. (line 4585)
* '--op_typ OP_TYP' <1>: ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* '--output FL_OUT': Specifying Output Files.
- (line 1735)
+ (line 1744)
* '--overwrite': Temporary Output Files.
- (line 961)
-* '--overwrite' <1>: Batch Mode. (line 5192)
+ (line 970)
+* '--overwrite' <1>: Batch Mode. (line 5227)
* '--ovr': Temporary Output Files.
- (line 961)
-* '--ovr' <1>: Batch Mode. (line 5192)
+ (line 970)
+* '--ovr' <1>: Batch Mode. (line 5227)
* '--pack_policy PCK_PLC': ncpdq netCDF Permute Dimensions Quickly.
- (line 9806)
+ (line 9841)
* '--path INPUT-PATH': Specifying Input Files.
- (line 1632)
-* '--path INPUT-PATH' <1>: Remote storage. (line 1767)
+ (line 1641)
+* '--path INPUT-PATH' <1>: Remote storage. (line 1776)
* '--pck_map PCK_MAP': ncpdq netCDF Permute Dimensions Quickly.
- (line 9873)
+ (line 9908)
* '--pck_plc PCK_PLC': ncpdq netCDF Permute Dimensions Quickly.
- (line 9806)
+ (line 9841)
* '--print': ncks netCDF Kitchen Sink.
- (line 9445)
+ (line 9480)
* '--prn': ncks netCDF Kitchen Sink.
- (line 9445)
+ (line 9480)
* '--prn_fnc_tbl': Intrinsic mathematical methods.
- (line 7975)
+ (line 8010)
* '--pseudonym': Symbolic Links. (line 534)
* '--pth INPUT-PATH': Specifying Input Files.
- (line 1632)
-* '--pth INPUT-PATH' <1>: Remote storage. (line 1767)
+ (line 1641)
+* '--pth INPUT-PATH' <1>: Remote storage. (line 1776)
* '--quiet': ncks netCDF Kitchen Sink.
- (line 9457)
+ (line 9492)
* '--ram_all': Memory Requirements.
- (line 1304)
-* '--ram_all' <1>: RAM disks. (line 4326)
+ (line 1313)
+* '--ram_all' <1>: RAM disks. (line 4361)
* '--rcd_nm ULM_NM': ncecat netCDF Ensemble Concatenator.
- (line 8848)
-* '--record_append': Record Appending. (line 3203)
-* '--rec_apn': Record Appending. (line 3203)
+ (line 8883)
+* '--record_append': Record Appending. (line 3238)
+* '--rec_apn': Record Appending. (line 3238)
* '--retain': Retaining Retrieved Files.
- (line 1994)
+ (line 2028)
* '--revision': Help Requests and Bug Reports.
- (line 834)
-* '--revision' <1>: Operator Version. (line 5422)
+ (line 843)
+* '--revision' <1>: Operator Version. (line 5457)
* '--rth_dbl': Promoting Single-precision to Double.
- (line 4839)
+ (line 4874)
* '--rth_flt': Promoting Single-precision to Double.
- (line 4839)
+ (line 4874)
* '--rtn': Retaining Retrieved Files.
- (line 1994)
+ (line 2028)
* '--script': ncap2 netCDF Arithmetic Processor.
- (line 5472)
+ (line 5507)
* '--script-file': ncap2 netCDF Arithmetic Processor.
- (line 5472)
+ (line 5507)
* '--sng_fmt': ncks netCDF Kitchen Sink.
- (line 9465)
+ (line 9500)
* '--spt': ncap2 netCDF Arithmetic Processor.
- (line 5472)
+ (line 5507)
* '--string': ncks netCDF Kitchen Sink.
- (line 9465)
-* '--threads THR_NBR': OpenMP Threading. (line 1495)
-* '--thr_nbr THR_NBR': OpenMP Threading. (line 1495)
+ (line 9500)
+* '--threads THR_NBR': OpenMP Threading. (line 1504)
+* '--thr_nbr THR_NBR': OpenMP Threading. (line 1504)
* '--ulm_nm ULM_NM': ncecat netCDF Ensemble Concatenator.
- (line 8848)
-* '--union': Subsetting Files. (line 2315)
-* '--union' <1>: Subsetting Files. (line 2406)
+ (line 8883)
+* '--union': Subsetting Files. (line 2350)
+* '--union' <1>: Subsetting Files. (line 2441)
* '--units': ncks netCDF Kitchen Sink.
- (line 9469)
-* '--unn': Subsetting Files. (line 2315)
-* '--unn' <1>: Subsetting Files. (line 2406)
+ (line 9504)
+* '--unn': Subsetting Files. (line 2350)
+* '--unn' <1>: Subsetting Files. (line 2441)
* '--unpack': ncpdq netCDF Permute Dimensions Quickly.
- (line 9857)
+ (line 9892)
* '--upk': ncpdq netCDF Permute Dimensions Quickly.
- (line 9857)
-* '--variable VAR': Subsetting Files. (line 2315)
+ (line 9892)
+* '--variable VAR': Subsetting Files. (line 2350)
* '--variable VAR' <1>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* '--version': Help Requests and Bug Reports.
- (line 834)
-* '--version' <1>: Operator Version. (line 5422)
+ (line 843)
+* '--version' <1>: Operator Version. (line 5457)
* '--vrs': Help Requests and Bug Reports.
- (line 834)
-* '--vrs' <1>: Operator Version. (line 5422)
+ (line 843)
+* '--vrs' <1>: Operator Version. (line 5457)
* '--weight WEIGHT': ncwa netCDF Weighted Averager.
- (line 10513)
+ (line 10548)
* '--weight WGT1[,WGT2]': ncflint netCDF File Interpolator.
- (line 8998)
+ (line 9033)
* '--wgt_var WEIGHT': ncwa netCDF Weighted Averager.
- (line 10513)
+ (line 10548)
* '--wgt_var WGT1[,WGT2]': ncflint netCDF File Interpolator.
- (line 8998)
+ (line 9033)
* '--write_tmp_fl': Temporary Output Files.
- (line 919)
+ (line 928)
* '--wrt_tmp_fl': Temporary Output Files.
- (line 919)
-* '--xcl': Subsetting Files. (line 2315)
+ (line 928)
+* '--xcl': Subsetting Files. (line 2350)
* '--xcl' <1>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* '--xml': ncks netCDF Kitchen Sink.
- (line 9473)
+ (line 9508)
* '--xml_no_location': ncks netCDF Kitchen Sink.
- (line 9503)
+ (line 9538)
* '--xml_spr_chr': ncks netCDF Kitchen Sink.
- (line 9503)
+ (line 9538)
* '--xml_spr_nmr': ncks netCDF Kitchen Sink.
- (line 9503)
+ (line 9538)
* '-3': netCDF2/3/4 and HDF4/5 Support.
(line 667)
* '-3' <1>: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '-4': netCDF2/3/4 and HDF4/5 Support.
(line 667)
* '-4' <1>: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '-5': ncks netCDF Kitchen Sink.
- (line 9229)
+ (line 9264)
* '-6': File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '-7': File Formats and Conversion.
- (line 2034)
+ (line 2068)
* '-A': Temporary Output Files.
- (line 961)
-* '-A' <1>: Batch Mode. (line 5192)
+ (line 970)
+* '-A' <1>: Batch Mode. (line 5227)
* '-a': ncks netCDF Kitchen Sink.
- (line 9236)
+ (line 9271)
* '-a' <1>: Filters for 'ncks'.
- (line 9652)
+ (line 9687)
* '-A' <2>: Filters for 'ncks'.
- (line 9664)
+ (line 9699)
* '-A' <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9989)
-* '-b': Examples ncap2. (line 7846)
+ (line 10024)
+* '-b': Examples ncap2. (line 7881)
* '-b' <1>: ncbo netCDF Binary Operator.
- (line 8508)
+ (line 8543)
* '-b' <2>: ncks netCDF Kitchen Sink.
- (line 9246)
+ (line 9281)
* '-B MASK_COND': ncwa netCDF Weighted Averager.
- (line 10513)
-* '-B MASK_COND' <1>: Mask condition. (line 10567)
+ (line 10548)
+* '-B MASK_COND' <1>: Mask condition. (line 10602)
* '-C': Subsetting Coordinate Variables.
- (line 2558)
+ (line 2593)
* '-c': Subsetting Coordinate Variables.
- (line 2558)
-* '-C' <1>: CF Conventions. (line 5337)
-* '-c' <1>: CF Conventions. (line 5337)
-* '-C' <2>: Examples ncap2. (line 7858)
+ (line 2593)
+* '-C' <1>: CF Conventions. (line 5372)
+* '-c' <1>: CF Conventions. (line 5372)
+* '-C' <2>: Examples ncap2. (line 7893)
* '-D': Help Requests and Bug Reports.
- (line 819)
+ (line 828)
* '-D DEBUG-LEVEL': Help Requests and Bug Reports.
- (line 834)
-* '-D DEBUG-LEVEL' <1>: Large Datasets. (line 1293)
+ (line 843)
+* '-D DEBUG-LEVEL' <1>: Large Datasets. (line 1302)
* '-D DEBUG-LEVEL' <2>: Command Line Options.
- (line 1576)
-* '-d DIM,[MIN],[MAX],STRIDE': Stride. (line 3142)
-* '-d DIM,[MIN],[MAX],[STRIDE],[SUBCYCLE]': Subcycle. (line 3254)
-* '-d DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3038)
-* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs. (line 3330)
+ (line 1585)
+* '-d DIM,[MIN],[MAX],STRIDE': Stride. (line 3177)
+* '-d DIM,[MIN],[MAX],[STRIDE],[SUBCYCLE]': Subcycle. (line 3289)
+* '-d DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3073)
+* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs. (line 3365)
* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <2>: Wrapped Coordinates.
- (line 3474)
-* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <3>: UDUnits Support. (line 3634)
+ (line 3509)
+* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <3>: UDUnits Support. (line 3669)
* '-d DIM,[MIN][,[MAX]]': ncwa netCDF Weighted Averager.
- (line 10505)
+ (line 10540)
* '-F': C and Fortran Index Conventions.
- (line 3001)
+ (line 3036)
* '-f': Intrinsic mathematical methods.
- (line 7975)
+ (line 8010)
* '-G GPE_DSC': Group Path Editing.
- (line 2583)
-* '-g GRP': Subsetting Files. (line 2315)
-* '-h': History Attribute. (line 5212)
+ (line 2618)
+* '-g GRP': Subsetting Files. (line 2350)
+* '-h': History Attribute. (line 5247)
* '-H': File List Attributes.
- (line 5240)
+ (line 5275)
* '-h' <1>: ncatted netCDF Attribute Editor.
- (line 8122)
+ (line 8157)
* '-H' <1>: ncks netCDF Kitchen Sink.
- (line 9336)
+ (line 9371)
* '-I': ncwa netCDF Weighted Averager.
- (line 10541)
-* '-L': Deflation. (line 4188)
-* '-l OUTPUT-PATH': Remote storage. (line 1767)
-* '-l OUTPUT-PATH' <1>: Remote storage. (line 1828)
+ (line 10576)
+* '-L': Deflation. (line 4223)
+* '-l OUTPUT-PATH': Remote storage. (line 1776)
+* '-l OUTPUT-PATH' <1>: Remote storage. (line 1837)
* '-M': Determining File Format.
- (line 2119)
+ (line 2154)
* '-M' <1>: ncecat netCDF Ensemble Concatenator.
- (line 8899)
+ (line 8934)
* '-M' <2>: ncks netCDF Kitchen Sink.
- (line 9381)
+ (line 9416)
* '-m': ncks netCDF Kitchen Sink.
- (line 9424)
-* '-M CNK_MAP': Chunking. (line 4069)
+ (line 9459)
+* '-M CNK_MAP': Chunking. (line 4104)
* '-m MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10513)
+ (line 10548)
* '-M PCK_MAP': ncpdq netCDF Permute Dimensions Quickly.
- (line 9873)
+ (line 9908)
* '-N': Normalization and Integration.
- (line 10596)
+ (line 10631)
* '-n LOOP': Large Numbers of Files.
- (line 1163)
+ (line 1172)
* '-n LOOP' <1>: Large Numbers of Files.
- (line 1233)
+ (line 1242)
* '-n LOOP' <2>: Specifying Input Files.
- (line 1632)
+ (line 1641)
* '-O': Temporary Output Files.
- (line 961)
-* '-O' <1>: Batch Mode. (line 5192)
+ (line 970)
+* '-O' <1>: Batch Mode. (line 5227)
* '-o FL_OUT': Large Numbers of Files.
- (line 1217)
+ (line 1226)
* '-o FL_OUT' <1>: Specifying Output Files.
- (line 1735)
+ (line 1744)
* '-P': ncks netCDF Kitchen Sink.
- (line 9445)
+ (line 9480)
* '-p INPUT-PATH': Specifying Input Files.
- (line 1632)
-* '-p INPUT-PATH' <1>: Remote storage. (line 1828)
+ (line 1641)
+* '-p INPUT-PATH' <1>: Remote storage. (line 1837)
* '-P PCK_PLC': ncpdq netCDF Permute Dimensions Quickly.
- (line 9806)
+ (line 9841)
* '-Q': ncks netCDF Kitchen Sink.
- (line 9451)
+ (line 9486)
* '-q': ncks netCDF Kitchen Sink.
- (line 9457)
+ (line 9492)
* '-r': Help Requests and Bug Reports.
- (line 819)
+ (line 828)
* '-r' <1>: Help Requests and Bug Reports.
- (line 834)
+ (line 843)
* '-R': Retaining Retrieved Files.
- (line 1994)
-* '-r' <2>: Operator Version. (line 5422)
+ (line 2028)
+* '-r' <2>: Operator Version. (line 5457)
* '-s': ncks netCDF Kitchen Sink.
- (line 9465)
+ (line 9500)
* '-t THR_NBR': Single and Multi-file Operators.
- (line 1387)
-* '-t THR_NBR' <1>: OpenMP Threading. (line 1495)
+ (line 1396)
+* '-t THR_NBR' <1>: OpenMP Threading. (line 1504)
* '-u': ncks netCDF Kitchen Sink.
- (line 9469)
+ (line 9504)
* '-U': ncpdq netCDF Permute Dimensions Quickly.
- (line 9857)
+ (line 9892)
* '-u ULM_NM': ncecat netCDF Ensemble Concatenator.
- (line 8848)
+ (line 8883)
* '-v': ncpdq netCDF Permute Dimensions Quickly.
- (line 9989)
-* '-v VAR': Subsetting Files. (line 2315)
+ (line 10024)
+* '-v VAR': Subsetting Files. (line 2350)
* '-v VAR' <1>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* '-w WEIGHT': ncwa netCDF Weighted Averager.
- (line 10513)
+ (line 10548)
* '-w WGT1[,WGT2]': ncflint netCDF File Interpolator.
- (line 8998)
-* '-x': Subsetting Files. (line 2315)
+ (line 9033)
+* '-x': Subsetting Files. (line 2350)
* '-X': Auxiliary Coordinates.
- (line 3524)
+ (line 3559)
* '-x' <1>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* '-X LON_MIN,LON_MAX,LAT_MIN,LAT_MAX': Auxiliary Coordinates.
- (line 3524)
-* '-y OP_TYP': Operation Types. (line 4550)
+ (line 3559)
+* '-y OP_TYP': Operation Types. (line 4585)
* '-y OP_TYP' <1>: ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* '.': ncrename netCDF Renamer.
- (line 10310)
-* '.' (wildcard character): Subsetting Files. (line 2481)
+ (line 10345)
+* '.' (wildcard character): Subsetting Files. (line 2516)
* '.bashrc': Filters for 'ncks'.
- (line 9557)
-* '.netrc': Remote storage. (line 1767)
-* '.rhosts': Remote storage. (line 1767)
+ (line 9592)
+* '.netrc': Remote storage. (line 1776)
+* '.rhosts': Remote storage. (line 1776)
* '/': ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* '/' (division): Intrinsic mathematical methods.
- (line 7868)
+ (line 7903)
* '/*...*/' (comment): Syntax of ncap2 statements.
- (line 5531)
+ (line 5566)
* '//' (comment): Syntax of ncap2 statements.
- (line 5531)
+ (line 5566)
* '0' (NUL): ncatted netCDF Attribute Editor.
- (line 8295)
+ (line 8330)
* 32-bit offset file format: Determining File Format.
- (line 2119)
+ (line 2154)
* 64-bit offset file format: Determining File Format.
- (line 2119)
+ (line 2154)
* '64BIT' files: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* ':' (separator character): Group Path Editing.
- (line 2621)
+ (line 2656)
* ';' (end of statement): Syntax of ncap2 statements.
- (line 5529)
+ (line 5564)
* '<arpa/nameser.h>': Windows Operating System.
(line 502)
* '<resolv.h>': Windows Operating System.
(line 502)
-* '?' (filename expansion): Subsetting Files. (line 2481)
+* '?' (filename expansion): Subsetting Files. (line 2516)
* '?' (question mark): ncatted netCDF Attribute Editor.
- (line 8286)
-* '?' (wildcard character): Subsetting Files. (line 2488)
+ (line 8321)
+* '?' (wildcard character): Subsetting Files. (line 2523)
* '@' (attribute): Syntax of ncap2 statements.
- (line 5539)
+ (line 5574)
* '@' (separator character): Group Path Editing.
- (line 2621)
+ (line 2656)
* '[]' (array delimiters): Syntax of ncap2 statements.
- (line 5523)
+ (line 5558)
* '\' (backslash): ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* '\"' (protected double quote): ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* '\'' (protected end quote): ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* '\?' (protected question mark): ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* '\a' (ASCII BEL, bell): ncatted netCDF Attribute Editor.
- (line 8281)
+ (line 8316)
* '\b' (ASCII BS, backspace): ncatted netCDF Attribute Editor.
- (line 8281)
+ (line 8316)
* '\f' (ASCII FF, formfeed): ncatted netCDF Attribute Editor.
- (line 8281)
+ (line 8316)
* '\n' (ASCII LF, linefeed): ncatted netCDF Attribute Editor.
- (line 8271)
+ (line 8306)
* '\n' (linefeed): Filters for 'ncks'.
- (line 9685)
+ (line 9720)
* '\r' (ASCII CR, carriage return): ncatted netCDF Attribute Editor.
- (line 8281)
+ (line 8316)
* '\t' (ASCII HT, horizontal tab): ncatted netCDF Attribute Editor.
- (line 8271)
+ (line 8306)
* '\t' (horizontal tab): Filters for 'ncks'.
- (line 9685)
+ (line 9720)
* '\v' (ASCII VT, vertical tab): ncatted netCDF Attribute Editor.
- (line 8281)
+ (line 8316)
* '\\' (ASCII \, backslash): ncatted netCDF Attribute Editor.
- (line 8281)
+ (line 8316)
* '\\' (protected backslash): ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* '^' (power): Intrinsic mathematical methods.
- (line 7868)
-* '^' (wildcard character): Subsetting Files. (line 2481)
+ (line 7903)
+* '^' (wildcard character): Subsetting Files. (line 2516)
* '_ChunkSizes': ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* '_DeflateLevel': ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* '_Endianness': ncks netCDF Kitchen Sink.
- (line 9276)
-* '_FillValue': Missing Values. (line 3879)
-* '_FillValue' <1>: Packed data. (line 4413)
+ (line 9311)
+* '_FillValue': Missing Values. (line 3914)
+* '_FillValue' <1>: Packed data. (line 4448)
* '_FillValue' <2>: ncatted netCDF Attribute Editor.
- (line 8127)
+ (line 8162)
* '_FillValue' <3>: ncflint netCDF File Interpolator.
- (line 9047)
+ (line 9082)
* _FILLVALUE: ncpdq netCDF Permute Dimensions Quickly.
- (line 9917)
+ (line 9952)
* '_FillValue' <4>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9917)
+ (line 9952)
* '_FillValue' <5>: ncrename netCDF Renamer.
- (line 10436)
+ (line 10471)
* '_Fletcher32': ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* '_Format': ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* '_NOFILL': ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* '_Shuffle': ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* '_Storage': ncks netCDF Kitchen Sink.
- (line 9276)
-* '|' (wildcard character): Subsetting Files. (line 2488)
+ (line 9311)
+* '|' (wildcard character): Subsetting Files. (line 2523)
* ABS: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* absolute value: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* ACOS: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* ACOSH: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* 'add': ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* adding data: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* adding data <1>: ncflint netCDF File Interpolator.
- (line 8974)
+ (line 9009)
* addition: Intrinsic mathematical methods.
- (line 7868)
+ (line 7903)
* addition <1>: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* addition <2>: ncflint netCDF File Interpolator.
- (line 8974)
-* ADD_OFFSET: Performance. (line 1440)
-* 'add_offset': Packed data. (line 4413)
+ (line 9009)
+* ADD_OFFSET: Performance. (line 1449)
+* 'add_offset': Packed data. (line 4448)
* 'add_offset' <1>: ncecat netCDF Ensemble Concatenator.
- (line 8921)
+ (line 8956)
* 'add_offset' <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9799)
+ (line 9834)
* 'add_offset' <3>: ncrcat netCDF Record Concatenator.
- (line 10247)
-* aggregation: Combine Files. (line 11076)
-* Aleksandar Jelenak: Contributors. (line 10803)
-* Alexander Hansen: Contributors. (line 10811)
+ (line 10282)
+* aggregation: Combine Files. (line 11113)
+* Aleksandar Jelenak: Contributors. (line 10840)
+* Alexander Hansen: Contributors. (line 10848)
* 'alias': ncbo netCDF Binary Operator.
- (line 8454)
+ (line 8489)
* alias: Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* 'alias' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9867)
-* 'all': Chunking. (line 4025)
+ (line 9902)
+* 'all': Chunking. (line 4060)
* alphabetization: ncks netCDF Kitchen Sink.
- (line 9236)
+ (line 9271)
* alphabetize output: Filters for 'ncks'.
- (line 9652)
+ (line 9687)
* alternate invocations: ncbo netCDF Binary Operator.
- (line 8410)
-* anchor: Subsetting Files. (line 2357)
-* anchoring: Subsetting Files. (line 2357)
-* Andrea Cimatoribus: Contributors. (line 10817)
-* Andrew Wittenberg: Contributors. (line 10801)
+ (line 8445)
+* anchor: Subsetting Files. (line 2392)
+* anchoring: Subsetting Files. (line 2392)
+* Andrea Cimatoribus: Contributors. (line 10854)
+* Andrew Wittenberg: Contributors. (line 10838)
* annual average: Annual Average over Regions.
- (line 11307)
+ (line 11342)
* annual average from daily data: Daily data in one file.
- (line 10873)
+ (line 10910)
* annual average from monthly data: Monthly data in one file.
- (line 10896)
+ (line 10933)
* anomalies: ncbo netCDF Binary Operator.
- (line 8492)
+ (line 8527)
* anomalies <1>: Annual Average over Regions.
- (line 11307)
-* anomalies <2>: Monthly Cycle. (line 11598)
+ (line 11342)
+* anomalies <2>: Monthly Cycle. (line 11633)
* ANSI: Compatability. (line 415)
* 'ANSI C': Intrinsic mathematical methods.
- (line 7974)
-* appending data: Examples ncap2. (line 7846)
+ (line 8009)
+* appending data: Examples ncap2. (line 7881)
* appending data <1>: ncks netCDF Kitchen Sink.
- (line 9176)
+ (line 9211)
* appending to files: Temporary Output Files.
- (line 961)
-* appending to files <1>: Batch Mode. (line 5192)
+ (line 970)
+* appending to files <1>: Batch Mode. (line 5227)
* appending to files <2>: Filters for 'ncks'.
- (line 9664)
+ (line 9699)
* appending variables: Temporary Output Files.
- (line 961)
+ (line 970)
* appending variables <1>: Appending Variables.
- (line 986)
+ (line 995)
* appending variables <2>: ncap2 netCDF Arithmetic Processor.
- (line 5487)
+ (line 5522)
* appending variables <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9989)
+ (line 10024)
* AR4: nces netCDF Ensemble Statistics.
- (line 8698)
+ (line 8733)
* arccosine function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* arcsine function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* arctangent function: Intrinsic mathematical methods.
- (line 7871)
-* 'area': CF Conventions. (line 5271)
+ (line 7906)
+* 'area': CF Conventions. (line 5306)
* area-averaging: Annual Average over Regions.
- (line 11307)
-* arithmetic operators: Missing Values. (line 3885)
-* arithmetic operators <1>: Missing Values. (line 3938)
+ (line 11342)
+* arithmetic operators: Missing Values. (line 3920)
+* arithmetic operators <1>: Missing Values. (line 3973)
* arithmetic operators <2>: ncwa netCDF Weighted Averager.
- (line 10505)
+ (line 10540)
* arithmetic processor: ncap2 netCDF Arithmetic Processor.
- (line 5454)
-* ARM conventions: ARM Conventions. (line 5391)
+ (line 5489)
+* ARM conventions: ARM Conventions. (line 5426)
* ARM conventions <1>: ncrcat netCDF Record Concatenator.
- (line 10260)
+ (line 10295)
* array: Arrays and hyperslabs.
- (line 5817)
+ (line 5852)
* 'array' function: Arrays and hyperslabs.
- (line 5817)
+ (line 5852)
* array indexing: Syntax of ncap2 statements.
- (line 5525)
+ (line 5560)
* array storage: Syntax of ncap2 statements.
- (line 5527)
+ (line 5562)
* array syntax: Syntax of ncap2 statements.
- (line 5523)
+ (line 5558)
* arrays: Arrays and hyperslabs.
- (line 5817)
+ (line 5852)
* arrival value: ncflint netCDF File Interpolator.
- (line 9014)
+ (line 9049)
* ASCII: ncatted netCDF Attribute Editor.
- (line 8269)
+ (line 8304)
* ASCII <1>: ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* ASIN: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* ASINH: Intrinsic mathematical methods.
- (line 7871)
-* 'asort': Sort methods. (line 6542)
+ (line 7906)
+* 'asort': Sort methods. (line 6577)
* assignment statement: Syntax of ncap2 statements.
- (line 5529)
-* asynchronous file access: Remote storage. (line 1767)
+ (line 5564)
+* asynchronous file access: Remote storage. (line 1776)
* ATAN: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* ATANH: Intrinsic mathematical methods.
- (line 7871)
-* attribute inheritance: Attributes. (line 5992)
+ (line 7906)
+* attribute inheritance: Attributes. (line 6027)
* attribute names: ncatted netCDF Attribute Editor.
- (line 8104)
+ (line 8139)
* attribute names <1>: ncrename netCDF Renamer.
- (line 10301)
-* attribute propagation: Attributes. (line 5992)
+ (line 10336)
+* attribute propagation: Attributes. (line 6027)
* attribute syntax: Syntax of ncap2 statements.
- (line 5539)
-* attribute, 'units': UDUnits Support. (line 3634)
+ (line 5574)
+* attribute, 'units': UDUnits Support. (line 3669)
* attributes: ncatted netCDF Attribute Editor.
- (line 8104)
+ (line 8139)
* attributes, appending: ncatted netCDF Attribute Editor.
- (line 8186)
+ (line 8221)
* attributes, creating: ncatted netCDF Attribute Editor.
- (line 8186)
+ (line 8221)
* attributes, deleting: ncatted netCDF Attribute Editor.
- (line 8186)
+ (line 8221)
* attributes, editing: ncatted netCDF Attribute Editor.
- (line 8186)
+ (line 8221)
* attributes, editing <1>: Annual Average over Regions.
- (line 11307)
-* attributes, editing <2>: Regrid MODIS Data. (line 11762)
+ (line 11342)
+* attributes, editing <2>: Regrid MODIS Data. (line 11797)
* attributes, global: Large Numbers of Files.
- (line 1191)
-* attributes, global <1>: History Attribute. (line 5212)
+ (line 1200)
+* attributes, global <1>: History Attribute. (line 5247)
* attributes, global <2>: File List Attributes.
- (line 5240)
-* attributes, global <3>: ARM Conventions. (line 5415)
+ (line 5275)
+* attributes, global <3>: ARM Conventions. (line 5450)
* attributes, global <4>: ncatted netCDF Attribute Editor.
- (line 8169)
+ (line 8204)
* attributes, global <5>: ncatted netCDF Attribute Editor.
- (line 8336)
+ (line 8371)
* attributes, global <6>: ncks netCDF Kitchen Sink.
- (line 9162)
+ (line 9197)
* attributes, global <7>: ncks netCDF Kitchen Sink.
- (line 9196)
+ (line 9231)
* attributes, global <8>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* attributes, global <9>: ncrename netCDF Renamer.
- (line 10356)
+ (line 10391)
* attributes, global <10>: ncrename netCDF Renamer.
- (line 10436)
+ (line 10471)
* attributes, modifying: ncatted netCDF Attribute Editor.
- (line 8186)
+ (line 8221)
* attributes, modifying <1>: Annual Average over Regions.
- (line 11307)
-* attributes, modifying <2>: Regrid MODIS Data. (line 11762)
+ (line 11342)
+* attributes, modifying <2>: Regrid MODIS Data. (line 11797)
* attributes, overwriting: ncatted netCDF Attribute Editor.
- (line 8186)
+ (line 8221)
* attributes, overwriting <1>: Annual Average over Regions.
- (line 11307)
-* attributes, overwriting <2>: Regrid MODIS Data. (line 11762)
-* attributes'ncap2': Attributes. (line 5959)
+ (line 11342)
+* attributes, overwriting <2>: Regrid MODIS Data. (line 11797)
+* attributes'ncap2': Attributes. (line 5994)
* 'autoconf': Help Requests and Bug Reports.
- (line 842)
-* autoconversion: Autoconversion. (line 2219)
+ (line 851)
+* autoconversion: Autoconversion. (line 2254)
* automagic: Compatability. (line 455)
* automagic <1>: Large Numbers of Files.
- (line 1164)
-* automatic type conversion: Type Conversion. (line 4703)
+ (line 1173)
+* automatic type conversion: Type Conversion. (line 4738)
* automatic type conversion <1>: Intrinsic mathematical methods.
- (line 7941)
-* auxiliary coordinates: CF Conventions. (line 5337)
-* average: Operation Types. (line 4550)
+ (line 7976)
+* auxiliary coordinates: CF Conventions. (line 5372)
+* average: Operation Types. (line 4585)
* average <1>: ncwa netCDF Weighted Averager.
- (line 10549)
+ (line 10584)
* average <2>: Daily data in one file.
- (line 10859)
+ (line 10896)
* average <3>: Daily data in one file.
- (line 10873)
+ (line 10910)
* average <4>: Monthly data in one file.
- (line 10893)
+ (line 10930)
* average <5>: Monthly data in one file.
- (line 10896)
+ (line 10933)
* average <6>: One time point one file.
- (line 10922)
+ (line 10959)
* average <7>: Global Distribution of Long-term Average.
- (line 11202)
+ (line 11239)
* average <8>: Annual Average over Regions.
- (line 11307)
-* average <9>: Monthly Cycle. (line 11598)
-* averaging data: Missing Values. (line 3879)
+ (line 11342)
+* average <9>: Monthly Cycle. (line 11633)
+* averaging data: Missing Values. (line 3914)
* averaging data <1>: nces netCDF Ensemble Statistics.
- (line 8659)
+ (line 8694)
* averaging data <2>: ncra netCDF Record Averager.
- (line 10148)
+ (line 10183)
* averaging data <3>: ncwa netCDF Weighted Averager.
- (line 10473)
-* 'avg': Operation Types. (line 4550)
+ (line 10508)
+* 'avg': Operation Types. (line 4585)
* avg(): Methods and functions.
- (line 6262)
-* 'avgsqr': Operation Types. (line 4550)
-* Barry deFreese: Contributors. (line 10803)
-* 'base_time': ARM Conventions. (line 5391)
-* 'bash': Subsetting Files. (line 2533)
+ (line 6297)
+* 'avgsqr': Operation Types. (line 4585)
+* Barry deFreese: Contributors. (line 10840)
+* 'base_time': ARM Conventions. (line 5426)
+* 'bash': Subsetting Files. (line 2568)
* 'bash' <1>: Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* Bash shell: ncbo netCDF Binary Operator.
- (line 8439)
+ (line 8474)
* Bash Shell: ncbo netCDF Binary Operator.
- (line 8607)
+ (line 8642)
* Bash shell <1>: Filters for 'ncks'.
- (line 9557)
-* batch mode: Batch Mode. (line 5192)
+ (line 9592)
+* batch mode: Batch Mode. (line 5227)
* beer: Promoting Single-precision to Double.
- (line 5090)
-* benchmarks: OpenMP Threading. (line 1554)
+ (line 5125)
+* benchmarks: OpenMP Threading. (line 1563)
* Bessel function: GSL special functions.
- (line 7029)
-* bilinear interpolation: Regrid MODIS Data. (line 11762)
-* Bill Kocik: Contributors. (line 10787)
+ (line 7064)
+* bilinear interpolation: Regrid MODIS Data. (line 11797)
+* Bill Kocik: Contributors. (line 10824)
* binary format: ncks netCDF Kitchen Sink.
- (line 9246)
-* binary operations: Memory for ncap2. (line 1393)
+ (line 9281)
+* binary operations: Memory for ncap2. (line 1402)
* binary operations <1>: ncbo netCDF Binary Operator.
- (line 8392)
-* binary Operators: Expressions. (line 5626)
+ (line 8427)
+* binary Operators: Expressions. (line 5661)
* blank: ncks netCDF Kitchen Sink.
- (line 9437)
-* 'bounds': CF Conventions. (line 5326)
-* bounds convention: CF Conventions. (line 5326)
-* Bourne Shell: Stride. (line 3180)
+ (line 9472)
+* 'bounds': CF Conventions. (line 5361)
+* bounds convention: CF Conventions. (line 5361)
+* Bourne Shell: Stride. (line 3215)
* Bourne Shell <1>: ncbo netCDF Binary Operator.
- (line 8607)
-* Brian Mays: Contributors. (line 10783)
+ (line 8642)
+* Brian Mays: Contributors. (line 10820)
* broadcasting: ncbo netCDF Binary Operator.
- (line 8544)
+ (line 8579)
* broadcasting groups: netCDF2/3/4 and HDF4/5 Support.
(line 661)
* broadcasting groups <1>: ncbo netCDF Binary Operator.
- (line 8523)
+ (line 8558)
* broadcasting groups <2>: ncbo netCDF Binary Operator.
- (line 8572)
-* broadcasting variables: Expressions. (line 5575)
+ (line 8607)
+* broadcasting variables: Expressions. (line 5610)
* broadcasting variables <1>: ncbo netCDF Binary Operator.
- (line 8481)
+ (line 8516)
* broadcasting variables <2>: ncbo netCDF Binary Operator.
- (line 8483)
+ (line 8518)
* broadcasting variables <3>: ncflint netCDF File Interpolator.
- (line 9112)
+ (line 9147)
* broadcasting variables <4>: ncwa netCDF Weighted Averager.
- (line 10473)
+ (line 10508)
* 'BSD': Command Line Options.
- (line 1573)
-* Buffer sizes: Buffer sizes. (line 4295)
-* buffering: Performance. (line 1431)
+ (line 1582)
+* Buffer sizes: Buffer sizes. (line 4330)
+* buffering: Performance. (line 1440)
* bugs, reporting: Help Requests and Bug Reports.
- (line 779)
+ (line 788)
* byte(): Methods and functions.
- (line 6354)
+ (line 6389)
* C index convention: C and Fortran Index Conventions.
- (line 3001)
+ (line 3036)
* C language: Compatability. (line 437)
-* C language <1>: Missing Values. (line 3927)
+* C language <1>: Missing Values. (line 3962)
* C language <2>: Automatic type conversion.
- (line 4832)
+ (line 4867)
* C language <3>: Promoting Single-precision to Double.
- (line 4851)
+ (line 4886)
* C language <4>: Syntax of ncap2 statements.
- (line 5517)
-* C language <5>: Expressions. (line 5546)
+ (line 5552)
+* C language <5>: Expressions. (line 5581)
* C language <6>: ncatted netCDF Attribute Editor.
- (line 8295)
+ (line 8330)
* C language <7>: ncks netCDF Kitchen Sink.
- (line 9465)
-* C Shell: Stride. (line 3180)
+ (line 9500)
+* C Shell: Stride. (line 3215)
* C Shell <1>: ncbo netCDF Binary Operator.
- (line 8607)
+ (line 8642)
* 'c++': Compatability. (line 402)
* C++: Compatability. (line 407)
* C89: Compatability. (line 415)
@@ -13217,841 +13254,846 @@ General Index
* C99 <2>: Windows Operating System.
(line 490)
* CAM3: Promoting Single-precision to Double.
- (line 4990)
+ (line 5025)
* 'CC': Compatability. (line 402)
* 'cc': Compatability. (line 402)
* CCM Processor: Specifying Input Files.
- (line 1632)
+ (line 1641)
* CCM Processor <1>: ncra netCDF Record Averager.
- (line 10188)
+ (line 10223)
* CCM Processor <2>: ncrcat netCDF Record Concatenator.
- (line 10266)
+ (line 10301)
* CCSM: Proposals for Institutional Funding.
- (line 10829)
-* CCSM <1>: CCSM Example. (line 12001)
-* CCSM conventions: CF Conventions. (line 5271)
+ (line 10866)
+* CCSM <1>: CCSM Example. (line 12036)
+* CCSM conventions: CF Conventions. (line 5306)
* CDL: ncks netCDF Kitchen Sink.
- (line 9288)
+ (line 9323)
* CEIL: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* ceiling function: Intrinsic mathematical methods.
- (line 7871)
-* cell methods convention: CF Conventions. (line 5348)
+ (line 7906)
+* cell methods convention: CF Conventions. (line 5383)
* cell-based grids: Auxiliary Coordinates.
- (line 3541)
-* 'cell_methods': CF Conventions. (line 5348)
+ (line 3576)
+* 'cell_methods': CF Conventions. (line 5383)
* CF compliance checker: Group Path Editing.
- (line 2842)
+ (line 2877)
* CF conventions: Subsetting Coordinate Variables.
- (line 2574)
+ (line 2609)
* CF conventions <1>: Auxiliary Coordinates.
- (line 3524)
-* CF conventions <2>: UDUnits Support. (line 3732)
-* CF conventions <3>: CF Conventions. (line 5271)
+ (line 3559)
+* CF conventions <2>: UDUnits Support. (line 3767)
+* CF conventions <3>: CF Conventions. (line 5306)
* CF conventions <4>: ncbo netCDF Binary Operator.
- (line 8516)
+ (line 8551)
* cfchecker: Group Path Editing.
- (line 2842)
+ (line 2877)
* 'change_miss()': Missing values ncap2.
- (line 6199)
+ (line 6234)
* char(): Methods and functions.
- (line 6356)
+ (line 6391)
* characters, special: ncatted netCDF Attribute Editor.
- (line 8271)
+ (line 8306)
* Charlie Zender: Foreword. (line 203)
-* Charlie Zender <1>: Contributors. (line 10760)
-* chocolate: Contributing. (line 10739)
-* Chris Barker: Chunking. (line 4075)
+* Charlie Zender <1>: Contributors. (line 10795)
+* chocolate: Contributing. (line 10774)
+* Chris Barker: Chunking. (line 4110)
* chunking: netCDF2/3/4 and HDF4/5 Support.
(line 649)
-* chunking <1>: Chunking. (line 3992)
+* chunking <1>: Chunking. (line 4027)
* chunking <2>: ncks netCDF Kitchen Sink.
- (line 9428)
-* chunking map: Chunking. (line 4010)
-* chunking map <1>: Chunking. (line 4069)
-* chunking policy: Chunking. (line 4010)
-* chunksize: Chunking. (line 4010)
+ (line 9463)
+* chunking map: Chunking. (line 4045)
+* chunking map <1>: Chunking. (line 4104)
+* chunking policy: Chunking. (line 4045)
+* chunksize: Chunking. (line 4045)
* 'clang': Compatability. (line 402)
* 'CLASSIC' files: File Formats and Conversion.
- (line 2034)
-* client-server: OPeNDAP. (line 1879)
+ (line 2068)
+* client-server: OPeNDAP. (line 1888)
* Climate and Forecast Metadata Convention: UDUnits Support.
- (line 3732)
-* climate model: Philosophy. (line 861)
+ (line 3767)
+* climate model: Philosophy. (line 870)
* climate model <1>: Climate Model Paradigm.
- (line 887)
-* climate model <2>: Concatenation. (line 1086)
+ (line 896)
+* climate model <2>: Concatenation. (line 1095)
* climate model <3>: Specifying Input Files.
- (line 1695)
+ (line 1704)
* climate model <4>: ncecat netCDF Ensemble Concatenator.
- (line 8910)
+ (line 8945)
* climate model <5>: Normalization and Integration.
- (line 10659)
+ (line 10694)
* climate model <6>: Normalization and Integration.
- (line 10670)
-* clipping operators: Expressions. (line 5698)
+ (line 10705)
+* clipping operators: Expressions. (line 5733)
* CMIP: nces netCDF Ensemble Statistics.
- (line 8698)
+ (line 8733)
* CMIP <1>: ncecat netCDF Ensemble Concatenator.
- (line 8854)
-* CMIP5: CMIP5 Example. (line 10948)
-* 'cnk_all': Chunking. (line 4025)
-* 'cnk_dmn': Chunking. (line 4075)
-* 'cnk_g2d': Chunking. (line 4025)
-* 'cnk_g3d': Chunking. (line 4025)
-* 'cnk_lfp': Chunking. (line 4075)
-* CNK_MAP: Chunking. (line 4069)
-* 'cnk_prd': Chunking. (line 4075)
-* 'cnk_rd1': Chunking. (line 4075)
-* 'cnk_scl': Chunking. (line 4075)
-* 'cnk_xpl': Chunking. (line 4025)
-* 'cnk_xst': Chunking. (line 4025)
-* 'cnk_xst' <1>: Chunking. (line 4075)
+ (line 8889)
+* CMIP5: CMIP5 Example. (line 10985)
+* 'cnk_all': Chunking. (line 4060)
+* 'cnk_dmn': Chunking. (line 4110)
+* 'cnk_g2d': Chunking. (line 4060)
+* 'cnk_g3d': Chunking. (line 4060)
+* 'cnk_lfp': Chunking. (line 4110)
+* CNK_MAP: Chunking. (line 4104)
+* 'cnk_prd': Chunking. (line 4110)
+* 'cnk_rd1': Chunking. (line 4110)
+* 'cnk_scl': Chunking. (line 4110)
+* 'cnk_xpl': Chunking. (line 4060)
+* 'cnk_xst': Chunking. (line 4060)
+* 'cnk_xst' <1>: Chunking. (line 4110)
* Comeau: Compatability. (line 384)
* command line options: Command Line Options.
- (line 1559)
-* command line switches: Philosophy. (line 877)
-* command line switches <1>: Common features. (line 1457)
+ (line 1568)
+* command line switches: Philosophy. (line 886)
+* command line switches <1>: Common features. (line 1466)
* command line switches <2>: Specifying Output Files.
- (line 1735)
+ (line 1744)
* command line switches <3>: Operator Reference Manual.
- (line 5444)
+ (line 5479)
* comments: Syntax of ncap2 statements.
- (line 5531)
+ (line 5566)
* 'como': Compatability. (line 402)
* Compaq: Compatability. (line 384)
-* comparator: Mask condition. (line 10575)
+* comparator: Mask condition. (line 10610)
* compatability: Compatability. (line 384)
* compilers: Specifying Output Files.
- (line 1757)
+ (line 1766)
* complementary error function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* compliance checker: Group Path Editing.
- (line 2842)
-* compression: Deflation. (line 4188)
+ (line 2877)
+* compression: Deflation. (line 4223)
* compression <1>: ncks netCDF Kitchen Sink.
- (line 9428)
+ (line 9463)
* concatenation: Appending Variables.
- (line 986)
+ (line 995)
* concatenation <1>: ncecat netCDF Ensemble Concatenator.
- (line 8814)
+ (line 8849)
* concatenation <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9947)
+ (line 9982)
* concatenation <3>: ncrcat netCDF Record Concatenator.
- (line 10219)
-* conditional Operator: Expressions. (line 5688)
+ (line 10254)
+* conditional Operator: Expressions. (line 5723)
* 'config.guess': Help Requests and Bug Reports.
- (line 842)
+ (line 851)
* 'configure.eg': Help Requests and Bug Reports.
- (line 842)
-* constraint expressions: OPeNDAP. (line 1985)
+ (line 851)
+* constraint expressions: OPeNDAP. (line 2014)
* contents: How to Use This guide.
(line 350)
-* contributing: Contributing. (line 10728)
-* contributors: Contributors. (line 10759)
-* coordinate limits: Hyperslabs. (line 3038)
-* coordinate variable: UDUnits Support. (line 3668)
-* coordinate variable <1>: Operation Types. (line 4574)
-* coordinate variable <2>: CF Conventions. (line 5337)
+* contributing: Contributing. (line 10763)
+* contributors: Contributors. (line 10794)
+* coordinate limits: Hyperslabs. (line 3073)
+* coordinate variable: UDUnits Support. (line 3703)
+* coordinate variable <1>: Operation Types. (line 4609)
+* coordinate variable <2>: CF Conventions. (line 5372)
* coordinate variable <3>: ncbo netCDF Binary Operator.
- (line 8513)
+ (line 8548)
* coordinate variable <4>: ncwa netCDF Weighted Averager.
- (line 10541)
+ (line 10576)
* coordinate variables: ncrename netCDF Renamer.
- (line 10409)
+ (line 10444)
* 'coordinates': Auxiliary Coordinates.
- (line 3524)
-* 'coordinates' <1>: CF Conventions. (line 5337)
+ (line 3559)
+* 'coordinates' <1>: CF Conventions. (line 5372)
* coordinates: Add Coordinates to MODIS Data.
- (line 11900)
-* coordinates convention: CF Conventions. (line 5337)
+ (line 11935)
+* coordinates convention: CF Conventions. (line 5372)
* coordinates, modifying: Permute MODIS Coordinates.
- (line 11948)
+ (line 11983)
* core dump: Help Requests and Bug Reports.
- (line 779)
-* 'core dump': Large Datasets. (line 1283)
+ (line 788)
+* 'core dump': Large Datasets. (line 1292)
* 'core dump' <1>: Filters for 'ncks'.
- (line 9729)
+ (line 9764)
* COS: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* COSH: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* cosine function: Intrinsic mathematical methods.
- (line 7871)
-* covariance: Examples ncap2. (line 7798)
-* 'cp': Subsetting Files. (line 2357)
+ (line 7906)
+* covariance: Examples ncap2. (line 7833)
+* 'cp': Subsetting Files. (line 2392)
* Cray: Compatability. (line 384)
-* Cray <1>: Large Datasets. (line 1278)
-* 'csh': Subsetting Files. (line 2533)
+* Cray <1>: Large Datasets. (line 1287)
+* 'csh': Subsetting Files. (line 2568)
* Csh shell: Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* 'cxx': Compatability. (line 402)
* Cygwin: Windows Operating System.
(line 498)
* Cygwin <1>: Symbolic Links. (line 534)
-* C_FORMAT: Performance. (line 1440)
+* C_FORMAT: Performance. (line 1449)
* daily data: Daily data in one file.
- (line 10856)
+ (line 10893)
* daily data <1>: One time point one file.
- (line 10922)
+ (line 10959)
* daily data <2>: Multiple files with multiple time points.
- (line 10940)
-* Daniel Baumann: Contributors. (line 10803)
-* Daniel Wang: Contributors. (line 10775)
-* DAP: OPeNDAP. (line 1879)
-* data access protocol: OPeNDAP. (line 1879)
+ (line 10977)
+* Daniel Baumann: Contributors. (line 10840)
+* Daniel Wang: Contributors. (line 10812)
+* DAP: OPeNDAP. (line 1888)
+* data access protocol: OPeNDAP. (line 1888)
* data safety: Temporary Output Files.
- (line 898)
+ (line 907)
* data safety <1>: ncrename netCDF Renamer.
- (line 10332)
-* data, missing: Missing Values. (line 3879)
+ (line 10367)
+* data, missing: Missing Values. (line 3914)
* data, missing <1>: ncatted netCDF Attribute Editor.
- (line 8127)
-* 'date': CF Conventions. (line 5271)
-* 'datesec': CF Conventions. (line 5271)
+ (line 8162)
+* 'date': CF Conventions. (line 5306)
+* 'datesec': CF Conventions. (line 5306)
* DBG_LVL: Help Requests and Bug Reports.
- (line 834)
-* DBG_LVL <1>: Large Datasets. (line 1293)
-* DBG_LVL <2>: OpenMP Threading. (line 1543)
+ (line 843)
+* DBG_LVL <1>: Large Datasets. (line 1302)
+* DBG_LVL <2>: OpenMP Threading. (line 1552)
* DDRA: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* Debian: netCDF2/3/4 and HDF4/5 Support.
- (line 724)
+ (line 728)
* DEBUG-LEVEL: Help Requests and Bug Reports.
- (line 834)
-* DEBUG-LEVEL <1>: Large Datasets. (line 1293)
+ (line 843)
+* DEBUG-LEVEL <1>: Large Datasets. (line 1302)
* debugging: Help Requests and Bug Reports.
- (line 819)
-* debugging <1>: Large Datasets. (line 1293)
-* debugging <2>: OpenMP Threading. (line 1543)
+ (line 828)
+* debugging <1>: Large Datasets. (line 1302)
+* debugging <2>: OpenMP Threading. (line 1552)
* DEC: Compatability. (line 384)
-* 'defdim()': Dimensions. (line 5719)
-* defining dimensions in 'ncap2': Dimensions. (line 5719)
+* 'defdim()': Dimensions. (line 5754)
+* defining dimensions in 'ncap2': Dimensions. (line 5754)
* deflation: netCDF2/3/4 and HDF4/5 Support.
(line 645)
-* deflation <1>: Deflation. (line 4188)
+* deflation <1>: Deflation. (line 4223)
* deflation <2>: ncks netCDF Kitchen Sink.
- (line 9428)
-* degenerate dimension: Chunking. (line 4069)
-* degenerate dimension <1>: Operation Types. (line 4619)
-* degenerate dimension <2>: Examples ncap2. (line 7846)
+ (line 9463)
+* degenerate dimension: Chunking. (line 4104)
+* degenerate dimension <1>: Operation Types. (line 4654)
+* degenerate dimension <2>: Examples ncap2. (line 7881)
* degenerate dimension <3>: ncbo netCDF Binary Operator.
- (line 8508)
+ (line 8543)
* degenerate dimension <4>: ncecat netCDF Ensemble Concatenator.
- (line 8963)
+ (line 8998)
* degenerate dimension <5>: ncflint netCDF File Interpolator.
- (line 9025)
+ (line 9060)
* degenerate dimension <6>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10109)
+ (line 10144)
* degenerate dimension <7>: ncra netCDF Record Averager.
- (line 10161)
+ (line 10196)
* degenerate dimension <8>: ncwa netCDF Weighted Averager.
- (line 10493)
+ (line 10528)
* degenerate dimension <9>: Normalization and Integration.
- (line 10650)
+ (line 10685)
* delete (groups): Group Path Editing.
- (line 2621)
+ (line 2656)
* 'delete_miss()': Missing values ncap2.
- (line 6209)
-* demotion: Type Conversion. (line 4703)
-* Dennis Heimbigner: Contributors. (line 10751)
+ (line 6244)
+* demotion: Type Conversion. (line 4738)
+* Dennis Heimbigner: Contributors. (line 10786)
* derived fields: ncap2 netCDF Arithmetic Processor.
- (line 5479)
+ (line 5514)
* derived fields <1>: ncap2 netCDF Arithmetic Processor.
- (line 5491)
-* digest: MD5 digests. (line 4225)
+ (line 5526)
+* digest: MD5 digests. (line 4260)
* Digital: Compatability. (line 384)
-* dimension limits: Hyperslabs. (line 3038)
+* dimension limits: Hyperslabs. (line 3073)
* dimension names: ncrename netCDF Renamer.
- (line 10301)
+ (line 10336)
* dimension order: Annual Average over Regions.
- (line 11307)
-* dimensions, growing: Examples ncap2. (line 7768)
+ (line 11342)
+* dimensions, growing: Examples ncap2. (line 7803)
* disaggregate: Group Path Editing.
- (line 2743)
+ (line 2778)
* disjoint files: Appending Variables.
- (line 1008)
-* diskless files: RAM disks. (line 4326)
+ (line 1017)
+* diskless files: RAM disks. (line 4361)
* dismember: Group Path Editing.
- (line 2743)
+ (line 2778)
* Distributed Data Reduction & Analysis: Proposals for Institutional Funding.
- (line 10829)
-* Distributed Oceanographic Data System: OPeNDAP. (line 1879)
+ (line 10866)
+* Distributed Oceanographic Data System: OPeNDAP. (line 1888)
* 'divide': ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* dividing data: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* division: Intrinsic mathematical methods.
- (line 7868)
-* 'dmn': Chunking. (line 4075)
+ (line 7903)
+* 'dmn': Chunking. (line 4110)
* documentation: Availability. (line 310)
-* DODS: OPeNDAP. (line 1879)
+* DODS: OPeNDAP. (line 1888)
* DODS <1>: Retaining Retrieved Files.
- (line 2022)
-* 'DODS_ROOT': OPeNDAP. (line 1879)
+ (line 2056)
+* 'DODS_ROOT': OPeNDAP. (line 1888)
* dot product: Normalization and Integration.
- (line 10596)
+ (line 10631)
* dot product <1>: Normalization and Integration.
- (line 10615)
+ (line 10650)
* double(): Methods and functions.
- (line 6365)
+ (line 6400)
* double-precision: Intrinsic mathematical methods.
- (line 7974)
-* 'dsort': Sort methods. (line 6542)
-* duration: Subcycle. (line 3254)
+ (line 8009)
+* 'dsort': Sort methods. (line 6577)
+* duration: Subcycle. (line 3289)
* dynamic linking: Libraries. (line 560)
-* Ed Hartnett: Contributors. (line 10751)
-* Ed Hill: Contributors. (line 10805)
-* eddy covariance: Examples ncap2. (line 7804)
+* Ed Hartnett: Contributors. (line 10786)
+* Ed Hill: Contributors. (line 10842)
+* eddy covariance: Examples ncap2. (line 7839)
* editing attributes: ncatted netCDF Attribute Editor.
- (line 8104)
-* 'egrep': Subsetting Files. (line 2458)
+ (line 8139)
+* 'egrep': Subsetting Files. (line 2493)
* Elliptic integrals: GSL special functions.
- (line 7049)
-* ensemble: Concatenation. (line 1086)
+ (line 7084)
+* ensemble: Concatenation. (line 1095)
* ensemble <1>: nces netCDF Ensemble Statistics.
- (line 8675)
+ (line 8710)
* ensemble average: nces netCDF Ensemble Statistics.
- (line 8659)
+ (line 8694)
* ensemble concatenation: ncecat netCDF Ensemble Concatenator.
- (line 8814)
+ (line 8849)
* ERF: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* ERFC: Intrinsic mathematical methods.
- (line 7871)
-* Eric Blake: Contributors. (line 10813)
+ (line 7906)
+* Eric Blake: Contributors. (line 10850)
* error function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* error tolerance: Temporary Output Files.
- (line 898)
-* Etienne Tourigny: Contributors. (line 10819)
-* exclusion: Subsetting Files. (line 2315)
+ (line 907)
+* Etienne Tourigny: Contributors. (line 10856)
+* exclusion: Subsetting Files. (line 2350)
* exclusion <1>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* exclusion <2>: Filters for 'ncks'.
- (line 9732)
+ (line 9767)
* execution time: Libraries. (line 561)
* execution time <1>: Temporary Output Files.
- (line 913)
-* execution time <2>: Performance. (line 1432)
+ (line 922)
+* execution time <2>: Performance. (line 1441)
* execution time <3>: Metadata Optimization.
- (line 1474)
-* execution time <4>: Missing Values. (line 3938)
+ (line 1483)
+* execution time <4>: Missing Values. (line 3973)
* execution time <5>: ncrename netCDF Renamer.
- (line 10347)
+ (line 10382)
* EXP: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* exponent: Promoting Single-precision to Double.
- (line 5068)
+ (line 5103)
* exponentiation: Intrinsic mathematical methods.
- (line 7868)
+ (line 7903)
* exponentiation function: Intrinsic mathematical methods.
- (line 7871)
-* expressions: Expressions. (line 5541)
+ (line 7906)
+* expressions: Expressions. (line 5576)
* extended file format: Determining File Format.
- (line 2128)
+ (line 2163)
* extended regular expressions: Large Numbers of Files.
- (line 1199)
-* extended regular expressions <1>: Subsetting Files. (line 2458)
-* extended regular expressions <2>: Examples ncap2. (line 7823)
+ (line 1208)
+* extended regular expressions <1>: Subsetting Files. (line 2493)
+* extended regular expressions <2>: Examples ncap2. (line 7858)
* extended regular expressions <3>: ncatted netCDF Attribute Editor.
- (line 8147)
+ (line 8182)
* extended regular expressions <4>: ncatted netCDF Attribute Editor.
- (line 8354)
-* extraction: Subsetting Files. (line 2315)
+ (line 8389)
+* extraction: Subsetting Files. (line 2350)
* extraction <1>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* extraction <2>: Filters for 'ncks'.
- (line 9732)
+ (line 9767)
* 'f90': Windows Operating System.
(line 498)
* features, requesting: Help Requests and Bug Reports.
- (line 779)
-* File buffers: Buffer sizes. (line 4295)
-* file combination: Combine Files. (line 10970)
+ (line 788)
+* File buffers: Buffer sizes. (line 4330)
+* file combination: Combine Files. (line 11007)
* file deletion: Retaining Retrieved Files.
- (line 1994)
+ (line 2028)
* file multiplication: ncflint netCDF File Interpolator.
- (line 9101)
+ (line 9136)
* file removal: Retaining Retrieved Files.
- (line 1994)
+ (line 2028)
* file retention: Retaining Retrieved Files.
- (line 1994)
+ (line 2028)
* files, multiple: Specifying Input Files.
- (line 1666)
+ (line 1675)
* files, numerous input: Large Numbers of Files.
- (line 1163)
-* Filipe Fernandes: Contributors. (line 10809)
+ (line 1172)
+* Filipe Fernandes: Contributors. (line 10846)
* filters: Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* findgen-equivalent: Arrays and hyperslabs.
- (line 5817)
+ (line 5852)
* fix record dimension: ncecat netCDF Ensemble Concatenator.
- (line 8858)
+ (line 8893)
* fix record dimension <1>: ncecat netCDF Ensemble Concatenator.
- (line 8958)
+ (line 8993)
* fix record dimension <2>: ncks netCDF Kitchen Sink.
- (line 9328)
+ (line 9363)
* fixed dimension: ncecat netCDF Ensemble Concatenator.
- (line 8858)
+ (line 8893)
* fixed dimension <1>: ncecat netCDF Ensemble Concatenator.
- (line 8958)
+ (line 8993)
* fixed dimension <2>: ncks netCDF Kitchen Sink.
- (line 9251)
+ (line 9286)
* fixed dimension <3>: ncks netCDF Kitchen Sink.
- (line 9328)
-* flags: Examples ncap2. (line 7782)
+ (line 9363)
+* flags: Examples ncap2. (line 7817)
* flatten (groups): Group Path Editing.
- (line 2621)
-* flattening: Autoconversion. (line 2257)
+ (line 2656)
+* flattening: Autoconversion. (line 2292)
* 'float': Intrinsic mathematical methods.
- (line 7974)
+ (line 8009)
* float(): Methods and functions.
- (line 6362)
+ (line 6397)
* FLOOR: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* floor function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* 'flt_byt': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'flt_sht': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
-* for(): Loops. (line 6487)
-* force append: Batch Mode. (line 5192)
-* force overwrite: Batch Mode. (line 5192)
+ (line 9914)
+* for(): Loops. (line 6522)
+* force append: Batch Mode. (line 5227)
+* force overwrite: Batch Mode. (line 5227)
* foreword: Foreword. (line 203)
* Fortran: Promoting Single-precision to Double.
- (line 4851)
+ (line 4886)
* Fortran <1>: ncra netCDF Record Averager.
- (line 10196)
+ (line 10231)
* Fortran <2>: ncrcat netCDF Record Concatenator.
- (line 10273)
+ (line 10308)
* Fortran index convention: C and Fortran Index Conventions.
- (line 3001)
-* FORTRAN_FORMAT: Performance. (line 1440)
-* Francesco Lovergine: Contributors. (line 10803)
+ (line 3036)
+* FORTRAN_FORMAT: Performance. (line 1449)
+* Francesco Lovergine: Contributors. (line 10840)
* 'ftp': Windows Operating System.
(line 504)
-* 'ftp' <1>: Remote storage. (line 1767)
+* 'ftp' <1>: Remote storage. (line 1776)
* FTP: Retaining Retrieved Files.
- (line 2011)
+ (line 2045)
* funding: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* 'g++': Compatability. (line 402)
* 'g++' <1>: Windows Operating System.
(line 518)
-* 'g2d': Chunking. (line 4025)
-* 'g3d': Chunking. (line 4025)
+* 'g2d': Chunking. (line 4060)
+* 'g3d': Chunking. (line 4060)
* GAG: ncecat netCDF Ensemble Concatenator.
- (line 8866)
+ (line 8901)
* GAMMA: Compatability. (line 453)
* GAMMA <1>: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* gamma function: GSL special functions.
- (line 7015)
+ (line 7050)
* gamma function <1>: Intrinsic mathematical methods.
- (line 7871)
-* Gary Strand: Contributors. (line 10801)
+ (line 7906)
+* Gary Strand: Contributors. (line 10838)
* Gaussian weights: Normalization and Integration.
- (line 10659)
-* Gavin Burris: Contributors. (line 10815)
-* Gayathri Venkitachalam: Contributors. (line 10797)
+ (line 10694)
+* Gavin Burris: Contributors. (line 10852)
+* Gayathri Venkitachalam: Contributors. (line 10834)
* 'gcc': Compatability. (line 402)
* 'gcc' <1>: Windows Operating System.
(line 518)
* GCM: Climate Model Paradigm.
- (line 887)
+ (line 896)
* GCM <1>: Promoting Single-precision to Double.
- (line 4990)
-* geographical weight: Monthly Cycle. (line 11598)
-* George Shapavalov: Contributors. (line 10807)
-* George Shapovalov: Contributors. (line 10785)
-* George White: Contributors. (line 10801)
+ (line 5025)
+* geographical weight: Monthly Cycle. (line 11633)
+* George Shapavalov: Contributors. (line 10844)
+* George Shapovalov: Contributors. (line 10822)
+* George White: Contributors. (line 10838)
* 'gethostname': Windows Operating System.
(line 502)
* 'getopt': Command Line Options.
- (line 1573)
+ (line 1582)
* 'getopt.h': Command Line Options.
- (line 1573)
+ (line 1582)
* 'getopt_long': Command Line Options.
- (line 1573)
+ (line 1582)
* 'getuid': Windows Operating System.
(line 502)
* 'get_miss()': Missing values ncap2.
- (line 6204)
-* Glenn Davis: Contributors. (line 10751)
+ (line 6239)
+* Glenn Davis: Contributors. (line 10786)
* 'global' attribute: ncatted netCDF Attribute Editor.
- (line 8336)
+ (line 8371)
* 'global' attribute <1>: ncrename netCDF Renamer.
- (line 10356)
+ (line 10391)
* global attributes: Large Numbers of Files.
- (line 1191)
-* global attributes <1>: History Attribute. (line 5212)
+ (line 1200)
+* global attributes <1>: History Attribute. (line 5247)
* global attributes <2>: File List Attributes.
- (line 5240)
-* global attributes <3>: ARM Conventions. (line 5415)
+ (line 5275)
+* global attributes <3>: ARM Conventions. (line 5450)
* global attributes <4>: ncatted netCDF Attribute Editor.
- (line 8169)
+ (line 8204)
* global attributes <5>: ncatted netCDF Attribute Editor.
- (line 8336)
+ (line 8371)
* global attributes <6>: ncks netCDF Kitchen Sink.
- (line 9162)
+ (line 9197)
* global attributes <7>: ncks netCDF Kitchen Sink.
- (line 9196)
+ (line 9231)
* global attributes <8>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* global attributes <9>: ncrename netCDF Renamer.
- (line 10356)
+ (line 10391)
* global attributes <10>: ncrename netCDF Renamer.
- (line 10436)
+ (line 10471)
* globbing: Large Numbers of Files.
- (line 1199)
+ (line 1208)
* globbing <1>: Specifying Input Files.
- (line 1632)
-* globbing <2>: Subsetting Files. (line 2533)
-* globbing <3>: Examples ncap2. (line 7823)
+ (line 1641)
+* globbing <2>: Subsetting Files. (line 2568)
+* globbing <3>: Examples ncap2. (line 7858)
* globbing <4>: ncbo netCDF Binary Operator.
- (line 8440)
+ (line 8475)
* globbing <5>: ncra netCDF Record Averager.
- (line 10188)
+ (line 10223)
* globbing <6>: ncrcat netCDF Record Concatenator.
- (line 10266)
+ (line 10301)
* GNU: Command Line Options.
- (line 1560)
-* GNU <1>: Subsetting Files. (line 2458)
+ (line 1569)
+* GNU <1>: Subsetting Files. (line 2493)
* 'gnu-win32': Windows Operating System.
(line 498)
-* GNU/Linux: Large Datasets. (line 1283)
+* GNU/Linux: Large Datasets. (line 1292)
* 'GNUmakefile': Windows Operating System.
(line 498)
-* God: UDUnits Support. (line 3778)
-* 'grep -E': Subsetting Files. (line 2458)
+* God: UDUnits Support. (line 3813)
+* 'grep -E': Subsetting Files. (line 2493)
* group aggregation: ncecat netCDF Ensemble Concatenator.
- (line 8866)
-* group aggregation <1>: Combine Files. (line 11076)
+ (line 8901)
+* group aggregation <1>: Combine Files. (line 11113)
* group names: ncrename netCDF Renamer.
- (line 10301)
+ (line 10336)
* group path: Group Path Editing.
- (line 2602)
+ (line 2637)
* group, aggregation: Annual Average over Regions.
- (line 11532)
+ (line 11567)
* group, anomaly: Annual Average over Regions.
- (line 11532)
+ (line 11567)
* group, dimension permutation: Annual Average over Regions.
- (line 11532)
+ (line 11567)
* group, spatial averaging: Annual Average over Regions.
- (line 11532)
+ (line 11567)
* group, standard deviation: Annual Average over Regions.
- (line 11532)
+ (line 11567)
* group, temporal averaging: Annual Average over Regions.
- (line 11532)
+ (line 11567)
* groups: netCDF2/3/4 and HDF4/5 Support.
(line 654)
* groups <1>: ncatted netCDF Attribute Editor.
- (line 8360)
+ (line 8395)
* groups, averaging: Global Distribution of Long-term Average.
- (line 11283)
-* groups, creating: Combine Files. (line 11076)
+ (line 11320)
+* groups, creating: Combine Files. (line 11113)
* groups, moving: Group Path Editing.
- (line 2709)
+ (line 2744)
* groups, renaming: Group Path Editing.
- (line 2709)
-* growing dimensions: Examples ncap2. (line 7768)
+ (line 2744)
+* growing dimensions: Examples ncap2. (line 7803)
* GSL: Compatability. (line 446)
* GSL <1>: GSL special functions.
- (line 7000)
-* GSL <2>: GSL interpolation. (line 7392)
+ (line 7035)
+* GSL <2>: GSL interpolation. (line 7427)
* GSL_SF_BESSEL_JN: GSL special functions.
- (line 7029)
+ (line 7064)
* GSL_SF_GAMMA: GSL special functions.
- (line 7015)
+ (line 7050)
* gsl_sf_legendre_Pl: GSL special functions.
- (line 7084)
-* 'gw': CF Conventions. (line 5271)
+ (line 7119)
+* 'gw': CF Conventions. (line 5306)
* 'gw' <1>: Normalization and Integration.
- (line 10659)
-* Harry Mangalam: Contributors. (line 10777)
-* hash: MD5 digests. (line 4225)
+ (line 10694)
+* H4CF: netCDF2/3/4 and HDF4/5 Support.
+ (line 674)
+* 'h4tonccf': netCDF2/3/4 and HDF4/5 Support.
+ (line 674)
+* Harry Mangalam: Contributors. (line 10815)
+* hash: MD5 digests. (line 4260)
* HDF: netCDF2/3/4 and HDF4/5 Support.
(line 597)
* HDF <1>: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* HDF <2>: ncks netCDF Kitchen Sink.
- (line 9288)
+ (line 9323)
* HDF <3>: Proposals for Institutional Funding.
- (line 10836)
-* HDF unpacking: Packed data. (line 4482)
+ (line 10873)
+* HDF unpacking: Packed data. (line 4517)
* HDF4: netCDF2/3/4 and HDF4/5 Support.
(line 674)
* HDF4 <1>: ncks netCDF Kitchen Sink.
- (line 9288)
+ (line 9323)
* HDF5: netCDF2/3/4 and HDF4/5 Support.
(line 611)
* HDF5 <1>: netCDF2/3/4 and HDF4/5 Support.
(line 667)
* 'hdp': ncks netCDF Kitchen Sink.
- (line 9288)
+ (line 9323)
* help: Help Requests and Bug Reports.
- (line 779)
-* Henry Butowsky: Contributors. (line 10766)
+ (line 788)
+* Henry Butowsky: Contributors. (line 10801)
* 'hgh_byt': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'hgh_sht': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* hidden attributes: ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* Hierarchical Data Format: netCDF2/3/4 and HDF4/5 Support.
(line 597)
* 'history': Large Numbers of Files.
- (line 1243)
-* 'history' <1>: Remote storage. (line 1767)
-* 'history' <2>: History Attribute. (line 5212)
-* 'history' <3>: ARM Conventions. (line 5415)
+ (line 1252)
+* 'history' <1>: Remote storage. (line 1776)
+* 'history' <2>: History Attribute. (line 5247)
+* 'history' <3>: ARM Conventions. (line 5450)
* 'history' <4>: ncatted netCDF Attribute Editor.
- (line 8122)
+ (line 8157)
* 'history' <5>: Filters for 'ncks'.
- (line 9650)
+ (line 9685)
* 'hncgen': ncks netCDF Kitchen Sink.
- (line 9288)
+ (line 9323)
* HP: Compatability. (line 384)
-* HPSS: Remote storage. (line 1805)
-* 'hsi': Remote storage. (line 1805)
+* HPSS: Remote storage. (line 1814)
+* 'hsi': Remote storage. (line 1814)
* HTML: Availability. (line 310)
-* HTTP protocol: OPeNDAP. (line 1879)
-* 'hyai': CF Conventions. (line 5271)
-* 'hyam': CF Conventions. (line 5271)
-* 'hybi': CF Conventions. (line 5271)
-* 'hybm': CF Conventions. (line 5271)
-* hybrid coordinate system: Left hand casting. (line 5771)
+* HTTP protocol: OPeNDAP. (line 1888)
+* 'hyai': CF Conventions. (line 5306)
+* 'hyam': CF Conventions. (line 5306)
+* 'hybi': CF Conventions. (line 5306)
+* 'hybm': CF Conventions. (line 5306)
+* hybrid coordinate system: Left hand casting. (line 5806)
* hyperbolic arccosine function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* hyperbolic arcsine function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* hyperbolic arctangent function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* hyperbolic cosine function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* hyperbolic sine function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* hyperbolic tangent: Intrinsic mathematical methods.
- (line 7871)
-* hyperslab: Hyperslabs. (line 3038)
-* hyperslab <1>: Chunking. (line 4015)
+ (line 7906)
+* hyperslab: Hyperslabs. (line 3073)
+* hyperslab <1>: Chunking. (line 4050)
* hyperslab <2>: nces netCDF Ensemble Statistics.
- (line 8693)
+ (line 8728)
* hyperslab <3>: ncecat netCDF Ensemble Concatenator.
- (line 8852)
+ (line 8887)
* hyperslab <4>: ncra netCDF Record Averager.
- (line 10172)
+ (line 10207)
* hyperslab <5>: ncrcat netCDF Record Concatenator.
- (line 10242)
+ (line 10277)
* hyperslab <6>: ncwa netCDF Weighted Averager.
- (line 10505)
+ (line 10540)
* hyperslabs: Arrays and hyperslabs.
- (line 5844)
-* I/O: OPeNDAP. (line 1951)
+ (line 5879)
+* I/O: OPeNDAP. (line 1960)
* I/O <1>: C and Fortran Index Conventions.
- (line 3005)
-* I/O <2>: Multislabs. (line 3380)
-* I/O block size: Buffer sizes. (line 4295)
+ (line 3040)
+* I/O <2>: Multislabs. (line 3415)
+* I/O block size: Buffer sizes. (line 4330)
* I18N: Internationalization.
- (line 1466)
+ (line 1475)
* IBM: Compatability. (line 384)
* 'icc': Compatability. (line 402)
-* ID Quoting: ID Quoting. (line 8039)
-* IDL: Philosophy. (line 870)
+* ID Quoting: ID Quoting. (line 8074)
+* IDL: Philosophy. (line 879)
* IEEE: Automatic type conversion.
- (line 4809)
+ (line 4844)
* IEEE NaN: ncatted netCDF Attribute Editor.
- (line 8317)
-* if(): if statement. (line 6065)
-* 'ilimit': Large Datasets. (line 1281)
+ (line 8352)
+* if(): if statement. (line 6100)
+* 'ilimit': Large Datasets. (line 1290)
* implicit conversion: Promoting Single-precision to Double.
- (line 4839)
-* 'include': Include files. (line 6527)
+ (line 4874)
+* 'include': Include files. (line 6562)
* including files: Syntax of ncap2 statements.
- (line 5534)
+ (line 5569)
* index convention: C and Fortran Index Conventions.
- (line 3001)
+ (line 3036)
* indgen-equivalent: Arrays and hyperslabs.
- (line 5817)
+ (line 5852)
* inexact conversion: Intrinsic mathematical methods.
- (line 7938)
+ (line 7973)
* Info: Availability. (line 310)
* input files: Large Numbers of Files.
- (line 1217)
+ (line 1226)
* input files <1>: Specifying Input Files.
- (line 1632)
+ (line 1641)
* input files <2>: Specifying Output Files.
- (line 1735)
+ (line 1744)
* input files <3>: Specifying Output Files.
- (line 1752)
+ (line 1761)
* INPUT-PATH: Specifying Input Files.
- (line 1632)
-* INPUT-PATH <1>: Remote storage. (line 1828)
+ (line 1641)
+* INPUT-PATH <1>: Remote storage. (line 1837)
* installation: Compatability. (line 384)
* installation <1>: Help Requests and Bug Reports.
- (line 842)
+ (line 851)
* int(): Methods and functions.
- (line 6360)
+ (line 6395)
* int64(): Methods and functions.
- (line 6375)
+ (line 6410)
* integration: Normalization and Integration.
- (line 10596)
-* integrity: MD5 digests. (line 4225)
+ (line 10631)
+* integrity: MD5 digests. (line 4260)
* Intel: Compatability. (line 384)
* Internationalization: Internationalization.
- (line 1466)
-* interoperability: Packed data. (line 4482)
+ (line 1475)
+* interoperability: Packed data. (line 4517)
* interpolation: ncflint netCDF File Interpolator.
- (line 8974)
-* interpolation <1>: Regrid MODIS Data. (line 11762)
-* intersection: Subsetting Files. (line 2315)
-* intersection <1>: Subsetting Files. (line 2406)
+ (line 9009)
+* interpolation <1>: Regrid MODIS Data. (line 11797)
+* intersection: Subsetting Files. (line 2350)
+* intersection <1>: Subsetting Files. (line 2441)
* introduction: Introduction. (line 299)
* introduction <1>: How to Use This guide.
(line 350)
-* 'invert_map': Sort methods. (line 6542)
+* 'invert_map': Sort methods. (line 6577)
* IPCC: nces netCDF Ensemble Statistics.
- (line 8698)
+ (line 8733)
* IPCC <1>: Proposals for Institutional Funding.
- (line 10829)
-* irregular grids: Irregular grids. (line 6787)
+ (line 10866)
+* irregular grids: Irregular grids. (line 6822)
* ISO: Compatability. (line 407)
-* James Gallagher: Contributors. (line 10751)
-* Jim Edwards: Contributors. (line 10791)
-* John Caron: Contributors. (line 10751)
-* Juliana Rew: Contributors. (line 10793)
-* Karen Schuchardt: Contributors. (line 10795)
-* Keith Lindsay: Contributors. (line 10801)
+* James Gallagher: Contributors. (line 10786)
+* Jim Edwards: Contributors. (line 10828)
+* Joe Hamman: Contributors. (line 10810)
+* John Caron: Contributors. (line 10786)
+* Juliana Rew: Contributors. (line 10830)
+* Karen Schuchardt: Contributors. (line 10832)
+* Keith Lindsay: Contributors. (line 10838)
* kitchen sink: ncks netCDF Kitchen Sink.
- (line 9127)
-* Kyle Wilcox: Contributors. (line 10815)
+ (line 9162)
+* Kyle Wilcox: Contributors. (line 10852)
* L10N: Internationalization.
- (line 1467)
-* large datasets: Large Datasets. (line 1260)
-* large datasets <1>: OpenMP Threading. (line 1521)
-* Large File Support: Large Datasets. (line 1260)
+ (line 1476)
+* large datasets: Large Datasets. (line 1269)
+* large datasets <1>: OpenMP Threading. (line 1530)
+* Large File Support: Large Datasets. (line 1269)
* Large File Support <1>: Large File Support.
- (line 2281)
-* 'lat_bnds': CF Conventions. (line 5271)
+ (line 2316)
+* 'lat_bnds': CF Conventions. (line 5306)
* 'LD_LIBRARY_PATH': Libraries. (line 560)
-* left hand casting: Memory for ncap2. (line 1393)
-* left hand casting <1>: Left hand casting. (line 5771)
+* left hand casting: Memory for ncap2. (line 1402)
+* left hand casting <1>: Left hand casting. (line 5806)
* Legendre polynomial: GSL special functions.
- (line 7084)
-* Lempel-Ziv deflation: Deflation. (line 4188)
-* Len Makin: Contributors. (line 10789)
+ (line 7119)
+* Lempel-Ziv deflation: Deflation. (line 4223)
+* Len Makin: Contributors. (line 10826)
* lexer: ncap2 netCDF Arithmetic Processor.
- (line 5454)
-* 'lfp': Chunking. (line 4075)
-* LFS: Large Datasets. (line 1260)
+ (line 5489)
+* 'lfp': Chunking. (line 4110)
+* LFS: Large Datasets. (line 1269)
* LFS <1>: Large File Support.
- (line 2281)
-* LHS: Left hand casting. (line 5771)
+ (line 2316)
+* LHS: Left hand casting. (line 5806)
* 'libnco': Compatability. (line 407)
* libraries: Libraries. (line 560)
* linkers: Specifying Output Files.
- (line 1757)
+ (line 1766)
* Linux: Intrinsic mathematical methods.
- (line 7976)
+ (line 8011)
* LLVM: Compatability. (line 405)
* LN: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* 'ln -s': ncbo netCDF Binary Operator.
- (line 8454)
+ (line 8489)
* 'ln -s' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9867)
+ (line 9902)
* LOG: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* LOG10: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* logarithm, base 10: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* logarithm, natural: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* 'long double': Intrinsic mathematical methods.
- (line 7974)
+ (line 8009)
* long options: Command Line Options.
- (line 1572)
+ (line 1581)
* long options <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10041)
+ (line 10076)
* long-term average: Global Distribution of Long-term Average.
- (line 11202)
+ (line 11239)
* longitude: Wrapped Coordinates.
- (line 3474)
-* 'lon_bnds': CF Conventions. (line 5271)
-* Lori Sentman: Contributors. (line 10801)
+ (line 3509)
+* 'lon_bnds': CF Conventions. (line 5306)
+* Lori Sentman: Contributors. (line 10838)
* 'lrint()'.: Automatic type conversion.
- (line 4809)
+ (line 4844)
* 'lround()'.: Automatic type conversion.
- (line 4801)
-* Luk Claes: Contributors. (line 10803)
+ (line 4836)
+* Luk Claes: Contributors. (line 10840)
* Macintosh: Compatability. (line 384)
* 'Makefile': Compatability. (line 412)
* 'Makefile' <1>: Windows Operating System.
(line 498)
-* 'Makefile' <2>: OPeNDAP. (line 1891)
-* malloc(): Memory for ncap2. (line 1402)
+* 'Makefile' <2>: OPeNDAP. (line 1900)
+* malloc(): Memory for ncap2. (line 1411)
* mantissa: Promoting Single-precision to Double.
- (line 5068)
-* manual type conversion: Type Conversion. (line 4703)
-* 'map_dmn': Chunking. (line 4075)
-* 'map_lfp': Chunking. (line 4075)
-* 'map_prd': Chunking. (line 4075)
-* 'map_rd1': Chunking. (line 4075)
-* 'map_scl': Chunking. (line 4075)
-* 'map_xst': Chunking. (line 4075)
-* Mark Flanner: Contributors. (line 10801)
-* Markus Liebig: Contributors. (line 10801)
-* Martin Dix: Contributors. (line 10801)
-* Martin Otte: Contributors. (line 10819)
-* Martin Schmidt: Contributors. (line 10801)
+ (line 5103)
+* manual type conversion: Type Conversion. (line 4738)
+* 'map_dmn': Chunking. (line 4110)
+* 'map_lfp': Chunking. (line 4110)
+* 'map_prd': Chunking. (line 4110)
+* 'map_rd1': Chunking. (line 4110)
+* 'map_scl': Chunking. (line 4110)
+* 'map_xst': Chunking. (line 4110)
+* Mark Flanner: Contributors. (line 10838)
+* Markus Liebig: Contributors. (line 10838)
+* Martin Dix: Contributors. (line 10838)
+* Martin Otte: Contributors. (line 10856)
+* Martin Schmidt: Contributors. (line 10838)
* Martin Schultz: Group Path Editing.
- (line 2842)
-* mask: Irregular grids. (line 6787)
-* mask <1>: Examples ncap2. (line 7791)
-* mask condition: Mask condition. (line 10567)
+ (line 2877)
+* mask: Irregular grids. (line 6822)
+* mask <1>: Examples ncap2. (line 7826)
+* mask condition: Mask condition. (line 10602)
* mask condition <1>: Normalization and Integration.
- (line 10698)
+ (line 10733)
* masked average: ncwa netCDF Weighted Averager.
- (line 10473)
-* Mass Store System: Remote storage. (line 1767)
-* Matej Vela: Contributors. (line 10803)
+ (line 10508)
+* Mass Store System: Remote storage. (line 1776)
+* Matej Vela: Contributors. (line 10840)
* mathematical functions: Intrinsic mathematical methods.
- (line 7871)
-* Matlab: Philosophy. (line 870)
-* 'max': Operation Types. (line 4550)
+ (line 7906)
+* Matlab: Philosophy. (line 879)
+* 'max': Operation Types. (line 4585)
* max(): Methods and functions.
- (line 6268)
-* maximum: Operation Types. (line 4550)
-* MD5 digest: MD5 digests. (line 4225)
-* mean: Operation Types. (line 4550)
+ (line 6303)
+* maximum: Operation Types. (line 4585)
+* MD5 digest: MD5 digests. (line 4260)
+* mean: Operation Types. (line 4585)
* memory available: Memory Requirements.
- (line 1304)
-* memory available <1>: RAM disks. (line 4326)
-* memory leaks: Memory for ncap2. (line 1393)
+ (line 1313)
+* memory available <1>: RAM disks. (line 4361)
+* memory leaks: Memory for ncap2. (line 1402)
* memory requirements: Memory Requirements.
- (line 1304)
-* memory requirements <1>: Subsetting Files. (line 2439)
-* memory requirements <2>: RAM disks. (line 4326)
+ (line 1313)
+* memory requirements <1>: Subsetting Files. (line 2474)
+* memory requirements <2>: RAM disks. (line 4361)
* merging files: Appending Variables.
- (line 986)
+ (line 995)
* merging files <1>: ncks netCDF Kitchen Sink.
- (line 9176)
+ (line 9211)
* metadata: ncks netCDF Kitchen Sink.
- (line 9424)
+ (line 9459)
* metadata optimization: Metadata Optimization.
- (line 1474)
+ (line 1483)
* metadata, global: ncecat netCDF Ensemble Concatenator.
- (line 8899)
+ (line 8934)
* metadata, global <1>: ncks netCDF Kitchen Sink.
- (line 9381)
+ (line 9416)
* Michael Decker: Group Path Editing.
- (line 2842)
+ (line 2877)
* Michael Prather: Promoting Single-precision to Double.
- (line 5177)
-* Michael Schulz: Contributors. (line 10801)
+ (line 5212)
+* Michael Schulz: Contributors. (line 10838)
* Microsoft: Compatability. (line 384)
* Microsoft <1>: Windows Operating System.
(line 483)
@@ -14059,1104 +14101,1106 @@ General Index
(line 483)
* Mike Folk: netCDF2/3/4 and HDF4/5 Support.
(line 597)
-* Mike Page: Contributors. (line 10801)
-* 'min': Operation Types. (line 4550)
+* Mike Page: Contributors. (line 10838)
+* 'min': Operation Types. (line 4585)
* min(): Methods and functions.
- (line 6270)
-* minimum: Operation Types. (line 4550)
-* missing values: Missing Values. (line 3879)
+ (line 6305)
+* minimum: Operation Types. (line 4585)
+* missing values: Missing Values. (line 3914)
* missing values <1>: ncatted netCDF Attribute Editor.
- (line 8127)
+ (line 8162)
* missing values <2>: ncflint netCDF File Interpolator.
- (line 9047)
+ (line 9082)
* missing values <3>: ncks netCDF Kitchen Sink.
- (line 9437)
+ (line 9472)
* missing values ncap2: Missing values ncap2.
- (line 6161)
-* 'missing_value': Missing Values. (line 3879)
-* 'missing_value' <1>: Packed data. (line 4413)
+ (line 6196)
+* 'missing_value': Missing Values. (line 3914)
+* 'missing_value' <1>: Packed data. (line 4448)
* 'missing_value' <2>: ncrename netCDF Renamer.
- (line 10436)
-* MKS units: UDUnits Support. (line 3648)
-* MKS units <1>: UDUnits Support. (line 3778)
-* MODIS: Regrid MODIS Data. (line 11762)
+ (line 10471)
+* MKS units: UDUnits Support. (line 3683)
+* MKS units <1>: UDUnits Support. (line 3813)
+* MODIS: Regrid MODIS Data. (line 11797)
* MODIS <1>: Add Coordinates to MODIS Data.
- (line 11900)
+ (line 11935)
* modulus: Intrinsic mathematical methods.
- (line 7868)
-* monotonic coordinates: Performance. (line 1435)
+ (line 7903)
+* monotonic coordinates: Performance. (line 1444)
* monthly average: Daily data in one file.
- (line 10859)
-* monthly average <1>: Monthly Cycle. (line 11598)
+ (line 10896)
+* monthly average <1>: Monthly Cycle. (line 11633)
* monthly data: Monthly data in one file.
- (line 10890)
+ (line 10927)
* monthly data <1>: One time point one file.
- (line 10922)
+ (line 10959)
* monthly data <2>: Multiple files with multiple time points.
- (line 10940)
+ (line 10977)
* move groups: Group Path Editing.
- (line 2709)
-* MRO: Subcycle. (line 3254)
-* MSA: Multislabs. (line 3330)
-* 'msk_*': CF Conventions. (line 5271)
-* 'msrcp': Remote storage. (line 1805)
+ (line 2744)
+* MRO: Subcycle. (line 3289)
+* MSA: Multislabs. (line 3365)
+* 'msk_*': CF Conventions. (line 5306)
+* 'msrcp': Remote storage. (line 1814)
* msrcp: Retaining Retrieved Files.
- (line 2011)
-* 'msread': Remote storage. (line 1805)
-* MSS: Remote storage. (line 1767)
+ (line 2045)
+* 'msread': Remote storage. (line 1814)
+* MSS: Remote storage. (line 1776)
* multi-file operators: Single and Multi-file Operators.
- (line 1322)
+ (line 1331)
* multi-file operators <1>: Specifying Input Files.
- (line 1666)
+ (line 1675)
* multi-file operators <2>: Specifying Output Files.
- (line 1747)
+ (line 1756)
* multi-file operators <3>: nces netCDF Ensemble Statistics.
- (line 8728)
+ (line 8763)
* multi-file operators <4>: ncecat netCDF Ensemble Concatenator.
- (line 8894)
+ (line 8929)
* multi-file operators <5>: ncra netCDF Record Averager.
- (line 10165)
+ (line 10200)
* multi-file operators <6>: ncrcat netCDF Record Concatenator.
- (line 10235)
-* multi-hyperslab: Multislabs. (line 3330)
-* Multi-Record Operator: Subcycle. (line 3254)
+ (line 10270)
+* multi-hyperslab: Multislabs. (line 3365)
+* Multi-Record Operator: Subcycle. (line 3289)
* multiplication: Intrinsic mathematical methods.
- (line 7868)
+ (line 7903)
* multiplication <1>: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* multiplication <2>: ncflint netCDF File Interpolator.
- (line 9101)
+ (line 9136)
* 'multiply': ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* multiplying data: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* multiplying data <1>: ncflint netCDF File Interpolator.
- (line 8974)
-* multislab: Multislabs. (line 3330)
-* 'mv': Subsetting Files. (line 2357)
+ (line 9009)
+* multislab: Multislabs. (line 3365)
+* 'mv': Subsetting Files. (line 2392)
* 'MVS': Compatability. (line 402)
* MVS: Windows Operating System.
(line 483)
* naked characters: ncbo netCDF Binary Operator.
- (line 8439)
+ (line 8474)
* NaN: ncatted netCDF Attribute Editor.
- (line 8317)
+ (line 8352)
* NASA: Proposals for Institutional Funding.
- (line 10836)
+ (line 10873)
* NASA EOSDIS: Large Numbers of Files.
- (line 1164)
-* National Virtual Ocean Data System: OPeNDAP. (line 1961)
+ (line 1173)
+* National Virtual Ocean Data System: OPeNDAP. (line 1990)
* ncadd: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* ncap: ncap2 netCDF Arithmetic Processor.
- (line 5454)
+ (line 5489)
* ncap2: Compatability. (line 446)
* ncap2 <1>: ncap2 netCDF Arithmetic Processor.
- (line 5454)
-* 'ncap2': Memory for ncap2. (line 1393)
-* 'ncap2' <1>: OpenMP Threading. (line 1521)
+ (line 5489)
+* 'ncap2': Memory for ncap2. (line 1402)
+* 'ncap2' <1>: OpenMP Threading. (line 1530)
* 'ncap2' <2>: Manual type conversion.
- (line 5182)
+ (line 5217)
* 'ncap2' <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9799)
+ (line 9834)
* NCAR: Climate Model Paradigm.
- (line 887)
-* NCAR MSS: Remote storage. (line 1767)
-* ncatted: Missing Values. (line 3906)
+ (line 896)
+* NCAR MSS: Remote storage. (line 1776)
+* ncatted: Missing Values. (line 3941)
* ncatted <1>: ncatted netCDF Attribute Editor.
- (line 8104)
-* 'ncatted': Subsetting Files. (line 2458)
-* 'ncatted' <1>: Missing Values. (line 3931)
-* 'ncatted' <2>: History Attribute. (line 5230)
+ (line 8139)
+* 'ncatted': Subsetting Files. (line 2493)
+* 'ncatted' <1>: Missing Values. (line 3966)
+* 'ncatted' <2>: History Attribute. (line 5265)
* 'ncattget': ncatted netCDF Attribute Editor.
- (line 8111)
+ (line 8146)
* 'ncattget' <1>: Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* 'ncavg': Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* ncbo: ncbo netCDF Binary Operator.
- (line 8392)
-* 'ncbo': Missing Values. (line 3954)
+ (line 8427)
+* 'ncbo': Missing Values. (line 3989)
* ncdiff: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* ncdismember: Group Path Editing.
- (line 2743)
+ (line 2778)
* ncdismember <1>: Group Path Editing.
- (line 2842)
+ (line 2877)
* ncdivide: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* 'ncdmnsz': Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* 'ncdump': Determining File Format.
- (line 2150)
+ (line 2185)
* 'ncdump' <1>: ncks netCDF Kitchen Sink.
- (line 9288)
+ (line 9323)
* 'ncdump' <2>: ncks netCDF Kitchen Sink.
- (line 9424)
+ (line 9459)
* 'ncdump' <3>: ncks netCDF Kitchen Sink.
- (line 9473)
+ (line 9508)
* ncecat: ncecat netCDF Ensemble Concatenator.
- (line 8814)
-* 'ncecat': Concatenation. (line 1073)
+ (line 8849)
+* 'ncecat': Concatenation. (line 1082)
* nces: nces netCDF Ensemble Statistics.
- (line 8659)
-* 'nces': Averaging. (line 1131)
-* 'nces' <1>: Missing Values. (line 3954)
+ (line 8694)
+* 'nces': Averaging. (line 1140)
+* 'nces' <1>: Missing Values. (line 3989)
* 'ncextr': ncks netCDF Kitchen Sink.
- (line 9140)
+ (line 9175)
* ncflint: ncflint netCDF File Interpolator.
- (line 8974)
-* 'ncflint': Interpolating. (line 1153)
-* 'ncflint' <1>: Missing Values. (line 3954)
+ (line 9009)
+* 'ncflint': Interpolating. (line 1162)
+* 'ncflint' <1>: Missing Values. (line 3989)
* 'ncgen': ncks netCDF Kitchen Sink.
- (line 9288)
+ (line 9323)
* 'ncgen-hdf': ncks netCDF Kitchen Sink.
- (line 9288)
-* ncks: Deflation. (line 4219)
-* ncks <1>: Examples ncap2. (line 7846)
+ (line 9323)
+* ncks: Deflation. (line 4254)
+* ncks <1>: Examples ncap2. (line 7881)
* ncks <2>: ncks netCDF Kitchen Sink.
- (line 9127)
+ (line 9162)
* 'ncks': Determining File Format.
- (line 2119)
-* NCL: Philosophy. (line 870)
+ (line 2154)
+* NCL: Philosophy. (line 879)
* NCL <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9995)
+ (line 10030)
* 'nclist': Filters for 'ncks'.
- (line 9557)
-* 'ncl_convert2nc': ncpdq netCDF Permute Dimensions Quickly.
- (line 9995)
+ (line 9592)
+* 'ncl_convert2nc': netCDF2/3/4 and HDF4/5 Support.
+ (line 674)
+* 'ncl_convert2nc' <1>: ncpdq netCDF Permute Dimensions Quickly.
+ (line 10030)
* 'ncmax': Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* 'ncmdn': Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* 'ncmin': Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* NcML: ncks netCDF Kitchen Sink.
- (line 9473)
+ (line 9508)
* ncmult: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* ncmultiply: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* NCO availability: Availability. (line 302)
* NCO homepage: Availability. (line 326)
* nco script file: Annual Average over Regions.
- (line 11307)
+ (line 11342)
* 'NCO User Guide': Availability. (line 310)
* 'nco.config.log.${GNU_TRP}.foo': Help Requests and Bug Reports.
- (line 842)
+ (line 851)
* 'nco.configure.${GNU_TRP}.foo': Help Requests and Bug Reports.
- (line 842)
+ (line 851)
* 'nco.make.${GNU_TRP}.foo': Help Requests and Bug Reports.
- (line 842)
+ (line 851)
* 'nco_input_file_list': Large Numbers of Files.
- (line 1191)
+ (line 1200)
* 'nco_input_file_list' <1>: File List Attributes.
- (line 5240)
+ (line 5275)
* 'nco_input_file_number': Large Numbers of Files.
- (line 1191)
+ (line 1200)
* 'nco_input_file_number' <1>: File List Attributes.
- (line 5240)
-* 'nco_openmp_thread_number': OpenMP Threading. (line 1495)
+ (line 5275)
+* 'nco_openmp_thread_number': OpenMP Threading. (line 1504)
* ncpack: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
-* ncpdq: Chunking. (line 4015)
+ (line 9816)
+* ncpdq: Chunking. (line 4050)
* ncpdq <1>: ncecat netCDF Ensemble Concatenator.
- (line 8921)
+ (line 8956)
* ncpdq <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
+ (line 9816)
* ncpdq <3>: ncrcat netCDF Record Concatenator.
- (line 10247)
-* 'ncpdq': Concatenation. (line 1106)
-* 'ncpdq' <1>: OpenMP Threading. (line 1521)
-* ncra: Examples ncap2. (line 7846)
+ (line 10282)
+* 'ncpdq': Concatenation. (line 1115)
+* 'ncpdq' <1>: OpenMP Threading. (line 1530)
+* ncra: Examples ncap2. (line 7881)
* ncra <1>: ncra netCDF Record Averager.
- (line 10148)
-* 'ncra': Averaging. (line 1131)
-* 'ncra' <1>: Missing Values. (line 3954)
+ (line 10183)
+* 'ncra': Averaging. (line 1140)
+* 'ncra' <1>: Missing Values. (line 3989)
* ncrcat: ncrcat netCDF Record Concatenator.
- (line 10219)
-* 'ncrcat': Concatenation. (line 1073)
-* 'ncrcat' <1>: OpenMP Threading. (line 1521)
+ (line 10254)
+* 'ncrcat': Concatenation. (line 1082)
+* 'ncrcat' <1>: OpenMP Threading. (line 1530)
* 'ncrecsz': Filters for 'ncks'.
- (line 9557)
-* ncrename: Missing Values. (line 3906)
+ (line 9592)
+* ncrename: Missing Values. (line 3941)
* ncrename <1>: ncrename netCDF Renamer.
- (line 10301)
+ (line 10336)
* 'ncrng': Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* NCSA: netCDF2/3/4 and HDF4/5 Support.
(line 611)
* ncsub: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* ncsubtract: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* 'ncunits': Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* ncunpack: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
-* ncwa: Examples ncap2. (line 7846)
+ (line 9816)
+* ncwa: Examples ncap2. (line 7881)
* ncwa <1>: ncwa netCDF Weighted Averager.
- (line 10473)
-* 'ncwa': Averaging. (line 1131)
-* 'ncwa' <1>: OpenMP Threading. (line 1521)
-* 'ncwa' <2>: Missing Values. (line 3954)
+ (line 10508)
+* 'ncwa': Averaging. (line 1140)
+* 'ncwa' <1>: OpenMP Threading. (line 1530)
+* 'ncwa' <2>: Missing Values. (line 3989)
* 'NC_BYTE': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
-* 'NC_CHAR': Hyperslabs. (line 3109)
+ (line 9914)
+* 'NC_CHAR': Hyperslabs. (line 3144)
* 'NC_CHAR' <1>: ncbo netCDF Binary Operator.
- (line 8513)
+ (line 8548)
* 'NC_CHAR' <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
-* 'NC_DISKLESS': RAM disks. (line 4326)
+ (line 9914)
+* 'NC_DISKLESS': RAM disks. (line 4361)
* 'NC_DOUBLE': Intrinsic mathematical methods.
- (line 7974)
+ (line 8009)
* 'NC_DOUBLE' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'NC_FLOAT': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'NC_FORMAT_DAP2': Determining File Format.
- (line 2128)
+ (line 2163)
* 'NC_FORMAT_DAP4': Determining File Format.
- (line 2128)
+ (line 2163)
* 'NC_FORMAT_NC3': Determining File Format.
- (line 2128)
+ (line 2163)
* 'NC_FORMAT_NC_HDF4': Determining File Format.
- (line 2128)
+ (line 2163)
* 'NC_FORMAT_NC_HDF5': Determining File Format.
- (line 2128)
+ (line 2163)
* 'NC_FORMAT_PNETCDF': Determining File Format.
- (line 2128)
+ (line 2163)
* 'NC_INT': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'NC_INT64': netCDF2/3/4 and HDF4/5 Support.
(line 636)
* 'NC_INT64' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'NC_SHORT': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'NC_UBYTE': netCDF2/3/4 and HDF4/5 Support.
(line 636)
* 'NC_UBYTE' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'NC_UINT': netCDF2/3/4 and HDF4/5 Support.
(line 636)
* 'NC_UINT' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'NC_UINT64': netCDF2/3/4 and HDF4/5 Support.
(line 636)
* 'NC_UINT64' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'NC_USHORT': netCDF2/3/4 and HDF4/5 Support.
(line 636)
* 'NC_USHORT' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
+ (line 9914)
* 'nc__enddef()': Metadata Optimization.
- (line 1474)
+ (line 1483)
* ndims(): Methods and functions.
- (line 6304)
+ (line 6339)
* NEARBYINT: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* nearest integer function (exact): Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* nearest integer function (inexact): Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* NEC: Compatability. (line 384)
* Neil Davis: Automatic type conversion.
- (line 4795)
+ (line 4830)
* nesting: Syntax of ncap2 statements.
- (line 5534)
+ (line 5569)
* netCDF: Availability. (line 330)
* netCDF2: netCDF2/3/4 and HDF4/5 Support.
(line 585)
* netCDF2 <1>: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* 'NETCDF2_ONLY': netCDF2/3/4 and HDF4/5 Support.
(line 606)
* netCDF3: netCDF2/3/4 and HDF4/5 Support.
(line 585)
* netCDF3 <1>: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* netCDF3 classic file format: Determining File Format.
- (line 2119)
+ (line 2154)
* netCDF4: netCDF2/3/4 and HDF4/5 Support.
(line 611)
* netCDF4 <1>: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* netCDF4 <2>: Multiple Record Dimensions.
- (line 3841)
+ (line 3876)
* netCDF4 classic file format: Determining File Format.
- (line 2119)
+ (line 2154)
* netCDF4 file format: Determining File Format.
- (line 2119)
+ (line 2154)
* 'NETCDF4' files: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* 'NETCDF4_CLASSIC' files: File Formats and Conversion.
- (line 2034)
+ (line 2068)
* 'NETCDF4_ROOT': netCDF2/3/4 and HDF4/5 Support.
- (line 729)
-* Nick Bower: Contributors. (line 10803)
+ (line 733)
+* Nick Bower: Contributors. (line 10840)
* 'NINTAP': Specifying Input Files.
- (line 1632)
+ (line 1641)
* 'NINTAP' <1>: ncra netCDF Record Averager.
- (line 10188)
+ (line 10223)
* 'NINTAP' <2>: ncrcat netCDF Record Concatenator.
- (line 10266)
-* non-coordinate grid properties: CF Conventions. (line 5302)
-* non-rectangular grids: Irregular grids. (line 6787)
-* non-standard grids: Irregular grids. (line 6787)
+ (line 10301)
+* non-coordinate grid properties: CF Conventions. (line 5337)
+* non-rectangular grids: Irregular grids. (line 6822)
+* non-standard grids: Irregular grids. (line 6822)
* normalization: Normalization and Integration.
- (line 10596)
+ (line 10631)
* Not-a-Number: ncatted netCDF Attribute Editor.
- (line 8317)
+ (line 8352)
* 'NO_NETCDF_2': netCDF2/3/4 and HDF4/5 Support.
(line 595)
* NRA: Proposals for Institutional Funding.
- (line 10836)
-* 'nrnet': Remote storage. (line 1805)
+ (line 10873)
+* 'nrnet': Remote storage. (line 1814)
* NSF: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* NSF <1>: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* NT (Microsoft operating system): Windows Operating System.
(line 483)
* NUL: ncatted netCDF Attribute Editor.
- (line 8295)
+ (line 8330)
* 'NUL': ncpdq netCDF Permute Dimensions Quickly.
- (line 9917)
+ (line 9952)
* NUL-termination: ncatted netCDF Attribute Editor.
- (line 8295)
+ (line 8330)
* null operation: ncflint netCDF File Interpolator.
- (line 9098)
-* number literals 'ncap2': Number literals. (line 6015)
+ (line 9133)
+* number literals 'ncap2': Number literals. (line 6050)
* 'number_miss()': Missing values ncap2.
- (line 6211)
+ (line 6246)
* 'numerator': Normalization and Integration.
- (line 10596)
-* NVODS: OPeNDAP. (line 1961)
+ (line 10631)
+* NVODS: OPeNDAP. (line 1990)
* 'nxt_lsr': ncpdq netCDF Permute Dimensions Quickly.
- (line 9879)
-* oceanography: OPeNDAP. (line 1879)
+ (line 9914)
+* oceanography: OPeNDAP. (line 1888)
* octal dump: Determining File Format.
- (line 2162)
+ (line 2197)
* 'od': Determining File Format.
- (line 2162)
-* 'OMP_NUM_THREADS': OpenMP Threading. (line 1521)
+ (line 2197)
+* 'OMP_NUM_THREADS': OpenMP Threading. (line 1530)
* on-line documentation: Availability. (line 310)
* open source: Foreword. (line 222)
-* open source <1>: OPeNDAP. (line 1961)
+* open source <1>: OPeNDAP. (line 1990)
* Open-source Project for a Network Data Access Protocol: OPeNDAP.
- (line 1879)
-* OPeNDAP.: OPeNDAP. (line 1879)
+ (line 1888)
+* OPeNDAP.: OPeNDAP. (line 1888)
* OpenMP: Memory Requirements.
- (line 1311)
+ (line 1320)
* OpenMP <1>: Single and Multi-file Operators.
- (line 1386)
-* OpenMP <2>: OpenMP Threading. (line 1495)
-* operation types: Operation Types. (line 4550)
+ (line 1395)
+* OpenMP <2>: OpenMP Threading. (line 1504)
+* operation types: Operation Types. (line 4585)
* operation types <1>: ncra netCDF Record Averager.
- (line 10181)
+ (line 10216)
* operation types <2>: ncwa netCDF Weighted Averager.
- (line 10549)
+ (line 10584)
* operator speed: Libraries. (line 561)
* operator speed <1>: Temporary Output Files.
- (line 913)
-* operator speed <2>: Performance. (line 1432)
+ (line 922)
+* operator speed <2>: Performance. (line 1441)
* operator speed <3>: Metadata Optimization.
- (line 1474)
-* operator speed <4>: Missing Values. (line 3938)
+ (line 1483)
+* operator speed <4>: Missing Values. (line 3973)
* operator speed <5>: ncrename netCDF Renamer.
- (line 10347)
+ (line 10382)
* operators: Summary. (line 285)
* OptIPuter: Proposals for Institutional Funding.
- (line 10829)
-* Orion Powlawski: Contributors. (line 10805)
-* 'ORO': CF Conventions. (line 5271)
+ (line 10866)
+* Orion Powlawski: Contributors. (line 10842)
+* 'ORO': CF Conventions. (line 5306)
* 'ORO' <1>: Normalization and Integration.
- (line 10670)
+ (line 10705)
* OS: Compatability. (line 384)
* output file: Large Numbers of Files.
- (line 1217)
+ (line 1226)
* output file <1>: Specifying Output Files.
- (line 1735)
-* OUTPUT-PATH: Remote storage. (line 1828)
-* overview: Performance. (line 1417)
+ (line 1744)
+* OUTPUT-PATH: Remote storage. (line 1837)
+* overview: Performance. (line 1426)
* overwriting files: Temporary Output Files.
- (line 961)
-* overwriting files <1>: Batch Mode. (line 5192)
+ (line 970)
+* overwriting files <1>: Batch Mode. (line 5227)
* pack(): Methods and functions.
- (line 6286)
-* 'pack(x)': Packed data. (line 4413)
-* packing: OPeNDAP. (line 1943)
-* packing <1>: Chunking. (line 4015)
-* packing <2>: Packed data. (line 4413)
+ (line 6321)
+* 'pack(x)': Packed data. (line 4448)
+* packing: OPeNDAP. (line 1952)
+* packing <1>: Chunking. (line 4050)
+* packing <2>: Packed data. (line 4448)
* packing <3>: ncecat netCDF Ensemble Concatenator.
- (line 8921)
+ (line 8956)
* packing <4>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
+ (line 9816)
* packing <5>: ncrcat netCDF Record Concatenator.
- (line 10247)
+ (line 10282)
* packing map: ncpdq netCDF Permute Dimensions Quickly.
- (line 9873)
+ (line 9908)
* packing policy: ncpdq netCDF Permute Dimensions Quickly.
- (line 9798)
+ (line 9833)
* pack_byte(): Methods and functions.
- (line 6289)
+ (line 6324)
* pack_int(): Methods and functions.
- (line 6293)
+ (line 6328)
* pack_short(): Methods and functions.
- (line 6291)
-* papers: Performance. (line 1417)
-* 'parallel': Parallel. (line 11994)
-* parallelism: OpenMP Threading. (line 1495)
+ (line 6326)
+* papers: Performance. (line 1426)
+* 'parallel': Parallel. (line 12029)
+* parallelism: OpenMP Threading. (line 1504)
* parallelism <1>: Proposals for Institutional Funding.
- (line 10831)
+ (line 10868)
* parser: ncap2 netCDF Arithmetic Processor.
- (line 5454)
+ (line 5489)
* pasting variables: Appending Variables.
- (line 986)
+ (line 995)
* 'pathcc': Compatability. (line 402)
* 'pathCC': Compatability. (line 402)
* PathScale: Compatability. (line 384)
-* Patrice Dumas: Contributors. (line 10805)
-* Patrick Kursawe: Contributors. (line 10807)
+* Patrice Dumas: Contributors. (line 10842)
+* Patrick Kursawe: Contributors. (line 10844)
* pattern matching: Large Numbers of Files.
- (line 1199)
-* pattern matching <1>: Subsetting Files. (line 2458)
+ (line 1208)
+* pattern matching <1>: Subsetting Files. (line 2493)
* pattern matching <2>: ncatted netCDF Attribute Editor.
- (line 8147)
+ (line 8182)
* pattern matching <3>: ncatted netCDF Attribute Editor.
- (line 8354)
-* PayPal: Contributing. (line 10732)
+ (line 8389)
+* PayPal: Contributing. (line 10767)
* PCK_MAP: ncpdq netCDF Permute Dimensions Quickly.
- (line 9873)
+ (line 9908)
* PCK_PLC: ncpdq netCDF Permute Dimensions Quickly.
- (line 9806)
+ (line 9841)
* peak memory usage: Memory Requirements.
- (line 1304)
-* peak memory usage <1>: RAM disks. (line 4326)
-* Pedro Vicente: Contributors. (line 10779)
+ (line 1313)
+* peak memory usage <1>: RAM disks. (line 4361)
+* Pedro Vicente: Contributors. (line 10816)
* performance: Libraries. (line 561)
* performance <1>: Temporary Output Files.
- (line 913)
-* performance <2>: Performance. (line 1423)
-* performance <3>: Performance. (line 1432)
+ (line 922)
+* performance <2>: Performance. (line 1432)
+* performance <3>: Performance. (line 1441)
* performance <4>: Metadata Optimization.
- (line 1474)
-* performance <5>: Missing Values. (line 3938)
+ (line 1483)
+* performance <5>: Missing Values. (line 3973)
* performance <6>: ncrename netCDF Renamer.
- (line 10347)
-* Perl: Philosophy. (line 870)
+ (line 10382)
+* Perl: Philosophy. (line 879)
* Perl <1>: Large Numbers of Files.
- (line 1230)
+ (line 1239)
* Perl <2>: ncatted netCDF Attribute Editor.
- (line 8269)
+ (line 8304)
* permute dimensions: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
+ (line 9816)
* permute(): Arrays and hyperslabs.
- (line 5936)
-* Peter Campbell: Contributors. (line 10801)
+ (line 5971)
+* Peter Campbell: Contributors. (line 10838)
* 'pgcc': Compatability. (line 402)
* 'pgCC': Compatability. (line 402)
* PGI: Compatability. (line 384)
-* philosophy: Philosophy. (line 861)
+* philosophy: Philosophy. (line 870)
* pipes: Large Numbers of Files.
- (line 1212)
-* 'plc_all': Chunking. (line 4025)
-* 'plc_g2d': Chunking. (line 4025)
-* 'plc_g3d': Chunking. (line 4025)
-* 'plc_xpl': Chunking. (line 4025)
-* 'plc_xst': Chunking. (line 4025)
+ (line 1221)
+* 'plc_all': Chunking. (line 4060)
+* 'plc_g2d': Chunking. (line 4060)
+* 'plc_g3d': Chunking. (line 4060)
+* 'plc_xpl': Chunking. (line 4060)
+* 'plc_xst': Chunking. (line 4060)
* portability: Compatability. (line 384)
* positional arguments: Specifying Output Files.
- (line 1735)
+ (line 1744)
* POSIX: Command Line Options.
- (line 1560)
-* POSIX <1>: Subsetting Files. (line 2476)
+ (line 1569)
+* POSIX <1>: Subsetting Files. (line 2511)
* POW: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* power: Intrinsic mathematical methods.
- (line 7868)
+ (line 7903)
* power function: Intrinsic mathematical methods.
- (line 7871)
-* 'prd': Chunking. (line 4075)
+ (line 7906)
+* 'prd': Chunking. (line 4110)
* precision: Intrinsic mathematical methods.
- (line 7974)
+ (line 8009)
* preprocessor tokens: Windows Operating System.
(line 498)
* presentations: Availability. (line 320)
-* print() 'ncap2': print statement. (line 6132)
+* print() 'ncap2': print statement. (line 6167)
* 'printf': Compatability. (line 415)
* 'printf()': ncatted netCDF Attribute Editor.
- (line 8271)
+ (line 8306)
* 'printf()' <1>: ncks netCDF Kitchen Sink.
- (line 9465)
+ (line 9500)
* 'printf()' <2>: Filters for 'ncks'.
- (line 9685)
+ (line 9720)
* printing files contents: ncks netCDF Kitchen Sink.
- (line 9127)
+ (line 9162)
* printing variables: ncks netCDF Kitchen Sink.
- (line 9127)
+ (line 9162)
* Processor: ncra netCDF Record Averager.
- (line 10188)
+ (line 10223)
* Processor <1>: ncrcat netCDF Record Concatenator.
- (line 10266)
+ (line 10301)
* Processor, CCM: Specifying Input Files.
- (line 1632)
-* promotion: Type Conversion. (line 4703)
+ (line 1641)
+* promotion: Type Conversion. (line 4738)
* promotion <1>: Promoting Single-precision to Double.
- (line 4839)
+ (line 4874)
* promotion <2>: Intrinsic mathematical methods.
- (line 7941)
+ (line 7976)
* proposals: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* pseudonym: Symbolic Links. (line 534)
* publications: Availability. (line 320)
* QLogic: Compatability. (line 384)
* Qt: Windows Operating System.
(line 490)
* quadruple-precision: Intrinsic mathematical methods.
- (line 7974)
-* Quick Start: Quick Start. (line 10849)
+ (line 8009)
+* Quick Start: Quick Start. (line 10886)
* quiet: ncks netCDF Kitchen Sink.
- (line 9457)
-* quotes: Subsetting Files. (line 2533)
-* quotes <1>: Examples ncap2. (line 7823)
+ (line 9492)
+* quotes: Subsetting Files. (line 2568)
+* quotes <1>: Examples ncap2. (line 7858)
* quotes <2>: ncbo netCDF Binary Operator.
- (line 8440)
+ (line 8475)
* quotes <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10041)
+ (line 10076)
* RAG: ncecat netCDF Ensemble Concatenator.
- (line 8838)
+ (line 8873)
* RAM: Memory Requirements.
- (line 1304)
-* RAM <1>: RAM disks. (line 4326)
+ (line 1313)
+* RAM <1>: RAM disks. (line 4361)
* RAM disks: Temporary Output Files.
- (line 919)
-* RAM disks <1>: RAM disks. (line 4326)
+ (line 928)
+* RAM disks <1>: RAM disks. (line 4361)
* RAM files: Temporary Output Files.
- (line 919)
-* RAM files <1>: RAM disks. (line 4326)
-* RAM variables: RAM disks. (line 4366)
+ (line 928)
+* RAM files <1>: RAM disks. (line 4361)
+* RAM variables: RAM disks. (line 4401)
* RAM variables <1>: Methods and functions.
- (line 6392)
-* ram_delete(): RAM variables. (line 6404)
-* ram_write(): RAM variables. (line 6404)
+ (line 6427)
+* ram_delete(): RAM variables. (line 6439)
+* ram_write(): RAM variables. (line 6439)
* random walk: Promoting Single-precision to Double.
- (line 5056)
-* rank: Expressions. (line 5575)
+ (line 5091)
+* rank: Expressions. (line 5610)
* rank <1>: ncbo netCDF Binary Operator.
- (line 8481)
+ (line 8516)
* rank <2>: ncbo netCDF Binary Operator.
- (line 8494)
+ (line 8529)
* rank <3>: ncbo netCDF Binary Operator.
- (line 8544)
+ (line 8579)
* rank <4>: ncwa netCDF Weighted Averager.
- (line 10514)
+ (line 10549)
* 'rcp': Windows Operating System.
(line 504)
-* 'rcp' <1>: Remote storage. (line 1767)
-* RCS: Operator Version. (line 5422)
-* 'rd1': Chunking. (line 4075)
+* 'rcp' <1>: Remote storage. (line 1776)
+* RCS: Operator Version. (line 5457)
+* 'rd1': Chunking. (line 4110)
* re-dimension: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
+ (line 9816)
* re-order dimensions: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
+ (line 9816)
* record aggregation: ncecat netCDF Ensemble Concatenator.
- (line 8838)
-* record append: Record Appending. (line 3203)
+ (line 8873)
+* record append: Record Appending. (line 3238)
* record average: ncra netCDF Record Averager.
- (line 10148)
+ (line 10183)
* record concatenation: ncrcat netCDF Record Concatenator.
- (line 10219)
+ (line 10254)
* record dimension: Appending Variables.
- (line 989)
+ (line 998)
* record dimension <1>: C and Fortran Index Conventions.
- (line 3019)
-* record dimension <2>: Chunking. (line 4172)
+ (line 3054)
+* record dimension <2>: Chunking. (line 4207)
* record dimension <3>: nces netCDF Ensemble Statistics.
- (line 8693)
+ (line 8728)
* record dimension <4>: ncecat netCDF Ensemble Concatenator.
- (line 8848)
+ (line 8883)
* record dimension <5>: ncecat netCDF Ensemble Concatenator.
- (line 8852)
+ (line 8887)
* record dimension <6>: ncecat netCDF Ensemble Concatenator.
- (line 8958)
+ (line 8993)
* record dimension <7>: ncks netCDF Kitchen Sink.
- (line 9251)
+ (line 9286)
* record dimension <8>: ncks netCDF Kitchen Sink.
- (line 9328)
+ (line 9363)
* record dimension <9>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9945)
+ (line 9980)
* record dimension <10>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9947)
+ (line 9982)
* record dimension <11>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10096)
+ (line 10131)
* record dimension <12>: ncra netCDF Record Averager.
- (line 10148)
+ (line 10183)
* record dimension <13>: ncra netCDF Record Averager.
- (line 10161)
+ (line 10196)
* record dimension <14>: ncrcat netCDF Record Concatenator.
- (line 10232)
+ (line 10267)
* record variable: C and Fortran Index Conventions.
- (line 3014)
+ (line 3049)
* record variable <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9949)
-* rectangular grids: Irregular grids. (line 6787)
-* recursion: Subsetting Files. (line 2357)
-* recursive: Subsetting Files. (line 2357)
-* 'regex': Subsetting Files. (line 2476)
+ (line 9984)
+* rectangular grids: Irregular grids. (line 6822)
+* recursion: Subsetting Files. (line 2392)
+* recursive: Subsetting Files. (line 2392)
+* 'regex': Subsetting Files. (line 2511)
* regression: Annual Average over Regions.
- (line 11307)
+ (line 11342)
* regressions archive: Help Requests and Bug Reports.
- (line 849)
-* regrid: Regrid MODIS Data. (line 11762)
+ (line 858)
+* regrid: Regrid MODIS Data. (line 11797)
* regular expressions: Large Numbers of Files.
- (line 1199)
+ (line 1208)
* regular expressions <1>: Specifying Input Files.
- (line 1632)
-* regular expressions <2>: Subsetting Files. (line 2458)
-* regular expressions <3>: Examples ncap2. (line 7823)
+ (line 1641)
+* regular expressions <2>: Subsetting Files. (line 2493)
+* regular expressions <3>: Examples ncap2. (line 7858)
* regular expressions <4>: ncatted netCDF Attribute Editor.
- (line 8147)
+ (line 8182)
* regular expressions <5>: ncatted netCDF Attribute Editor.
- (line 8354)
-* 'remap': Sort methods. (line 6542)
-* Remik Ziemlinski: Contributors. (line 10801)
+ (line 8389)
+* 'remap': Sort methods. (line 6577)
+* Remik Ziemlinski: Contributors. (line 10838)
* remote files: Windows Operating System.
(line 504)
-* remote files <1>: Remote storage. (line 1767)
+* remote files <1>: Remote storage. (line 1776)
* rename groups: Group Path Editing.
- (line 2709)
+ (line 2744)
* renaming attributes: ncrename netCDF Renamer.
- (line 10301)
-* renaming attributes <1>: Regrid MODIS Data. (line 11762)
+ (line 10336)
+* renaming attributes <1>: Regrid MODIS Data. (line 11797)
* renaming dimensions: ncrename netCDF Renamer.
- (line 10301)
-* renaming dimensions <1>: Regrid MODIS Data. (line 11762)
+ (line 10336)
+* renaming dimensions <1>: Regrid MODIS Data. (line 11797)
* renaming groups: ncrename netCDF Renamer.
- (line 10301)
+ (line 10336)
* renaming variables: ncrename netCDF Renamer.
- (line 10301)
+ (line 10336)
* renaming variables <1>: Annual Average over Regions.
- (line 11307)
-* renaming variables <2>: Regrid MODIS Data. (line 11762)
+ (line 11342)
+* renaming variables <2>: Regrid MODIS Data. (line 11797)
* reporting bugs: Help Requests and Bug Reports.
- (line 779)
+ (line 788)
* reshape variables: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
+ (line 9816)
* 'restrict': Compatability. (line 439)
* reverse data: ncpdq netCDF Permute Dimensions Quickly.
- (line 10071)
+ (line 10106)
* reverse dimensions: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
+ (line 9816)
* reverse dimensions <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10028)
+ (line 10063)
* reverse dimensions <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10050)
+ (line 10085)
* reverse(): Arrays and hyperslabs.
- (line 5929)
-* 'rew': Chunking. (line 4075)
+ (line 5964)
+* 'rew': Chunking. (line 4110)
* RINT: Intrinsic mathematical methods.
- (line 7871)
-* 'rms': Operation Types. (line 4550)
-* 'rmssdn': Operation Types. (line 4550)
+ (line 7906)
+* 'rms': Operation Types. (line 4585)
+* 'rmssdn': Operation Types. (line 4585)
* rmssdn(): Methods and functions.
- (line 6274)
-* root-mean-square: Operation Types. (line 4550)
-* Rorik Peterson: Contributors. (line 10772)
+ (line 6309)
+* root-mean-square: Operation Types. (line 4585)
+* Rorik Peterson: Contributors. (line 10807)
* ROUND: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* rounding: Promoting Single-precision to Double.
- (line 5056)
+ (line 5091)
* rounding functions: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* RPM: netCDF2/3/4 and HDF4/5 Support.
- (line 724)
+ (line 728)
* running average: ncra netCDF Record Averager.
- (line 10148)
-* Russ Rew: Contributors. (line 10751)
-* Russ Rew <1>: Contributors. (line 10781)
+ (line 10183)
+* Russ Rew: Contributors. (line 10786)
+* Russ Rew <1>: Contributors. (line 10818)
* safeguards: Temporary Output Files.
- (line 898)
+ (line 907)
* safeguards <1>: ncrename netCDF Renamer.
- (line 10332)
-* 'scale_factor': Packed data. (line 4413)
+ (line 10367)
+* 'scale_factor': Packed data. (line 4448)
* 'scale_factor' <1>: ncecat netCDF Ensemble Concatenator.
- (line 8921)
+ (line 8956)
* 'scale_factor' <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9799)
+ (line 9834)
* 'scale_factor' <3>: ncrcat netCDF Record Concatenator.
- (line 10247)
-* SCALE_FORMAT: Performance. (line 1440)
-* scaling: Performance. (line 1423)
+ (line 10282)
+* SCALE_FORMAT: Performance. (line 1449)
+* scaling: Performance. (line 1432)
* scaling <1>: ncflint netCDF File Interpolator.
- (line 9101)
+ (line 9136)
* Scientific Data Operators: Proposals for Institutional Funding.
- (line 10829)
-* 'scl': Chunking. (line 4075)
-* Scott Capps: Contributors. (line 10799)
+ (line 10866)
+* 'scl': Chunking. (line 4110)
+* Scott Capps: Contributors. (line 10836)
* 'scp': Windows Operating System.
(line 504)
-* 'scp' <1>: Remote storage. (line 1767)
+* 'scp' <1>: Remote storage. (line 1776)
* script file: ncap2 netCDF Arithmetic Processor.
- (line 5472)
+ (line 5507)
* SDO: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* seasonal average: Monthly data in one file.
- (line 10893)
-* security: MD5 digests. (line 4225)
+ (line 10930)
+* security: MD5 digests. (line 4260)
* SEIII: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* semi-colon: Syntax of ncap2 statements.
- (line 5529)
+ (line 5564)
* separator: ncks netCDF Kitchen Sink.
- (line 9503)
-* server: Large Datasets. (line 1278)
-* server <1>: OPeNDAP. (line 1879)
+ (line 9538)
+* server: Large Datasets. (line 1287)
+* server <1>: OPeNDAP. (line 1888)
* server <2>: Retaining Retrieved Files.
- (line 2014)
+ (line 2048)
* server <3>: Retaining Retrieved Files.
- (line 2022)
+ (line 2056)
* Server-Side Distributed Data Reduction & Analysis: Proposals for Institutional Funding.
- (line 10829)
-* server-side processing: OPeNDAP. (line 1985)
+ (line 10866)
+* server-side processing: OPeNDAP. (line 2014)
* server-side processing <1>: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* 'set_miss()': Missing values ncap2.
- (line 6189)
+ (line 6224)
* 'sftp': Windows Operating System.
(line 504)
-* 'sftp' <1>: Remote storage. (line 1767)
+* 'sftp' <1>: Remote storage. (line 1776)
* SGI: Compatability. (line 384)
* Sh shell: Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* shared memory machines: Memory Requirements.
- (line 1311)
-* shared memory parallelism: OpenMP Threading. (line 1495)
+ (line 1320)
+* shared memory parallelism: OpenMP Threading. (line 1504)
* shell: Large Numbers of Files.
- (line 1199)
-* shell <1>: Subsetting Files. (line 2533)
-* shell <2>: UDUnits Support. (line 3705)
-* shell <3>: Examples ncap2. (line 7823)
+ (line 1208)
+* shell <1>: Subsetting Files. (line 2568)
+* shell <2>: UDUnits Support. (line 3740)
+* shell <3>: Examples ncap2. (line 7858)
* shell <4>: ncbo netCDF Binary Operator.
- (line 8440)
+ (line 8475)
* shell <5>: Filters for 'ncks'.
- (line 9557)
-* SIGNEDNESS: Performance. (line 1440)
+ (line 9592)
+* SIGNEDNESS: Performance. (line 1449)
* SIN: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* sine function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* single-precision: Intrinsic mathematical methods.
- (line 7974)
+ (line 8009)
* SINH: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* size(): Methods and functions.
- (line 6302)
-* SMP: OpenMP Threading. (line 1495)
-* 'sort': Sort methods. (line 6542)
+ (line 6337)
+* SMP: OpenMP Threading. (line 1504)
+* 'sort': Sort methods. (line 6577)
* sort alphabetically: ncks netCDF Kitchen Sink.
- (line 9236)
+ (line 9271)
* sort alphabetically <1>: Filters for 'ncks'.
- (line 9652)
+ (line 9687)
* source code: Availability. (line 302)
* spatial distribution: Global Distribution of Long-term Average.
- (line 11202)
+ (line 11239)
* special attributes: ncks netCDF Kitchen Sink.
- (line 9276)
+ (line 9311)
* special characters: ncatted netCDF Attribute Editor.
- (line 8286)
+ (line 8321)
* speed: Libraries. (line 561)
* speed <1>: Temporary Output Files.
- (line 913)
-* speed <2>: Large Datasets. (line 1287)
-* speed <3>: Performance. (line 1432)
+ (line 922)
+* speed <2>: Large Datasets. (line 1296)
+* speed <3>: Performance. (line 1441)
* speed <4>: Metadata Optimization.
- (line 1474)
-* speed <5>: Missing Values. (line 3938)
+ (line 1483)
+* speed <5>: Missing Values. (line 3973)
* speed <6>: ncrename netCDF Renamer.
- (line 10347)
-* 'sqravg': Operation Types. (line 4550)
+ (line 10382)
+* 'sqravg': Operation Types. (line 4585)
* sqravg(): Methods and functions.
- (line 6264)
-* 'sqrt': Operation Types. (line 4550)
+ (line 6299)
+* 'sqrt': Operation Types. (line 4585)
* SQRT: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* square root function: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* SSDDRA: Proposals for Institutional Funding.
- (line 10829)
+ (line 10866)
* SSH: Windows Operating System.
(line 504)
* SSH <1>: Retaining Retrieved Files.
- (line 2011)
+ (line 2045)
* sshort(): Methods and functions.
- (line 6358)
-* standard deviation: Operation Types. (line 4550)
-* standard deviation <1>: Operation Types. (line 4630)
+ (line 6393)
+* standard deviation: Operation Types. (line 4585)
+* standard deviation <1>: Operation Types. (line 4665)
* standard deviation <2>: Annual Average over Regions.
- (line 11307)
+ (line 11342)
* standard input: Large Numbers of Files.
- (line 1182)
+ (line 1191)
* standard input <1>: nces netCDF Ensemble Statistics.
- (line 8728)
+ (line 8763)
* standard input <2>: ncecat netCDF Ensemble Concatenator.
- (line 8894)
+ (line 8929)
* standard input <3>: ncra netCDF Record Averager.
- (line 10165)
+ (line 10200)
* standard input <4>: ncrcat netCDF Record Concatenator.
- (line 10235)
+ (line 10270)
* 'standard_name': Auxiliary Coordinates.
- (line 3524)
-* 'stat() system call': Buffer sizes. (line 4295)
+ (line 3559)
+* 'stat() system call': Buffer sizes. (line 4330)
* statement: Syntax of ncap2 statements.
- (line 5515)
+ (line 5550)
* static linking: Libraries. (line 560)
* 'stdin': Large Numbers of Files.
- (line 1182)
+ (line 1191)
* 'stdin' <1>: File List Attributes.
- (line 5240)
+ (line 5275)
* 'stdin' <2>: nces netCDF Ensemble Statistics.
- (line 8728)
+ (line 8763)
* 'stdin' <3>: ncecat netCDF Ensemble Concatenator.
- (line 8894)
+ (line 8929)
* 'stdin' <4>: ncra netCDF Record Averager.
- (line 10165)
+ (line 10200)
* 'stdin' <5>: ncrcat netCDF Record Concatenator.
- (line 10235)
-* Steve Emmerson: Contributors. (line 10751)
-* stride: Hyperslabs. (line 3063)
-* stride <1>: Stride. (line 3142)
-* stride <2>: Multislabs. (line 3369)
-* stride <3>: UDUnits Support. (line 3696)
+ (line 10270)
+* Steve Emmerson: Contributors. (line 10786)
+* stride: Hyperslabs. (line 3098)
+* stride <1>: Stride. (line 3177)
+* stride <2>: Multislabs. (line 3404)
+* stride <3>: UDUnits Support. (line 3731)
* stride <4>: ncra netCDF Record Averager.
- (line 10173)
+ (line 10208)
* stride <5>: ncra netCDF Record Averager.
- (line 10204)
+ (line 10239)
* stride <6>: ncrcat netCDF Record Concatenator.
- (line 10243)
+ (line 10278)
* stride <7>: ncrcat netCDF Record Concatenator.
- (line 10284)
+ (line 10319)
* strings: ncatted netCDF Attribute Editor.
- (line 8295)
-* Stu Muller: Contributors. (line 10801)
-* stub: Remote storage. (line 1837)
-* sub-cycle: Subcycle. (line 3254)
-* subcycle: Subcycle. (line 3254)
-* subsetting: Subsetting Files. (line 2315)
+ (line 8330)
+* Stu Muller: Contributors. (line 10838)
+* stub: Remote storage. (line 1846)
+* sub-cycle: Subcycle. (line 3289)
+* subcycle: Subcycle. (line 3289)
+* subsetting: Subsetting Files. (line 2350)
* subsetting <1>: Subsetting Coordinate Variables.
- (line 2558)
-* subsetting <2>: CF Conventions. (line 5337)
+ (line 2593)
+* subsetting <2>: CF Conventions. (line 5372)
* subsetting <3>: Filters for 'ncks'.
- (line 9658)
+ (line 9693)
* subsetting <4>: Filters for 'ncks'.
- (line 9732)
+ (line 9767)
* 'subtract': ncbo netCDF Binary Operator.
- (line 8410)
+ (line 8445)
* subtracting data: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* subtraction: Intrinsic mathematical methods.
- (line 7868)
+ (line 7903)
* subtraction <1>: ncbo netCDF Binary Operator.
- (line 8392)
+ (line 8427)
* summary: Summary. (line 285)
* Sun: Compatability. (line 384)
-* swap space: Large Datasets. (line 1265)
+* swap space: Large Datasets. (line 1274)
* swap space <1>: Memory Requirements.
- (line 1304)
-* swap space <2>: RAM disks. (line 4326)
+ (line 1313)
+* swap space <2>: RAM disks. (line 4361)
* switches: Command Line Options.
- (line 1560)
+ (line 1569)
* symbolic links: Symbolic Links. (line 524)
* symbolic links <1>: Statistics vs. Concatenation.
- (line 1042)
+ (line 1051)
* symbolic links <2>: Large Numbers of Files.
- (line 1224)
+ (line 1233)
* symbolic links <3>: ncbo netCDF Binary Operator.
- (line 8454)
+ (line 8489)
* symbolic links <4>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9867)
-* synchronous file access: Remote storage. (line 1767)
+ (line 9902)
+* synchronous file access: Remote storage. (line 1776)
* synonym: Symbolic Links. (line 534)
* syntax: Syntax of ncap2 statements.
- (line 5515)
-* System calls: Buffer sizes. (line 4295)
-* Takeshi Enomoto: Contributors. (line 10811)
+ (line 5550)
+* System calls: Buffer sizes. (line 4330)
+* Takeshi Enomoto: Contributors. (line 10848)
* TAN: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* TANH: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* temporary files: Temporary Output Files.
- (line 898)
-* temporary files <1>: RAM disks. (line 4406)
+ (line 907)
+* temporary files <1>: RAM disks. (line 4441)
* temporary output files: Temporary Output Files.
- (line 898)
-* temporary output files <1>: RAM disks. (line 4406)
+ (line 907)
+* temporary output files <1>: RAM disks. (line 4441)
* temporary output files <2>: ncrename netCDF Renamer.
- (line 10332)
+ (line 10367)
* TeXinfo: Availability. (line 310)
* threads: Memory Requirements.
- (line 1311)
+ (line 1320)
* threads <1>: Single and Multi-file Operators.
- (line 1386)
-* threads <2>: OpenMP Threading. (line 1495)
-* THR_NBR: OpenMP Threading. (line 1521)
-* 'time': UDUnits Support. (line 3687)
-* 'time' <1>: ARM Conventions. (line 5391)
-* time-averaging: Examples ncap2. (line 7846)
+ (line 1395)
+* threads <2>: OpenMP Threading. (line 1504)
+* THR_NBR: OpenMP Threading. (line 1530)
+* 'time': UDUnits Support. (line 3722)
+* 'time' <1>: ARM Conventions. (line 5426)
+* time-averaging: Examples ncap2. (line 7881)
* time-averaging <1>: Daily data in one file.
- (line 10859)
+ (line 10896)
* time-averaging <2>: Daily data in one file.
- (line 10873)
+ (line 10910)
* time-averaging <3>: Monthly data in one file.
- (line 10893)
+ (line 10930)
* time-averaging <4>: Monthly data in one file.
- (line 10896)
+ (line 10933)
* time-averaging <5>: One time point one file.
- (line 10922)
+ (line 10959)
* time-averaging <6>: Global Distribution of Long-term Average.
- (line 11202)
+ (line 11239)
* time-averaging <7>: Annual Average over Regions.
- (line 11307)
-* time-averaging <8>: Monthly Cycle. (line 11598)
-* timestamp: History Attribute. (line 5212)
-* 'time_offset': ARM Conventions. (line 5391)
-* total: Operation Types. (line 4550)
+ (line 11342)
+* time-averaging <8>: Monthly Cycle. (line 11633)
+* timestamp: History Attribute. (line 5247)
+* 'time_offset': ARM Conventions. (line 5426)
+* total: Operation Types. (line 4585)
* transpose: C and Fortran Index Conventions.
- (line 3012)
+ (line 3047)
* transpose <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9959)
+ (line 9994)
* TREFHT: Promoting Single-precision to Double.
- (line 4990)
+ (line 5025)
* TRUNC: Intrinsic mathematical methods.
- (line 7871)
+ (line 7906)
* 'trunc()': Automatic type conversion.
- (line 4782)
+ (line 4817)
* truncate (groups): Group Path Editing.
- (line 2621)
+ (line 2656)
* truncation function: Intrinsic mathematical methods.
- (line 7871)
-* truth condition: Mask condition. (line 10567)
+ (line 7906)
+* truth condition: Mask condition. (line 10602)
* truth condition <1>: Normalization and Integration.
- (line 10698)
-* 'ttl': Operation Types. (line 4550)
+ (line 10733)
+* 'ttl': Operation Types. (line 4585)
* ttl(): Methods and functions.
- (line 6276)
-* type conversion: Type Conversion. (line 4697)
+ (line 6311)
+* type conversion: Type Conversion. (line 4732)
* type(): Methods and functions.
- (line 6306)
+ (line 6341)
* ubyte(): Methods and functions.
- (line 6369)
+ (line 6404)
* UDUnits: Compatability. (line 393)
-* UDUnits <1>: UDUnits Support. (line 3634)
-* UDUnits <2>: CF Conventions. (line 5271)
+* UDUnits <1>: UDUnits Support. (line 3669)
+* UDUnits <2>: CF Conventions. (line 5306)
* uint(): Methods and functions.
- (line 6373)
-* 'ulimit': Large Datasets. (line 1283)
-* unary operations: Memory for ncap2. (line 1393)
+ (line 6408)
+* 'ulimit': Large Datasets. (line 1292)
+* unary operations: Memory for ncap2. (line 1402)
* underlying file format: Determining File Format.
- (line 2128)
-* UNICOS: Large Datasets. (line 1278)
+ (line 2163)
+* UNICOS: Large Datasets. (line 1287)
* Unidata: Compatability. (line 393)
* Unidata <1>: netCDF2/3/4 and HDF4/5 Support.
(line 611)
-* Unidata <2>: UDUnits Support. (line 3634)
-* union: Subsetting Files. (line 2315)
-* union <1>: Subsetting Files. (line 2406)
+* Unidata <2>: UDUnits Support. (line 3669)
+* union: Subsetting Files. (line 2350)
+* union <1>: Subsetting Files. (line 2441)
* union of files: Appending Variables.
- (line 1008)
+ (line 1017)
* unit64(): Methods and functions.
- (line 6377)
-* 'units': UDUnits Support. (line 3634)
-* 'units' <1>: UDUnits Support. (line 3655)
-* 'units' <2>: UDUnits Support. (line 3687)
+ (line 6412)
+* 'units': UDUnits Support. (line 3669)
+* 'units' <1>: UDUnits Support. (line 3690)
+* 'units' <2>: UDUnits Support. (line 3722)
* 'units' <3>: ncatted netCDF Attribute Editor.
- (line 8343)
+ (line 8378)
* 'units' <4>: ncatted netCDF Attribute Editor.
- (line 8346)
+ (line 8381)
* 'units' <5>: ncflint netCDF File Interpolator.
- (line 9119)
+ (line 9154)
* UNIX: Compatability. (line 393)
* UNIX <1>: Windows Operating System.
(line 502)
* UNIX <2>: Large Numbers of Files.
- (line 1199)
+ (line 1208)
* UNIX <3>: Command Line Options.
- (line 1560)
+ (line 1569)
* UNIX <4>: Specifying Input Files.
- (line 1638)
+ (line 1647)
* UNIX <5>: Filters for 'ncks'.
- (line 9557)
+ (line 9592)
* unlimited dimension: ncecat netCDF Ensemble Concatenator.
- (line 8848)
-* 'unmap': Sort methods. (line 6542)
+ (line 8883)
+* 'unmap': Sort methods. (line 6577)
* unpack(): Methods and functions.
- (line 6295)
-* 'unpack(x)': Packed data. (line 4413)
-* unpacking: OPeNDAP. (line 1943)
-* unpacking <1>: Packed data. (line 4413)
+ (line 6330)
+* 'unpack(x)': Packed data. (line 4448)
+* unpacking: OPeNDAP. (line 1952)
+* unpacking <1>: Packed data. (line 4448)
* unpacking <2>: ncecat netCDF Ensemble Concatenator.
- (line 8921)
+ (line 8956)
* unpacking <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 9781)
+ (line 9816)
* unpacking <4>: ncrcat netCDF Record Concatenator.
- (line 10247)
-* URL: Remote storage. (line 1767)
+ (line 10282)
+* URL: Remote storage. (line 1776)
* 'User Guide': Availability. (line 310)
* ushort(): Methods and functions.
- (line 6371)
-* value list: Attributes. (line 5971)
+ (line 6406)
+* value list: Attributes. (line 6006)
* variable names: ncrename netCDF Renamer.
- (line 10301)
+ (line 10336)
* variables, appending: Annual Average over Regions.
- (line 11307)
-* variance: Operation Types. (line 4550)
-* version: Operator Version. (line 5422)
+ (line 11342)
+* variance: Operation Types. (line 4585)
+* version: Operator Version. (line 5457)
* Vista (Microsoft operating system): Windows Operating System.
(line 483)
* weighted average: ncwa netCDF Weighted Averager.
- (line 10473)
-* weighted average <1>: Monthly Cycle. (line 11598)
-* Wenshan Wang: Contributors. (line 10821)
-* 'wget': Remote storage. (line 1767)
-* where(): Where statement. (line 6419)
-* while(): Loops. (line 6487)
-* whitespace: UDUnits Support. (line 3696)
+ (line 10508)
+* weighted average <1>: Monthly Cycle. (line 11633)
+* Wenshan Wang: Contributors. (line 10858)
+* 'wget': Remote storage. (line 1776)
+* where(): Where statement. (line 6454)
+* while(): Loops. (line 6522)
+* whitespace: UDUnits Support. (line 3731)
* wildcards: Specifying Input Files.
- (line 1632)
-* wildcards <1>: Subsetting Files. (line 2458)
+ (line 1641)
+* wildcards <1>: Subsetting Files. (line 2493)
* wildcards <2>: ncatted netCDF Attribute Editor.
- (line 8147)
+ (line 8182)
* wildcards <3>: ncatted netCDF Attribute Editor.
- (line 8354)
+ (line 8389)
* 'WIN32': Windows Operating System.
(line 498)
* Windows: Compatability. (line 384)
* Windows <1>: Windows Operating System.
(line 483)
-* wrapped coordinates: Hyperslabs. (line 3114)
+* wrapped coordinates: Hyperslabs. (line 3149)
* wrapped coordinates <1>: Wrapped Coordinates.
- (line 3474)
-* wrapped coordinates <2>: Irregular grids. (line 6816)
+ (line 3509)
+* wrapped coordinates <2>: Irregular grids. (line 6851)
* wrapped coordinates <3>: Filters for 'ncks'.
- (line 9770)
+ (line 9805)
* wrapped filenames: Specifying Input Files.
- (line 1695)
-* WRF: Irregular grids. (line 6874)
+ (line 1704)
+* WRF: Irregular grids. (line 6909)
* WWW documentation: Availability. (line 310)
* 'xargs': Large Numbers of Files.
- (line 1199)
+ (line 1208)
* 'xargs' <1>: Specifying Output Files.
- (line 1752)
+ (line 1761)
* 'xlC': Compatability. (line 402)
* 'xlc': Compatability. (line 402)
* XML: ncks netCDF Kitchen Sink.
- (line 9473)
+ (line 9508)
* XP (Microsoft operating system): Windows Operating System.
(line 483)
-* 'xpl': Chunking. (line 4025)
-* 'xst': Chunking. (line 4025)
-* 'xst' <1>: Chunking. (line 4075)
-* Yorick: Philosophy. (line 870)
-* Yorick <1>: Performance. (line 1443)
+* 'xpl': Chunking. (line 4060)
+* 'xst': Chunking. (line 4060)
+* 'xst' <1>: Chunking. (line 4110)
+* Yorick: Philosophy. (line 879)
+* Yorick <1>: Performance. (line 1452)
diff --git a/doc/nco.xml b/doc/nco.xml
index 606d059..7adb8e1 100644
--- a/doc/nco.xml
+++ b/doc/nco.xml
@@ -116,14 +116,14 @@ Octave TeXInfo manual shows clean TeXInfo structure
<setfilename file="nco.info" spaces=" ">nco.info</setfilename>
<!-- c Define edition, date, ... -->
-<set name="nco-edition" line=" nco-edition 4.4.2">4.4.2</set>
-<set name="doc-edition" line=" doc-edition 4.4.2">4.4.2</set>
+<set name="nco-edition" line=" nco-edition 4.4.3">4.4.3</set>
+<set name="doc-edition" line=" doc-edition 4.4.3">4.4.3</set>
<set name="copyright-years" line=" copyright-years 1995--2014">1995--2014</set>
<set name="update-year" line=" update-year 2014">2014</set>
-<set name="update-date" line=" update-date 19 February 2014">19 February 2014</set>
-<set name="update-month" line=" update-month February 2014">February 2014</set>
+<set name="update-date" line=" update-date 2 April 2014">2 April 2014</set>
+<set name="update-month" line=" update-month April 2014">April 2014</set>
-<settitle spaces=" "><acronym><acronymword>NCO</acronymword></acronym> 4.4.2 User Guide</settitle>
+<settitle spaces=" "><acronym><acronymword>NCO</acronymword></acronym> 4.4.3 User Guide</settitle>
<!-- c Uncomment following line to produce guide in smallbook format -->
<!-- c @smallbook -->
@@ -507,8 +507,8 @@ ncflint, ncks, ncra, ncrcat, ncrename, ncwa">
</ignore>
<title spaces=" ">NCO User Guide</title>
<subtitle spaces=" ">A suite of netCDF operators</subtitle>
-<subtitle spaces=" ">Edition 4.4.2, for <acronym><acronymword>NCO</acronymword></acronym> Version 4.4.2</subtitle>
-<subtitle spaces=" ">February 2014</subtitle>
+<subtitle spaces=" ">Edition 4.4.3, for <acronym><acronymword>NCO</acronymword></acronym> Version 4.4.3</subtitle>
+<subtitle spaces=" ">April 2014</subtitle>
<author spaces=" ">by Charlie Zender</author>
<author spaces=" ">Department of Earth System Science</author>
@@ -584,8 +584,8 @@ examples from the field of climate modeling and analysis.
The <acronym><acronymword>NCO</acronymword></acronym> homepage is <uref><urefurl>http://nco.sf.net</urefurl></uref>, and
there is a mirror at <uref><urefurl>http://dust.ess.uci.edu/nco</urefurl></uref>.
</para>
-<para>This documentation is for <acronym><acronymword>NCO</acronymword></acronym> version 4.4.2.
-It was last updated 19 February 2014.
+<para>This documentation is for <acronym><acronymword>NCO</acronymword></acronym> version 4.4.3.
+It was last updated 2 April 2014.
Corrections, additions, and rewrites of this documentation are very
welcome.
</para>
@@ -845,7 +845,7 @@ descriptions of <uref><urefurl>http://nco.sf.net/#bug</urefurl><urefdesc spaces=
are on our homepage
(<uref><urefurl>http://nco.sf.net/</urefurl></uref>).
</para>
-<para>There are twelve operators in the current version (4.4.2).
+<para>There are twelve operators in the current version (4.4.3).
The function of each is explained in <ref label="Operator-Reference-Manual"><xrefnodename>Operator Reference Manual</xrefnodename><xrefinfoname spaces=" ">Operator Reference Manual</xrefinfoname></ref>.
Many of the tasks that <acronym><acronymword>NCO</acronymword></acronym> can accomplish are described during
the explanation of common <acronym><acronymword>NCO</acronymword></acronym> Features (<pxref label="Common-features"><xrefnodename>Common features</xrefnodename></pxref>).
@@ -1419,8 +1419,11 @@ See <ref label="File-Formats-and-Conversion"><xrefnodename>File Formats and Conv
<a name="hdf4"></a> <!&textndash; http://nco.sf.net/nco.html#hdf4 &textndash;>
<a name="HDF4"></a> <!&textndash; http://nco.sf.net/nco.html#HDF4 &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="142"><acronym><acronymword>HDF4</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="143"><samp>--hdf4</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="142"><acronym><acronymword>H4CF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="143"><command>h4tonccf</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="144"><command>ncl_convert2nc</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="145"><acronym><acronymword>HDF4</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="146"><samp>--hdf4</samp></indexterm></cindex>
<para>When linked to a netCDF library that was built with <acronym><acronymword>HDF4</acronymword></acronym>
support
<footnote><para>The procedure for doing this is documented at
@@ -1469,22 +1472,26 @@ ncks --hdf4 fl.hdf fl.nc # Convert HDF4->netCDF4 (NCO 4.3.7-4.3.9)
</pre></example>
<para>The most efficient and accurate way to convert <acronym><acronymword>HDF4</acronymword></acronym> data to
netCDF format is to convert to netCDF4 using <acronym><acronymword>NCO</acronymword></acronym> as above.
-It suffices when the data will only be processed by <acronym><acronymword>NCO</acronymword></acronym>, or
-other netCDF4-aware tools.
-However, many tools are not fully netCDF4-aware, and so conversion to
-netCDF3 may be desirable.
+Many <acronym><acronymword>HDF4</acronymword></acronym> producers (<acronym><acronymword>NASA</acronymword></acronym>!) love to use netCDF4
+types, e.g., unsigned bytes, so this procedure is the most typical.
+Conversion of <acronym><acronymword>HDF4</acronymword></acronym> to netCDF4 as above suffices when the data
+will only be processed by <acronym><acronymword>NCO</acronymword></acronym> and other netCDF4-aware tools.
</para>
-<para>Obtaining a netCDF3 file from an <acronym><acronymword>HDF4</acronymword></acronym> is now easy, even though
-the <acronym><acronymword>HDF4</acronymword></acronym> file may contain netCDF4 atomic types (e.g., unsigned
-bytes, 64-bit integers):
+<para>However, many tools are not fully netCDF4-aware, and so conversion to
+netCDF3 may be desirable.
+Obtaining a netCDF3 file from an <acronym><acronymword>HDF4</acronymword></acronym> is now easy:
</para><example endspaces=" ">
<pre xml:space="preserve">ncks -3 fl.hdf fl.nc # HDF4->netCDF3 (NCO 4.4.0+, netCDF 4.3.1+)
-ncks -7 -L 1 fl.hdf fl.nc # HDF4->netCDF4 (NCO 4.4.0+, netCDF 4.3.1+)
+ncks -6 fl.hdf fl.nc # HDF4->netCDF3 64-bit (NCO 4.4.0+, ...)
+ncks -7 -L 1 fl.hdf fl.nc # HDF4->netCDF4 classic (NCO 4.4.0+, ...)
ncks --hdf4 -3 fl.hdf fl.nc # HDF4->netCDF3 (netCDF 4.3.0-)
+ncks --hdf4 -6 fl.hdf fl.nc # HDF4->netCDF3 64-bit (netCDF 4.3.0-)
ncks --hdf4 -7 fl.hdf fl.nc # HDF4->netCDF4 classic (netCDF 4.3.0-)
</pre></example>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> version 4.4.0 (January, 2014), these commands work
-with netCDF4 atomic types
+even when the <acronym><acronymword>HDF4</acronymword></acronym> file contains netCDF4 atomic types (e.g.,
+unsigned bytes, 64-bit integers) because <acronym><acronymword>NCO</acronymword></acronym> can autoconvert
+everything to atomic types supported by netCDF3
<footnote spaces="\n"><para>Prior to <acronym><acronymword>NCO</acronymword></acronym> version 4.4.0 (January, 2014), we recommend the
<command>ncl_convert2nc</command> tool to convert <acronym><acronymword>HDF</acronymword></acronym> to netCDF3 when
both these are true: <w>1. You</w> must have netCDF3 and <w>2. the</w>
@@ -1501,18 +1508,23 @@ Unsigned bytes stay unsigned bytes.
64-bit integers stay 64-bit integers.
Strings stay strings.
Hence, <command>ncks</command> conversions often result in smaller files than
-<command>ncl_convert2nc</command> conversions.</para></footnote>.
-Many <acronym><acronymword>HDF4</acronymword></acronym> producers (<acronym><acronymword>NASA</acronymword></acronym>!) love to use netCDF4
-types, e.g., unsigned bytes.
-</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="144"><acronym><acronymword>RPM</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="145">Debian</indexterm></cindex>
+<command>ncl_convert2nc</command> conversions.
+Finally, in February 2014, we learned that the <acronym><acronymword>HDF</acronymword></acronym> group
+has a project called <acronym><acronymword>H4CF</acronymword></acronym> whose goal is to make <acronym><acronymword>HDF4</acronymword></acronym>
+files accessible to <acronym><acronymword>CF</acronymword></acronym> tools and conventions.
+Their project includes a tool named <command>h4tonccf</command> that converts
+<acronym><acronymword>HDF4</acronymword></acronym> files to netCDF3 or netCDF4 files.
+We know of no features in <command>h4tonccf</command> that are not in
+<acronym><acronymword>NCO</acronymword></acronym>. Corrections welcome.</para></footnote>.
+</para>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="147"><acronym><acronymword>RPM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="148">Debian</indexterm></cindex>
<para>As of 2012, netCDF4 is relatively stable software.
Problems with netCDF4 and <acronym><acronymword>HDF</acronymword></acronym> libraries have mainly been fixed.
Binary <acronym><acronymword>NCO</acronymword></acronym> distributions shipped as <acronym><acronymword>RPM</acronymword></acronym>s and as debs
have used the netCDF4 library since 2010 and 2011, respectively.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="146"><code>NETCDF4_ROOT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="149"><code>NETCDF4_ROOT</code></indexterm></cindex>
<para>One must often build <acronym><acronymword>NCO</acronymword></acronym> from source to obtain netCDF4
support.
Typically, one specifies the root of the netCDF4
@@ -1539,11 +1551,11 @@ operators.
</section>
<node name="Help-Requests-and-Bug-Reports" spaces=" "><nodename>Help Requests and Bug Reports</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">netCDF2/3/4 and HDF4/5 Support</nodeprev><nodeup spaces=" ">Introduction</nodeup></node>
<section spaces=" "><sectiontitle>Help Requests and Bug Reports</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="147">reporting bugs</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="148">bugs, reporting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="149">core dump</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="150">help</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="151">features, requesting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="150">reporting bugs</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="151">bugs, reporting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="152">core dump</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="153">help</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="154">features, requesting</indexterm></cindex>
<para>We generally receive three categories of mail from users: help requests,
bug reports, and feature requests.
Notes saying the equivalent of "Hey, <acronym><acronymword>NCO</acronymword></acronym> continues to work
@@ -1590,9 +1602,9 @@ publicly released version of <acronym><acronymword>NCO</acronymword></acronym>.
<acronym><acronymword>NCO</acronymword></acronym> to perform a documented function, submit a help request.
Follow the same procedure as described below for reporting bugs
(after all, it might be a bug).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="152">debugging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="153"><code>-r</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="154"><code>-D</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="155">debugging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="156"><code>-r</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="157"><code>-D</code></indexterm></cindex>
That is, describe what you are trying to do, and include the complete
commands (run with <samp>-D 5</samp>), error messages, and version of
<acronym><acronymword>NCO</acronymword></acronym> (with <samp>-r</samp>).
@@ -1616,15 +1628,15 @@ two small dimensions ought to suffice.
<a name="dbg"></a> <!&textndash; http://nco.sf.net/nco.html#dbg &textndash;>
<a name="-D"></a> <!&textndash; http://nco.sf.net/nco.html#-D &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="155"><code>-r</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="156"><code>--revision</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="157"><code>--version</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="158"><code>--vrs</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="159"><code>-D <var>debug-level</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="160"><code>--debug-level <var>debug-level</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="161"><code>--dbg_lvl <var>debug-level</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="162"><var>debug-level</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="163"><var>dbg_lvl</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="158"><code>-r</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="159"><code>--revision</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="160"><code>--version</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="161"><code>--vrs</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="162"><code>-D <var>debug-level</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="163"><code>--debug-level <var>debug-level</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="164"><code>--dbg_lvl <var>debug-level</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="165"><var>debug-level</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="166"><var>dbg_lvl</var></indexterm></cindex>
Run the operator with <samp>-r</samp> and then run the command with
<samp>-D 5</samp> to increase the verbosity of the debugging output.
It is very important that your report contain the exact error messages
@@ -1634,13 +1646,13 @@ publically accessible location, of the file(s).
Post the full bug report to the
<uref><urefurl>http://sf.net/bugs/?group_id=3331</urefurl><urefdesc spaces=" ">NCO Project buglist</urefdesc></uref>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="164">installation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="165"><command>autoconf</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="166"><file>nco.configure.${GNU_TRP}.foo</file></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="167"><file>nco.config.log.${GNU_TRP}.foo</file></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="168"><file>nco.make.${GNU_TRP}.foo</file></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="169"><file>config.guess</file></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="170"><file>configure.eg</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="167">installation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="168"><command>autoconf</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="169"><file>nco.configure.${GNU_TRP}.foo</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="170"><file>nco.config.log.${GNU_TRP}.foo</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="171"><file>nco.make.${GNU_TRP}.foo</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="172"><file>config.guess</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="173"><file>configure.eg</file></indexterm></cindex>
<para>Build failures count as bugs.
Our limited machine access means we cannot fix all build failures.
The information we need to diagnose, and often fix, build failures
@@ -1653,7 +1665,7 @@ Here <code>${GNU_TRP}</code> is the "<acronym><acronymword>GN
the <var>chip-vendor-OS</var> string returned by <file>config.guess</file>.
Please send us your improvements to the examples supplied in
<file>configure.eg</file>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="171">regressions archive</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="174">regressions archive</indexterm></cindex>
The regressions archive at <url><urefurl>http://dust.ess.uci.edu/nco/rgr</urefurl></url>
contains the build output from our standard test systems.
You may find you can solve the build problem yourself by examining the
@@ -1685,8 +1697,8 @@ differences between these files and your own.
</html>
<node name="Philosophy" spaces=" "><nodename>Philosophy</nodename><nodenext spaces=" ">Climate Model Paradigm</nodenext><nodeprev spaces=" ">Strategies</nodeprev><nodeup spaces=" ">Strategies</nodeup></node>
<section spaces=" "><sectiontitle>Philosophy</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="172">philosophy</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="173">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="175">philosophy</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="176">climate model</indexterm></cindex>
<para>The main design goal is command line operators which perform useful,
scriptable operations on netCDF files.
@@ -1700,11 +1712,11 @@ statistical packages, and are often more suitable for archival and
dissemination to the scientific community.
<acronym><acronymword>NCO</acronymword></acronym> performs a suite of operations useful in manipulating data
from the primary to the second level state.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="174"><acronym><acronymword>IDL</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="175">Matlab</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="176"><acronym><acronymword>NCL</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="177">Perl</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="178">Yorick</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="177"><acronym><acronymword>IDL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="178">Matlab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="179"><acronym><acronymword>NCL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="180">Perl</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="181">Yorick</indexterm></cindex>
Higher level interpretive languages (e.g., <acronym><acronymword>IDL</acronymword></acronym>, Yorick,
Matlab, <acronym><acronymword>NCL</acronymword></acronym>, Perl, Python),
and lower level compiled languages (e.g., C, Fortran) can always perform
@@ -1712,7 +1724,7 @@ any task performed by <acronym><acronymword>NCO</acronymword></acronym>, but oft
NCO, on the other hand, is limited to a much smaller set of arithmetic
and metadata operations than these full blown languages.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="179">command line switches</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="182">command line switches</indexterm></cindex>
<para>Another goal has been to implement enough command line switches so that
frequently used sequences of these operators can be executed from a
shell script or batch file.
@@ -1727,9 +1739,9 @@ usage is detailed in <ref label="Memory-Requirements"><xrefnodename>Memory Requi
</section>
<node name="Climate-Model-Paradigm" spaces=" "><nodename>Climate Model Paradigm</nodename><nodenext spaces=" ">Temporary Output Files</nodenext><nodeprev spaces=" ">Philosophy</nodeprev><nodeup spaces=" ">Strategies</nodeup></node>
<section spaces=" "><sectiontitle>Climate Model Paradigm</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="180">climate model</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="181"><acronym><acronymword>NCAR</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="182"><acronym><acronymword>GCM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="183">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="184"><acronym><acronymword>NCAR</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="185"><acronym><acronymword>GCM</acronymword></acronym></indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> was developed at <acronym><acronymword>NCAR</acronymword></acronym> to aid analysis and
manipulation of datasets produced by General Circulation Models
@@ -1747,11 +1759,11 @@ environment are as easy to visualize for the layman as the expert.
</section>
<node name="Temporary-Output-Files" spaces=" "><nodename>Temporary Output Files</nodename><nodenext spaces=" ">Appending Variables</nodenext><nodeprev spaces=" ">Climate Model Paradigm</nodeprev><nodeup spaces=" ">Strategies</nodeup></node>
<section spaces=" "><sectiontitle>Temporary Output Files </sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="183">data safety</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="184">error tolerance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="185">safeguards</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="186">temporary output files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="187">temporary files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="186">data safety</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="187">error tolerance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="188">safeguards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="189">temporary output files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="190">temporary files</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> operators are designed to be reasonably fault tolerant, so
that a system failure or user-abort of the operation (e.g., with
<kbd>C-c</kbd>) does not cause loss of data.
@@ -1775,10 +1787,10 @@ than just overwriting existing files &textldquo;in place&textrdquo; (because the
two copies of the same file on disk until the <acronym><acronymword>NCO</acronymword></acronym> operation
successfully concludes and the temporary output file overwrites the
existing <var>output-file</var>).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="188">performance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="189">operator speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="190">speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="191">execution time</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="191">performance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="192">operator speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="193">speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="194">execution time</indexterm></cindex>
Also, note this feature increases the execution time of the operator
by approximately the time it takes to copy the <var>output-file</var>
<footnote><para>The OS-specific system move command is used.
@@ -1792,13 +1804,13 @@ to be the same as the <var>input-file</var> without any danger of
<a name="no_tmp_fl"></a> <!&textndash; http://nco.sf.net/nco.html#no_tmp_fl &textndash;>
<a name="wrt_tmp_fl"></a> <!&textndash; http://nco.sf.net/nco.html#wrt_tmp_fl &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="192"><code>--no_tmp_fl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="193"><code>--wrt_tmp_fl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="194"><code>--write_tmp_fl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="195"><code>--create_ram</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="196"><code>--open_ram</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="197"><acronym><acronymword>RAM</acronymword></acronym> disks</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="198"><acronym><acronymword>RAM</acronymword></acronym> files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="195"><code>--no_tmp_fl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="196"><code>--wrt_tmp_fl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="197"><code>--write_tmp_fl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="198"><code>--create_ram</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="199"><code>--open_ram</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="200"><acronym><acronymword>RAM</acronymword></acronym> disks</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="201"><acronym><acronymword>RAM</acronymword></acronym> files</indexterm></cindex>
<para>Over time many &textldquo;power users&textrdquo; have requested a way to turn-off the
fault-tolerance safety feature of automatically creating a temporary
file.
@@ -1855,15 +1867,15 @@ We welcome accounts of your experiences posted to the forums.
<a name="-A"></a> <!&textndash; http://nco.sf.net/nco.html#-A &textndash;>
<a name="-O"></a> <!&textndash; http://nco.sf.net/nco.html#-O &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="199"><code>-A</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="200"><code>-O</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="201"><code>--apn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="202"><code>--append</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="203"><code>--ovr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="204"><code>--overwrite</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="205">overwriting files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="206">appending variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="207">appending to files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="202"><code>-A</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="203"><code>-O</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="204"><code>--apn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="205"><code>--append</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="206"><code>--ovr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="207"><code>--overwrite</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="208">overwriting files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="209">appending variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="210">appending to files</indexterm></cindex>
<para>Other safeguards exist to protect the user from inadvertently
overwriting data.
If the <var>output-file</var> specified for a command is a pre-existing file,
@@ -1889,10 +1901,10 @@ interactive keyboard input.
<node name="Appending-Variables" spaces=" "><nodename>Appending Variables</nodename><nodenext spaces=" ">Simple Arithmetic and Interpolation</nodenext><nodeprev spaces=" ">Temporary Output Files</nodeprev><nodeup spaces=" ">Strategies</nodeup></node>
<section spaces=" "><sectiontitle>Appending Variables</sectiontitle>
<para>Adding variables from one file to another is often desirable.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="208">concatenation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="209">appending variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="210">merging files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="211">pasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="211">concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="212">appending variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="213">merging files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="214">pasting variables</indexterm></cindex>
This is referred to as <dfn>appending</dfn>, although some prefer the
terminology <dfn>merging</dfn> <footnote><para>The terminology <dfn>merging</dfn> is
reserved for an (unwritten) operator which replaces hyperslabs of a
@@ -1900,7 +1912,7 @@ variable in one file with hyperslabs of the same variable from another
file</para></footnote> or <dfn>pasting</dfn>.
Appending is often confused with what <acronym><acronymword>NCO</acronymword></acronym> calls
<dfn>concatenation</dfn>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="212">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="215">record dimension</indexterm></cindex>
In <acronym><acronymword>NCO</acronymword></acronym>, concatenation refers to splicing a variable
along the record dimension.
The length along the record dimension of the output is the sum of the
@@ -1931,8 +1943,8 @@ the results of the operation in the existing <var>output-file</var>,
<html endspaces=" ">
<a name="unn"></a> <!&textndash; http://nco.sf.net/nco.html#unn &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="213">union of files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="214">disjoint files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="216">union of files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="217">disjoint files</indexterm></cindex>
<para>The simplest way to create the union of two files is
</para><example endspaces=" ">
<pre xml:space="preserve">ncks -A fl_1.nc fl_2.nc
@@ -1977,7 +1989,7 @@ operations from the command line.
<a name="sym_nces"></a> <!&textndash; http://nco.sf.net/nco.html#sym_nces &textndash;>
<a name="sym_ncrcat"></a> <!&textndash; http://nco.sf.net/nco.html#sym_ncrcat &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="215">symbolic links</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="218">symbolic links</indexterm></cindex>
<para>The most frequently used operators of <acronym><acronymword>NCO</acronymword></acronym> are probably the
<dfn>statisticians</dfn> (i.e., tools that do statistics) and concatenators.
Because there are so many types of statistics like averaging (e.g.,
@@ -2017,8 +2029,8 @@ First, let&textrsquo;s describe the concatenators, then the statistics tools.
</html>
<node name="Concatenation" spaces=" "><nodename>Concatenation</nodename><nodenext spaces=" ">Averaging</nodenext><nodeprev spaces=" ">Statistics vs. Concatenation</nodeprev><nodeup spaces=" ">Statistics vs. Concatenation</nodeup></node>
<subsection spaces=" "><sectiontitle>Concatenators <command>ncrcat</command> and <command>ncecat</command></sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="216"><command>ncecat</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="217"><command>ncrcat</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="219"><command>ncecat</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="220"><command>ncrcat</command></indexterm></cindex>
<para>Joining together independent files along a common record dimension is
called <dfn>concatenation</dfn>.
@@ -2038,8 +2050,8 @@ file to file.
</para>
<para>However, suppose the annual files have no record variable, and thus
their data are all fixed length.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="218">ensemble</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="219">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="221">ensemble</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="222">climate model</indexterm></cindex>
For example, the files may not be conceptually sequential, but rather
members of the same group, or <dfn>ensemble</dfn>.
Members of an ensemble may have no reason to contain a record dimension.
@@ -2064,7 +2076,7 @@ data on different realizations of the same variables.
<xref label="ncecat-netCDF-Ensemble-Concatenator"><xrefnodename>ncecat netCDF Ensemble Concatenator</xrefnodename></xref>, for a complete description
of <command>ncecat</command>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="220"><command>ncpdq</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="223"><command>ncpdq</command></indexterm></cindex>
<html endspaces=" ">
<a name="dmn_cat"></a> <!&textndash; http://nco.sf.net/nco.html#dmn_cat &textndash;>
</html>
@@ -2101,9 +2113,9 @@ To conserve system memory, use <command>ncrcat</command> where possible.
</subsection>
<node name="Averaging" spaces=" "><nodename>Averaging</nodename><nodenext spaces=" ">Interpolating</nodenext><nodeprev spaces=" ">Concatenation</nodeprev><nodeup spaces=" ">Statistics vs. Concatenation</nodeup></node>
<subsection spaces=" "><sectiontitle>Averagers <command>nces</command>, <command>ncra</command>, and <command>ncwa</command> </sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="221"><command>nces</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="222"><command>ncra</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="223"><command>ncwa</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="224"><command>nces</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="225"><command>ncra</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="226"><command>ncwa</command></indexterm></cindex>
<para>The differences between the averagers <command>ncra</command> and <command>nces</command>
are analogous to the differences between the concatenators.
@@ -2135,7 +2147,7 @@ description of <command>ncra</command>).
</subsection>
<node name="Interpolating" spaces=" "><nodename>Interpolating</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Averaging</nodeprev><nodeup spaces=" ">Statistics vs. Concatenation</nodeup></node>
<subsection spaces=" "><sectiontitle>Interpolator <command>ncflint</command></sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="224"><command>ncflint</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="227"><command>ncflint</command></indexterm></cindex>
<para><command>ncflint</command> can interpolate data between or two files.
Since no other operators have this ability, the description of
@@ -2152,13 +2164,13 @@ units.
</section>
<node name="Large-Numbers-of-Files" spaces=" "><nodename>Large Numbers of Files</nodename><nodenext spaces=" ">Large Datasets</nodenext><nodeprev spaces=" ">Statistics vs. Concatenation</nodeprev><nodeup spaces=" ">Strategies</nodeup></node>
<section spaces=" "><sectiontitle>Large Numbers of Files</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="225">files, numerous input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="226"><code>-n <var>loop</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="228">files, numerous input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="229"><code>-n <var>loop</var></code></indexterm></cindex>
<para>Occasionally one desires to digest (i.e., concatenate or average)
hundreds or thousands of input files.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="227">automagic</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="228"><acronym><acronymword>NASA EOSDIS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="230">automagic</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="231"><acronym><acronymword>NASA EOSDIS</acronymword></acronym></indexterm></cindex>
Unfortunately, data archives (e.g., <acronym><acronymword>NASA EOSDIS</acronymword></acronym>) may not
name netCDF files in a format understood by the <samp>-n <var>loop</var></samp>
switch (<pxref label="Specifying-Input-Files"><xrefnodename>Specifying Input Files</xrefnodename></pxref>) that automagically generates
@@ -2191,8 +2203,8 @@ filenames to <acronym><acronymword>NCO</acronymword></acronym> in environment-li
<html endspaces=" ">
<a name="stdin"></a> <!&textndash; http://nco.sf.net/nco.html#stdin &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="229">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="230"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="232">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="233"><code>stdin</code></indexterm></cindex>
<para>The recommended method for sending very large numbers (hundreds or
more, typically) of input filenames to the multi-file operators is
to pass the filenames with the <acronym><acronymword>UNIX</acronymword></acronym> <dfn>standard input</dfn>
@@ -2207,10 +2219,10 @@ A drawback to this method is that the <code>history</code> attribute
(<pxref label="History-Attribute"><xrefnodename>History Attribute</xrefnodename></pxref>) does not record the name of any input
files since the names were not passed on the command line.
This makes determining the data provenance at a later date difficult.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="231"><code>nco_input_file_number</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="232"><code>nco_input_file_list</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="233">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="234">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="234"><code>nco_input_file_number</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="235"><code>nco_input_file_list</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="236">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="237">attributes, global</indexterm></cindex>
To remedy this situation, multi-file operators store the number of
input files in the <code>nco_input_file_number</code> global attribute and the
input file list itself in the <code>nco_input_file_list</code> global attribute
@@ -2219,13 +2231,13 @@ Although this does not preserve the exact command used to generate the
file, it does retains all the information required to reconstruct the
command and determine the data provenance.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="235">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="236">shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="237">extended regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="238">regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="239">pattern matching</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="240"><command>xargs</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="241"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="238">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="239">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="240">extended regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="241">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="242">pattern matching</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="243"><command>xargs</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="244"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
<para>A second option is to use the <acronym><acronymword>UNIX</acronymword></acronym> <command>xargs</command> command.
This simple example selects as input to <command>xargs</command> all the
filenames in the current directory that match a given pattern.
@@ -2244,7 +2256,7 @@ matching filenames to an <acronym><acronymword>NCO</acronymword></acronym> multi
<pre xml:space="preserve"># Use xargs to transfer filenames on the command line
/bin/ls | grep ${CASEID}_'......'.nc | xargs -x ncecat -o foo.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="242">pipes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="245">pipes</indexterm></cindex>
<para>The single quotes protect the only sensitive parts of the extended
regular expression (the <command>grep</command> argument), and allow shell
interpolation (the <code>${CASEID}</code> variable substitution) to
@@ -2252,9 +2264,9 @@ proceed unhindered on the rest of the command.
<command>xargs</command> uses the <acronym><acronymword>UNIX</acronymword></acronym> pipe feature to append the
suitably filtered input file list to the end of the <command>ncecat</command>
command options.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="243">output file</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="244">input files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="245"><code>-o <var>fl_out</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="246">output file</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="247">input files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="248"><code>-o <var>fl_out</var></code></indexterm></cindex>
The <code>-o foo.nc</code> switch ensures that the input files supplied by
<command>xargs</command> are not confused with the output file name.
<command>xargs</command> does, unfortunately, have its own limit (usually about
@@ -2264,7 +2276,7 @@ reaches this internal limit.
When this occurs, use either the <code>stdin</code> method above, or the
symbolic link presented next.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="246">symbolic links</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="249">symbolic links</indexterm></cindex>
<para>Even when its internal limits have not been reached, the
<command>xargs</command> technique may not be sophisticated enough to handle
all situations.
@@ -2273,12 +2285,12 @@ of filtering input filenames, and any number of filenames.
The technique of last resort is to write a script that creates symbolic
links between the irregular input filenames and a set of regular,
arithmetic filenames that the <samp>-n <var>loop</var></samp> switch understands.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="247">Perl</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="250">Perl</indexterm></cindex>
For example, the following Perl script creates a monotonically
enumerated symbolic link to up to one million <file>.nc</file> files in a
directory. If there are 999,999 netCDF files present, the links are
named <file>000001.nc</file> to <file>999999.nc</file>:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="248"><code>-n <var>loop</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="251"><code>-n <var>loop</var></code></indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve"># Create enumerated symbolic links
/bin/ls | grep \.nc | perl -e \
@@ -2291,7 +2303,7 @@ ncecat -n 999999,6,1 000001.nc foo.nc
automatically generate the filnames of the symbolic links.
This circumvents any <acronym><acronymword>OS</acronymword></acronym> and shell limits on command line size.
The symbolic links are easily removed once <acronym><acronymword>NCO</acronymword></acronym> is finished.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="249"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="252"><code>history</code></indexterm></cindex>
One drawback to this method is that the <code>history</code> attribute
(<pxref label="History-Attribute"><xrefnodename>History Attribute</xrefnodename></pxref>) retains the filename list of the symbolic
links, rather than the data files themselves.
@@ -2301,9 +2313,9 @@ date.
</section>
<node name="Large-Datasets" spaces=" "><nodename>Large Datasets</nodename><nodenext spaces=" ">Memory Requirements</nodenext><nodeprev spaces=" ">Large Numbers of Files</nodeprev><nodeup spaces=" ">Strategies</nodeup></node>
<section spaces=" "><sectiontitle>Large Datasets</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="250">large datasets</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="251">LFS</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="252">Large File Support</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="253">large datasets</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="254">LFS</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="255">Large File Support</indexterm></cindex>
<para><dfn>Large datasets</dfn> are those files that are comparable in size to the
amount of random access memory (<acronym><acronymword>RAM</acronymword></acronym>) in your computer.
@@ -2311,7 +2323,7 @@ Many users of <acronym><acronymword>NCO</acronymword></acronym> work with files
Files this large not only push the current edge of storage technology,
they present special problems for programs which attempt to access the
entire file at once, such as <command>nces</command> and <command>ncecat</command>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="253">swap space</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="256">swap space</indexterm></cindex>
If you work with a <w>300 MB</w> files on a machine with only <w>32 MB</w> of
memory then you will need large amounts of swap space (virtual memory on
disk) and <acronym><acronymword>NCO</acronymword></acronym> will work slowly, or even fail.
@@ -2327,24 +2339,24 @@ memory requirements.
With this knowledge you may re-design your data reduction approach to
divide the problem into pieces solvable in memory-limited situations.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="254">server</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="255"><acronym><acronymword>UNICOS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="256">Cray</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="257">server</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="258"><acronym><acronymword>UNICOS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="259">Cray</indexterm></cindex>
<para>If your local machine has problems working with large files, try running
<acronym><acronymword>NCO</acronymword></acronym> from a more powerful machine, such as a network server.
Certain machine architectures, e.g., Cray <acronym><acronymword>UNICOS</acronymword></acronym>, have special
commands which allow one to increase the amount of interactive memory.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="257"><code>ilimit</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="260"><code>ilimit</code></indexterm></cindex>
On Cray systems, try to increase the available memory with the
<code>ilimit</code> command.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="258"><acronym><acronymword>GNU</acronymword></acronym>/Linux</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="259"><code>ulimit</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="260"><code>core dump</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="261"><acronym><acronymword>GNU</acronymword></acronym>/Linux</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="262"><code>ulimit</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="263"><code>core dump</code></indexterm></cindex>
If you get a memory-related core dump
(e.g., <samp>Error exit (core dumped)</samp>) on a <acronym><acronymword>GNU</acronymword></acronym>/Linux system,
try increasing the process-available memory with <code>ulimit</code>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="261">speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="264">speed</indexterm></cindex>
<para>The speed of the <acronym><acronymword>NCO</acronymword></acronym> operators also depends on file size.
When processing large files the operators may appear to hang, or do
nothing, for large periods of time.
@@ -2353,12 +2365,12 @@ activate a more verbose output mode.
This is accomplished by supplying a number greater <w>than 0</w> to the
<samp>-D <var>debug-level</var></samp> (or <samp>--debug-level</samp>, or
<samp>--dbg_lvl</samp>) switch.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="262"><code>-D <var>debug-level</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="263"><code>--debug-level <var>debug-level</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="264"><code>--dbg_lvl <var>debug-level</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="265"><var>debug-level</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="266"><var>dbg_lvl</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="267">debugging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="265"><code>-D <var>debug-level</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="266"><code>--debug-level <var>debug-level</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="267"><code>--dbg_lvl <var>debug-level</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="268"><var>debug-level</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="269"><var>dbg_lvl</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="270">debugging</indexterm></cindex>
When the <var>debug-level</var> is nonzero, the operators report their
current status to the terminal through the <var>stderr</var> facility.
Using <samp>-D</samp> does not slow the operators down.
@@ -2374,14 +2386,14 @@ multi-file <acronym><acronymword>NCO</acronymword></acronym> operators consume i
</section>
<node name="Memory-Requirements" spaces=" "><nodename>Memory Requirements</nodename><nodenext spaces=" ">Performance</nodenext><nodeprev spaces=" ">Large Datasets</nodeprev><nodeup spaces=" ">Strategies</nodeup></node>
<section spaces=" "><sectiontitle>Memory Requirements</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="268">memory requirements</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="269">memory available</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="270"><acronym><acronymword>RAM</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="271">swap space</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="272">peak memory usage</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="273"><code>--ram_all</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="274"><code>--open_ram</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="275"><code>--diskless_all</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="271">memory requirements</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="272">memory available</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="273"><acronym><acronymword>RAM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="274">swap space</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="275">peak memory usage</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="276"><code>--ram_all</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="277"><code>--open_ram</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="278"><code>--diskless_all</code></indexterm></cindex>
<para>Many people use <acronym><acronymword>NCO</acronymword></acronym> on gargantuan files which dwarf the
memory available (free <acronym><acronymword>RAM</acronymword></acronym> plus swap space) even on today&textrsquo;s powerful
@@ -2391,9 +2403,9 @@ so that their scripts do not have to tediously cut files into smaller
pieces that fit into memory.
We commend these greedy users for pushing <acronym><acronymword>NCO</acronymword></acronym> to its limits!
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="276">threads</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="277">OpenMP</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="278">shared memory machines</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="279">threads</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="280">OpenMP</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="281">shared memory machines</indexterm></cindex>
<para>This section describes the memory <acronym><acronymword>NCO</acronymword></acronym> requires during
operation.
The required memory is based on the underlying algorithms.
@@ -2413,7 +2425,7 @@ the exception of <command>ncap2</command>.
<node name="Single-and-Multi_002dfile-Operators" spaces=" "><nodename>Single and Multi-file Operators</nodename><nodenext spaces=" ">Memory for ncap2</nodenext><nodeprev spaces=" ">Memory Requirements</nodeprev><nodeup spaces=" ">Memory Requirements</nodeup></node>
<subsection spaces=" "><sectiontitle>Single and Multi-file Operators</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="279">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="282">multi-file operators</indexterm></cindex>
<para>The multi-file operators currently comprise the record operators,
<command>ncra</command> and <command>ncrcat</command>, and the ensemble operators,
<command>nces</command> and <command>ncecat</command>.
@@ -2503,22 +2515,22 @@ If weights and masks are <emph>not</emph> specified
then <command>ncwa</command> requirements drop to <math>MS <= 3VT</math>
(one input variable, one tally array, and the output variable).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="280">OpenMP</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="281">threads</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="283">OpenMP</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="284">threads</indexterm></cindex>
<para>The above memory requirements must be multiplied by the number of
threads <var>thr_nbr</var> (<pxref label="OpenMP-Threading"><xrefnodename>OpenMP Threading</xrefnodename></pxref>).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="282"><code>-t <var>thr_nbr</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="285"><code>-t <var>thr_nbr</var></code></indexterm></cindex>
If this causes problems then reduce (with <samp>-t <var>thr_nbr</var></samp>) the
number of threads.
</para>
</subsection>
<node name="Memory-for-ncap2" spaces=" "><nodename>Memory for ncap2</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Single and Multi-file Operators</nodeprev><nodeup spaces=" ">Memory Requirements</nodeup></node>
<subsection spaces=" "><sectiontitle>Memory for <command>ncap2</command></sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="283"><command>ncap2</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="284">binary operations</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="285">unary operations</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="286">memory leaks</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="287">left hand casting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="286"><command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="287">binary operations</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="288">unary operations</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="289">memory leaks</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="290">left hand casting</indexterm></cindex>
<para><command>ncap2</command> has unique memory requirements due its ability to process
arbitrarily long scripts of any complexity.
All scripts acceptable to <command>ncap2</command> are ultimately processed as a
@@ -2553,8 +2565,8 @@ interested in receiving a detailed bug report.
<node name="Performance" spaces=" "><nodename>Performance</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Memory Requirements</nodeprev><nodeup spaces=" ">Strategies</nodeup></node>
<section spaces=" "><sectiontitle>Performance</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="288">papers</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="289">overview</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="291">papers</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="292">overview</indexterm></cindex>
<para>An overview of <acronym><acronymword>NCO</acronymword></acronym> capabilities as of about 2006 is in
Zender, C. S. (2008),
&textldquo;Analysis of Self-describing Gridded Geoscience Data with netCDF Operators (NCO)&textrdquo;,
@@ -2562,8 +2574,8 @@ Environ. Modell. Softw., doi:10.1016/j.envsoft.2008.03.004.
This paper is also available at
<url><urefurl>http://dust.ess.uci.edu/ppr/ppr_Zen08.pdf</urefurl></url>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="290">scaling</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="291">performance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="293">scaling</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="294">performance</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> performance and scaling for arithmetic operations is
described in
Zender, C. S., and H. J. Mangalam (2007),
@@ -2577,35 +2589,35 @@ This paper is also available at
that can limit its performance:
</para><enumerate first="1" endspaces=" ">
<listitem>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="292">buffering</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="295">buffering</indexterm></cindex>
<para>No data buffering is performed during <command>nc_get_var</command> and
<command>nc_put_var</command> operations.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="293">performance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="294">operator speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="295">speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="296">execution time</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="296">performance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="297">operator speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="298">speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="299">execution time</indexterm></cindex>
Hyperslabs too large too hold in core memory will suffer substantial
performance penalties because of this.
</para>
</listitem><listitem>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="297">monotonic coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="300">monotonic coordinates</indexterm></cindex>
<para>Since coordinate variables are assumed to be monotonic, the search for
bracketing the user-specified limits should employ a quicker algorithm,
like bisection, than the two-sided incremental search currently
implemented.
</para>
</listitem><listitem>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="298"><var>C_format</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="299"><var>FORTRAN_format</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="300"><var>signedness</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="301"><var>scale_format</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="302"><var>add_offset</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="301"><var>C_format</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="302"><var>FORTRAN_format</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="303"><var>signedness</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="304"><var>scale_format</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="305"><var>add_offset</var></indexterm></cindex>
<para><var>C_format</var>, <var>FORTRAN_format</var>, <var>signedness</var>,
<var>scale_format</var> and <var>add_offset</var> attributes are ignored by
<command>ncks</command> when printing variables to screen.
</para>
</listitem><listitem>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="303">Yorick</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="306">Yorick</indexterm></cindex>
<para>In the late 1990s it was discovered that some random access operations
on large files on certain architectures (e.g., <acronym><acronymword>UNICOS</acronymword></acronym>) were
much slower with <acronym><acronymword>NCO</acronymword></acronym> than with similar operations performed
@@ -2629,7 +2641,7 @@ been reduced or eliminated.
described here for brevity.
The description of each feature is preceded by a box listing the
operators for which the feature is implemented.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="304">command line switches</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="307">command line switches</indexterm></cindex>
Command line switches for a given feature are consistent across all
operators wherever possible.
If no &textldquo;key switches&textrdquo; are listed for a feature, then that particular
@@ -2682,12 +2694,12 @@ feature is automatic and cannot be controlled by the user.
</html>
<node name="Internationalization" spaces=" "><nodename>Internationalization</nodename><nodenext spaces=" ">Metadata Optimization</nodenext><nodeprev spaces=" ">Common features</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Internationalization</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="305">Internationalization</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="306">I18N</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="308">Internationalization</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="309">I18N</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
</para></cartouche>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="307">L10N</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="310">L10N</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> support for <dfn>internationalization</dfn> of textual input
and output (e.g., Warning messages) is nascent.
We hope to produce foreign language string catalogues in 2004.
@@ -2700,14 +2712,14 @@ We hope to produce foreign language string catalogues in 2004.
</section>
<node name="Metadata-Optimization" spaces=" "><nodename>Metadata Optimization</nodename><nodenext spaces=" ">OpenMP Threading</nodenext><nodeprev spaces=" ">Internationalization</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Metadata Optimization</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="308">metadata optimization</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="309">performance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="310">operator speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="311">speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="312">execution time</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="313"><code>nc__enddef()</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="314"><code>--hdr_pad <var>hdr_pad</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="315"><code>--header_pad <var>hdr_pad</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="311">metadata optimization</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="312">performance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="313">operator speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="314">speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="315">execution time</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="316"><code>nc__enddef()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="317"><code>--hdr_pad <var>hdr_pad</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="318"><code>--header_pad <var>hdr_pad</var></code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: None&linebreak;
@@ -2738,16 +2750,16 @@ library (<pxref label="File-Formats-and-Conversion"><xrefnodename>File Formats a
</section>
<node name="OpenMP-Threading" spaces=" "><nodename>OpenMP Threading</nodename><nodenext spaces=" ">Command Line Options</nodenext><nodeprev spaces=" ">Metadata Optimization</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>OpenMP Threading</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="316">OpenMP</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="317">threads</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="318"><acronym><acronymword>SMP</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="319">shared memory parallelism</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="320">parallelism</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="321"><code>nco_openmp_thread_number</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="322"><code>--thr_nbr <var>thr_nbr</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="323"><code>--threads <var>thr_nbr</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="324"><code>--omp_num_threads <var>thr_nbr</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="325"><code>-t <var>thr_nbr</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="319">OpenMP</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="320">threads</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="321"><acronym><acronymword>SMP</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="322">shared memory parallelism</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="323">parallelism</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="324"><code>nco_openmp_thread_number</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="325"><code>--thr_nbr <var>thr_nbr</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="326"><code>--threads <var>thr_nbr</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="327"><code>--omp_num_threads <var>thr_nbr</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="328"><code>-t <var>thr_nbr</var></code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>, <command>ncecat</command>,
<command>ncflint</command>, <command>ncpdq</command>, <command>ncra</command>, <command>ncrcat</command>,
@@ -2787,13 +2799,13 @@ Implementation of the parallel output calls in <acronym><acronymword>NCO</acrony
goal of our current funding and would require new volunteers or funding.
</para></cartouche>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="326"><var>thr_nbr</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="327"><code>OMP_NUM_THREADS</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="328"><command>ncrcat</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="329"><command>ncwa</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="330"><command>ncap2</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="331"><command>ncpdq</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="332">large datasets</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="329"><var>thr_nbr</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="330"><code>OMP_NUM_THREADS</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="331"><command>ncrcat</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="332"><command>ncwa</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="333"><command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="334"><command>ncpdq</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="335">large datasets</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> may modify <var>thr_nbr</var> according to its own internal
settings before it requests any threads from the system.
Certain operators contain hard-code limits to the number of threads they
@@ -2822,8 +2834,8 @@ Hence we restrict <math><var>thr_nbr</var> <= 4</math> for all operators.
We encourage users to play with these limits (edit file
<file>nco_omp.c</file>) and send us their feedback.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="333">debugging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="334"><var>dbg_lvl</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="336">debugging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="337"><var>dbg_lvl</var></indexterm></cindex>
<para>Once the initial <var>thr_nbr</var> has been modified for any
operator-specific limits, <acronym><acronymword>NCO</acronymword></acronym> requests the system to allocate
a team of <var>thr_nbr</var> threads for the body of the code.
@@ -2838,7 +2850,7 @@ This attribute contains the number of threads the operator used to
process the input files.
This information helps to verify that the answers with threaded and
non-threaded operators are equal to within machine precision.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="335">benchmarks</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="338">benchmarks</indexterm></cindex>
This information is also useful for benchmarking.
</para>
<html endspaces=" ">
@@ -2847,14 +2859,14 @@ This information is also useful for benchmarking.
</section>
<node name="Command-Line-Options" spaces=" "><nodename>Command Line Options</nodename><nodenext spaces=" ">Specifying Input Files</nodenext><nodeprev spaces=" ">OpenMP Threading</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Command Line Options</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="336">command line options</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="339">command line options</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
</para></cartouche>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="337"><acronym><acronymword>POSIX</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="338"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="339"><acronym><acronymword>GNU</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="340">switches</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="340"><acronym><acronymword>POSIX</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="341"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="342"><acronym><acronymword>GNU</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="343">switches</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> achieves flexibility by using <dfn>command line options</dfn>.
These options are implemented in all traditional <acronym><acronymword>UNIX</acronymword></acronym> commands
as single letter <dfn>switches</dfn>, e.g., <samp>ls -l</samp>.
@@ -2871,13 +2883,13 @@ More importantly, mnemonics for single letter options are often
non-intuitive so that long options provide a more natural way of
expressing intent.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="341">long options</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="344">long options</indexterm></cindex>
<para>Extended options, also called long options, are implemented using the
system-supplied <file>getopt.h</file> header file, if possible.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="342"><code>BSD</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="343"><code>getopt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="344"><code>getopt_long</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="345"><file>getopt.h</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="345"><code>BSD</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="346"><code>getopt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="347"><code>getopt_long</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="348"><file>getopt.h</file></indexterm></cindex>
This provides the <command>getopt_long</command> function to <acronym><acronymword>NCO</acronymword></acronym>
<footnote spaces="\n"><para>If a <command>getopt_long</command> function cannot be found on the system,
<acronym><acronymword>NCO</acronymword></acronym> will use the <command>getopt_long</command> from the
@@ -2886,8 +2898,8 @@ This provides the <command>getopt_long</command> function to <acronym><acronymwo
This is <acronym><acronymword>BSD</acronymword></acronym>-licensed software available from
<uref><urefurl>http://www.geocities.com/ResearchTriangle/Node/9405/#my_getopt</urefurl></uref>.</para></footnote>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="346"><code>-D <var>debug-level</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="347"><code>--dbg_lvl <var>debug-level</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="349"><code>-D <var>debug-level</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="350"><code>--dbg_lvl <var>debug-level</var></code></indexterm></cindex>
<para>The syntax of <dfn>short options</dfn> (single letter options) is
<kbd>-<var>key</var> <var>value</var></kbd> (dash-key-space-value).
Here, <var>key</var> is the single letter option name, e.g.,
@@ -2957,19 +2969,19 @@ name that most suits their taste.
</section>
<node name="Specifying-Input-Files" spaces=" "><nodename>Specifying Input Files</nodename><nodenext spaces=" ">Specifying Output Files</nodenext><nodeprev spaces=" ">Command Line Options</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Specifying Input Files</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="348">input files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="349">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="350">regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="351">wildcards</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="352"><code>NINTAP</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="353">Processor, <acronym><acronymword>CCM</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="354"><acronym><acronymword>CCM</acronymword></acronym> Processor</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="355"><code>-n <var>loop</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="356"><code>--nintap <var>loop</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="357"><code>-p <var>input-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="358"><code>--pth <var>input-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="359"><code>--path <var>input-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="360"><var>input-path</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="351">input files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="352">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="353">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="354">wildcards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="355"><code>NINTAP</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="356">Processor, <acronym><acronymword>CCM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="357"><acronym><acronymword>CCM</acronymword></acronym> Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="358"><code>-n <var>loop</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="359"><code>--nintap <var>loop</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="360"><code>-p <var>input-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="361"><code>--pth <var>input-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="362"><code>--path <var>input-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="363"><var>input-path</var></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability (<code>-n</code>): <command>nces</command>, <command>ncecat</command>, <command>ncra</command>, <command>ncrcat</command>&linebreak;
Availability (<code>-p</code>): All operators&linebreak;
@@ -2979,7 +2991,7 @@ Long options: <samp>--nintap</samp>, <samp>--pth</samp>, <samp>--path</samp>&lin
<para>It is important that users be able to specify multiple input files
without typing every filename in full, often a tedious task even
by graduate student standards.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="361"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="364"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
There are four different ways of specifying input files to <acronym><acronymword>NCO</acronymword></acronym>:
explicitly typing each, using <acronym><acronymword>UNIX</acronymword></acronym> shell wildcards, and using
the <acronym><acronymword>NCO</acronymword></acronym> <samp>-n</samp> and <samp>-p</samp> switches (or their long option
@@ -3020,8 +3032,8 @@ automatically generated if necessary.
the entire set of filenames
<footnote><para>The <samp>-n</samp> option is a backward compatible superset of the
<code>NINTAP</code> option from the <acronym><acronymword>NCAR</acronymword></acronym> <acronym><acronymword>CCM</acronymword></acronym> Processor.</para></footnote>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="362">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="363">files, multiple</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="365">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="366">files, multiple</indexterm></cindex>
This option is only available with the <dfn>multi-file operators</dfn>:
<command>ncra</command>, <command>ncrcat</command>, <command>nces</command>, and <command>ncecat</command>.
By definition, multi-file operators are able to process an arbitrary
@@ -3058,8 +3070,8 @@ are ignored by <acronym><acronymword>NCO</acronymword></acronym> as it uses the
locate, evaluate, and compute the <var>numeric_suffix</var> component of
filenames.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="364">wrapped filenames</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="365">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="367">wrapped filenames</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="368">climate model</indexterm></cindex>
<para>Recently the <samp>-n</samp> option has been extended to allow convenient
specification of filenames with &textldquo;circular&textrdquo; characteristics.
This means it is now possible for <acronym><acronymword>NCO</acronymword></acronym> to automatically
@@ -3107,13 +3119,13 @@ automatically generate, in order, the filenames <file>85_12.nc</file>,
</section>
<node name="Specifying-Output-Files" spaces=" "><nodename>Specifying Output Files</nodename><nodenext spaces=" ">Remote storage</nodenext><nodeprev spaces=" ">Specifying Input Files</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Specifying Output Files</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="366">output file</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="367">input files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="368">positional arguments</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="369">command line switches</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="370"><code>-o <var>fl_out</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="371"><code>--output <var>fl_out</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="372"><code>--fl_out <var>fl_out</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="369">output file</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="370">input files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="371">positional arguments</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="372">command line switches</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="373"><code>-o <var>fl_out</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="374"><code>--output <var>fl_out</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="375"><code>--fl_out <var>fl_out</var></code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-o</samp>&linebreak;
@@ -3131,14 +3143,14 @@ line switch argument method, <samp>-o <var>fl_out</var></samp>.
<para>Specifying <var>fl_out</var> with a switch, rather than as a positional
argument, allows <var>fl_out</var> to precede input files in the argument
list.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="373">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="376">multi-file operators</indexterm></cindex>
This is particularly useful with multi-file operators for three reasons.
Multi-file operators may be invoked with hundreds (or more) filenames.
Visual or automatic location of <var>fl_out</var> in such a list is
difficult when the only syntactic distinction between input and output
files is their position.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="374"><command>xargs</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="375">input files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="377"><command>xargs</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="378">input files</indexterm></cindex>
Second, specification of a long list of input files may be difficult
(<pxref label="Large-Numbers-of-Files"><xrefnodename>Large Numbers of Files</xrefnodename></pxref>).
Making the input file list the final argument to an operator facilitates
@@ -3146,8 +3158,8 @@ using <command>xargs</command> for this purpose.
Some alternatives to <command>xargs</command> are very ugly and undesirable.
Finally, many users are more comfortable specifying output files
with <samp>-o <var>fl_out</var></samp> near the beginning of an argument list.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="376">compilers</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="377">linkers</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="379">compilers</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="380">linkers</indexterm></cindex>
Compilers and linkers are usually invoked this way.
</para>
<para>Users should specify <var>fl_out</var> using either (not both) method.
@@ -3161,26 +3173,26 @@ precedence.
</section>
<node name="Remote-storage" spaces=" "><nodename>Remote storage</nodename><nodenext spaces=" ">Retaining Retrieved Files</nodenext><nodeprev spaces=" ">Specifying Output Files</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Accessing Remote Files</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="378"><code>rcp</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="379"><code>scp</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="380"><file>.rhosts</file></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="381"><acronym><acronymword>NCAR MSS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="382"><acronym><acronymword>MSS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="383">Mass Store System</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="384"><acronym><acronymword>URL</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="385"><code>ftp</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="386"><code>sftp</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="387"><code>wget</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="388">remote files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="389">synchronous file access</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="390">asynchronous file access</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="391"><code>--pth <var>input-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="392"><code>--path <var>input-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="393"><code>--lcl <var>output-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="394"><code>--local <var>output-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="395"><code>-l <var>output-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="396"><file>.netrc</file></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="397"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="381"><code>rcp</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="382"><code>scp</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="383"><file>.rhosts</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="384"><acronym><acronymword>NCAR MSS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="385"><acronym><acronymword>MSS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="386">Mass Store System</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="387"><acronym><acronymword>URL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="388"><code>ftp</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="389"><code>sftp</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="390"><code>wget</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="391">remote files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="392">synchronous file access</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="393">asynchronous file access</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="394"><code>--pth <var>input-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="395"><code>--path <var>input-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="396"><code>--lcl <var>output-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="397"><code>--local <var>output-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="398"><code>-l <var>output-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="399"><file>.netrc</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="400"><code>history</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-p</samp>, <samp>-l</samp>&linebreak;
@@ -3249,11 +3261,11 @@ to the remote machine.
This means that <file>~/.rhosts</file> or <file>~/ssh/authorized_keys</file> must
be set accordingly on both local and remote machines.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="398"><acronym><acronymword>HPSS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="399"><command>hsi</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="400"><command>msrcp</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="401"><command>msread</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="402"><command>nrnet</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="401"><acronym><acronymword>HPSS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="402"><command>hsi</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="403"><command>msrcp</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="404"><command>msread</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="405"><command>nrnet</command></indexterm></cindex>
<html endspaces=" ">
<a name="hpss"></a> <!&textndash; http://nco.sf.net/nco.html#hpss &textndash;>
<a name="HPSS"></a> <!&textndash; http://nco.sf.net/nco.html#HPSS &textndash;>
@@ -3314,10 +3326,10 @@ The sixth command works if your local version of <acronym><acronymword>NCO</acro
or if the remote file is accessible via <command>wget</command>.
The above commands can be rewritten using the <samp>-p <var>input-path</var></samp>
option as follows:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="403"><code>-p <var>input-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="404"><var>input-path</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="405"><code>-l <var>output-path</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="406"><var>output-path</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="406"><code>-p <var>input-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="407"><var>input-path</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="408"><code>-l <var>output-path</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="409"><var>output-path</var></indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">ncks -p ftp://dust.ess.uci.edu/pub/zender/nco -l . in.nc
ncks -p sftp://dust.ess.uci.edu:/home/ftp/pub/zender/nco -l . in.nc
@@ -3331,7 +3343,7 @@ ncks -p http://thredds-test.ucar.edu/thredds/dodsC/testdods \
<para>Using <samp>-p</samp> is recommended because it clearly separates the
<var>input-path</var> from the filename itself, sometimes called the
<dfn>stub</dfn>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="407">stub</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="410">stub</indexterm></cindex>
When <var>input-path</var> is not explicitly specified using <samp>-p</samp>,
<acronym><acronymword>NCO</acronymword></acronym> internally generates an <var>input-path</var> from the first
input filename.
@@ -3369,17 +3381,17 @@ syntactically more clear.
</html>
<node name="OPeNDAP" spaces=" "><nodename>OPeNDAP</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Remote storage</nodeprev><nodeup spaces=" ">Remote storage</nodeup></node>
<subsection spaces=" "><sectiontitle><acronym><acronymword>OPeNDAP</acronymword></acronym></sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="408"><acronym><acronymword>DAP</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="409"><acronym><acronymword>DODS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="410"><acronym><acronymword>HTTP</acronymword></acronym> protocol</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="411"><env>DODS_ROOT</env></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="412">Distributed Oceanographic Data System</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="413">oceanography</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="414">data access protocol</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="415">Open-source Project for a Network Data Access Protocol</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="416"><acronym><acronymword>OPeNDAP</acronymword></acronym>.</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="417">server</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="418">client-server</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="411"><acronym><acronymword>DAP</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="412"><acronym><acronymword>DODS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="413"><acronym><acronymword>HTTP</acronymword></acronym> protocol</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="414"><env>DODS_ROOT</env></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="415">Distributed Oceanographic Data System</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="416">oceanography</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="417">data access protocol</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="418">Open-source Project for a Network Data Access Protocol</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="419"><acronym><acronymword>OPeNDAP</acronymword></acronym>.</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="420">server</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="421">client-server</indexterm></cindex>
<para>The Distributed Oceanographic Data System (<acronym><acronymword>DODS</acronymword></acronym>) provides
useful replacements for common data interface libraries like netCDF.
The <acronym><acronymword>DODS</acronymword></acronym> versions of these libraries implement network
@@ -3395,9 +3407,9 @@ We use the terms <acronym><acronymword>DODS</acronymword></acronym> and <acronym
and often write <acronym><acronymword>OPeNDAP</acronymword></acronym>/<acronym><acronymword>DODS</acronymword></acronym> for now.
In the future we will deprecate <acronym><acronymword>DODS</acronymword></acronym> in favor of
<acronym><acronymword>DAP</acronymword></acronym> or <acronym><acronymword>OPeNDAP</acronymword></acronym>, as appropriate
-<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="419"><acronym><acronymword>NVODS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="420">National Virtual Ocean Data System</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="421">open source</indexterm></cindex>
+<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="422"><acronym><acronymword>NVODS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="423">National Virtual Ocean Data System</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="424">open source</indexterm></cindex>
<para><acronym><acronymword>DODS</acronymword></acronym> is being deprecated because it is ambiguous, referring
both to a protocol and to a collection of (oceanography) data.
It is superceded by two terms.
@@ -3414,7 +3426,7 @@ Got it yet?</para></footnote>.
</para>
<para><acronym><acronymword>NCO</acronymword></acronym> may be <acronym><acronymword>DAP</acronymword></acronym>-enabled by linking
<acronym><acronymword>NCO</acronymword></acronym> to the <acronym><acronymword>OPeNDAP</acronymword></acronym> libraries.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="422"><file>Makefile</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="425"><file>Makefile</file></indexterm></cindex>
This is described in the <acronym><acronymword>OPeNDAP</acronymword></acronym> documentation and
automagically implemented in <acronym><acronymword>NCO</acronymword></acronym> build mechanisms
<footnote spaces="\n"><para>Automagic support for <acronym><acronymword>DODS</acronymword></acronym> version 3.2.x was deprecated in
@@ -3453,8 +3465,8 @@ Check there and on the
to learn more about the extensive capabilities of <acronym><acronymword>OPeNDAP</acronymword></acronym>
<footnote spaces="\n"><para>We are most familiar with the <acronym><acronymword>OPeNDAP</acronymword></acronym> ability to enable
network-transparent data access.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="423">constraint expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="424">server-side processing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="426">constraint expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="427">server-side processing</indexterm></cindex>
<acronym><acronymword>OPeNDAP</acronymword></acronym> has many other features, including sophisticated
hyperslabbing and server-side processing via <dfn>constraint expressions</dfn>.
If you know more about this, please consider writing a section
@@ -3509,8 +3521,8 @@ http://www.esrl.noaa.gov/psd/thredds/dodsC/Datasets/ncep.reanalysis.dailyavgs/su
pres.sfc.1969.nc ~/foo.nc
</pre></example>
<noindent></noindent>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="425">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="426">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="428">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="429">unpacking</indexterm></cindex>
<para>All with one command!
The data in this particular input file also happen to be packed
(<pxref label="Methods-and-functions"><xrefnodename>Methods and functions</xrefnodename></pxref>), although this is completely transparent
@@ -3522,7 +3534,7 @@ attempting arithmetic.
Input files are first copied to the local machine, then processed.
The <acronym><acronymword>OPeNDAP</acronymword></acronym> server performs data access, hyperslabbing,
and transfer to the local machine.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="427">I/O</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="430">I/O</indexterm></cindex>
This allows the I/O to appear to <acronym><acronymword>NCO</acronymword></acronym> as if the input files
were local.
The local machine performs all arithmetic operations.
@@ -3531,6 +3543,37 @@ the local machine) for the number-crunching to begin.
The advantages of this are obvious if you are examining small parts of
large files stored at remote locations.
</para>
+<para>Natually there are many versions of <acronym><acronymword>OPeNDAP</acronymword></acronym> servers supplying
+data and bugs in the server can appear to be bugs in <acronym><acronymword>NCO</acronymword></acronym>.
+However, with very few exceptions
+<footnote><para>For example, <acronym><acronymword>DAP</acronymword></acronym> servers do not like variables with
+periods (&textldquo;.&textrdquo;) in their names even though this is perfectly legal with
+netCDF.
+Such names may cause the <acronym><acronymword>DAP</acronymword></acronym> service to fail because
+<acronym><acronymword>DAP</acronymword></acronym> interprets the period as structure delimiter in an
+<acronym><acronymword>HTTP</acronymword></acronym> query string.</para></footnote> an <acronym><acronymword>NCO</acronymword></acronym> command that works
+on a local file must work across an <acronym><acronymword>OPeNDAP</acronymword></acronym> connection or else
+there is a bug in the server.
+This is because <acronym><acronymword>NCO</acronymword></acronym> does nothing special to handle files
+served by <acronym><acronymword>OPeNDAP</acronymword></acronym>, the whole process is (supposed to be)
+completely transparent to the client <acronym><acronymword>NCO</acronymword></acronym> software.
+Therefore it is often useful to try <acronym><acronymword>NCO</acronymword></acronym> commands on various
+<acronym><acronymword>OPeNDAP</acronymword></acronym> servers in order to isolate whether a problem may be
+due to a bug in the <acronym><acronymword>OPeNDAP</acronymword></acronym> server on a particular machine.
+For this purpose, one might try variations of the following commands
+that access files on public <acronym><acronymword>OPeNDAP</acronymword></acronym> servers:
+</para><example endspaces=" ">
+<pre xml:space="preserve"># Strided access to HDF5 file
+ncks -v Time -d Time,0,10,2 http://eosdap.hdfgroup.uiuc.edu:8080/opendap/data/NASAFILES/hdf5/BUV-Nimbus04_L3zm_v01-00-2012m0203t144121.h5
+# Strided access to netCDF3 file
+ncks -O -D 1 -d time,1 -d lev,0 -d lat,0,100,10 -d lon,0,100,10 -v u_velocity http://nomads.ncep.noaa.gov:9090/dods/rtofs/rtofs_global20140303/rtofs_glo_2ds_forecast_daily_prog ~/foo.nc
+</pre></example>
+<noindent></noindent>
+<para>These servers were operational at the time of writing, March 2014.
+Unfortunately, administrators often move or rename path directories.
+Recommendations for additional public <acronym><acronymword>OPeNDAP</acronymword></acronym> servers on
+which to test <acronym><acronymword>NCO</acronymword></acronym> are welcome.
+</para>
<html endspaces=" ">
<a name="rtn"></a> <!&textndash; http://nco.sf.net/nco.html#rtn &textndash;>
</html>
@@ -3538,12 +3581,12 @@ large files stored at remote locations.
</section>
<node name="Retaining-Retrieved-Files" spaces=" "><nodename>Retaining Retrieved Files</nodename><nodenext spaces=" ">File Formats and Conversion</nodenext><nodeprev spaces=" ">Remote storage</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Retaining Retrieved Files</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="428">file deletion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="429">file removal</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="430">file retention</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="431"><code>-R</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="432"><code>--rtn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="433"><code>--retain</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="431">file deletion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="432">file removal</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="433">file retention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="434"><code>-R</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="435"><code>--rtn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="436"><code>--retain</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-R</samp>&linebreak;
@@ -3567,15 +3610,15 @@ This allows <command>ncks</command> to retrieve remote files without
automatically trying to print them.
See <ref label="ncks-netCDF-Kitchen-Sink"><xrefnodename>ncks netCDF Kitchen Sink</xrefnodename></ref>, for more details.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="434"><acronym><acronymword>FTP</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="435"><acronym><acronymword>SSH</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="436"><acronym><acronymword>msrcp</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="437"><acronym><acronymword>FTP</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="438"><acronym><acronymword>SSH</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="439"><acronym><acronymword>msrcp</acronymword></acronym></indexterm></cindex>
<para>Note that the remote retrieval features of <acronym><acronymword>NCO</acronymword></acronym> can always be
used to retrieve <emph>any</emph> file, including non-netCDF files, via
<command>SSH</command>, anonymous <acronym><acronymword>FTP</acronymword></acronym>, or <command>msrcp</command>.
Often this method is quicker than using a browser, or running an
<acronym><acronymword>FTP</acronymword></acronym> session from a shell window yourself.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="437">server</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="440">server</indexterm></cindex>
For example, say you want to obtain a <acronym><acronymword>JPEG</acronymword></acronym> file from a weather
server.
</para><example endspaces=" ">
@@ -3589,8 +3632,8 @@ When <command>ncks</command> attempts to read the local copy of <file>storm.jpg<
as a netCDF file, it fails and exits, leaving <file>storm.jpg</file> in
the current directory.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="438"><acronym><acronymword>DODS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="439">server</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="441"><acronym><acronymword>DODS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="442">server</indexterm></cindex>
<para>If your <acronym><acronymword>NCO</acronymword></acronym> is <acronym><acronymword>DAP</acronymword></acronym>-enabled (<pxref label="OPeNDAP"><xrefnodename>OPeNDAP</xrefnodename></pxref>),
then you may use <acronym><acronymword>NCO</acronymword></acronym> to retrieve any files (including netCDF,
<acronym><acronymword>HDF</acronymword></acronym>, etc.) served by an <acronym><acronymword>OPeNDAP</acronymword></acronym> server to your local
@@ -3613,31 +3656,32 @@ when your other preferred methods are not available locally.
</section>
<node name="File-Formats-and-Conversion" spaces=" "><nodename>File Formats and Conversion</nodename><nodenext spaces=" ">Large File Support</nodenext><nodeprev spaces=" ">Retaining Retrieved Files</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>File Formats and Conversion</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="440"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="441">netCDF2</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="442">netCDF3</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="443">netCDF4</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="444"><code>NETCDF4_CLASSIC</code> files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="445"><code>NETCDF4</code> files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="446"><code>CLASSIC</code> files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="447"><code>64BIT</code> files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="448"><code>--3</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="449"><code>-3</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="450"><code>-4</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="451"><code>-6</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="452"><code>-7</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="453"><code>--4</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="454"><code>--7</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="455"><code>--netcdf4</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="456"><code>--fl_fmt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="457"><code>--file_format</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="458"><code>--64bit</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="443"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="444">netCDF2</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="445">netCDF3</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="446">netCDF4</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="447"><code>NETCDF4_CLASSIC</code> files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="448"><code>NETCDF4</code> files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="449"><code>CLASSIC</code> files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="450"><code>64BIT</code> files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="451"><code>--3</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="452"><code>-3</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="453"><code>-4</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="454"><code>-6</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="455"><code>-7</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="456"><code>--4</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="457"><code>--6</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="458"><code>--7</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="459"><code>--netcdf4</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="460"><code>--fl_fmt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="461"><code>--file_format</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="462"><code>--64bit</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>,
<command>ncecat</command>, <command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>,
<command>ncra</command>, <command>ncrcat</command>, <command>ncwa</command>&linebreak;
Short options: <samp>-3</samp>, <samp>-4</samp>, <samp>-6</samp>, <samp>-7</samp>&linebreak;
-Long options: <samp>--3</samp>, <samp>--4</samp>, <samp>--64bit</samp>, <samp>--7</samp>, <samp>--fl_fmt</samp>,
+Long options: <samp>--3</samp>, <samp>--4</samp>, <samp>--6</samp>, <samp>--64bit</samp>, <samp>--7</samp>, <samp>--fl_fmt</samp>,
<samp>--netcdf4</samp>&linebreak;
</para></cartouche>
<para>All <acronym><acronymword>NCO</acronymword></acronym> operators support (read and write) all three (or four,
@@ -3694,9 +3738,10 @@ workflows will utilize this format.
</para>
<para>As mentioned above, all operators write use the input file format for
output files unless told otherwise.
-Toggling the short option <samp>-6</samp> or the long option <samp>--64bit</samp>
-switch (or its <var>key</var>-<var>value</var> equivalent <samp>--fl_fmt=64bit</samp>)
-produces the netCDF3 64-bit offset format named <code>64BIT</code>.
+Toggling the short option <samp>-6</samp> or the long option <samp>--6</samp> or
+<samp>--64bit</samp> (or their <var>key</var>-<var>value</var> equivalent
+<samp>--fl_fmt=64bit</samp>) produces the netCDF3 64-bit offset format named
+<code>64BIT</code>.
<acronym><acronymword>NCO</acronymword></acronym> must be built with <w>netCDF 3.6</w> or higher to produce
a <code>64BIT</code> file.
Using the <samp>-4</samp> switch (or its long option equivalents
@@ -3742,13 +3787,13 @@ Each method returns the information using slightly different terminology
that becomes easier to understand with practice.
</para>
<para>First, examine the first line of global metadata output by <samp>ncks -M</samp>:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="459">netCDF3 classic file format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="460">netCDF4 classic file format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="461">netCDF4 file format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="462">32-bit offset file format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="463">64-bit offset file format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="464"><command>ncks</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="465"><code>-M</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="463">netCDF3 classic file format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="464">netCDF4 classic file format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="465">netCDF4 file format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="466">32-bit offset file format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="467">64-bit offset file format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="468"><command>ncks</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="469"><code>-M</code></indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">% ncks -M foo_3c.nc
Summary of foo_3c.nc: filetype = NC_FORMAT_CLASSIC, 0 groups ...
@@ -3761,14 +3806,14 @@ Summary of foo_4.nc: filetype = NC_FORMAT_NETCDF4, 0 groups ...
</pre></example>
<para>This method requires a netCDF4-enabled <acronym><acronymword>NCO</acronymword></acronym> version 3.9.0+
(i.e., from 2007 or later).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="466">extended file format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="467">underlying file format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="468"><code>NC_FORMAT_NC3</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="469"><code>NC_FORMAT_NC_HDF5</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="470"><code>NC_FORMAT_NC_HDF4</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="471"><code>NC_FORMAT_PNETCDF</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="472"><code>NC_FORMAT_DAP2</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="473"><code>NC_FORMAT_DAP4</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="470">extended file format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="471">underlying file format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="472"><code>NC_FORMAT_NC3</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="473"><code>NC_FORMAT_NC_HDF5</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="474"><code>NC_FORMAT_NC_HDF4</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="475"><code>NC_FORMAT_PNETCDF</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="476"><code>NC_FORMAT_DAP2</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="477"><code>NC_FORMAT_DAP4</code></indexterm></cindex>
As of <acronym><acronymword>NCO</acronymword></acronym> version 4.4.0 (January, 2014), <command>ncks</command> will
also print the extended or underlying format of the input file.
The extended filetype will be one of the six underlying formats that
@@ -3798,7 +3843,7 @@ Summary of foo_4.nc: filetype = NC_FORMAT_NETCDF4 (representation of \
has to alter the file.
</para>
<para>Second, query the file with <samp>ncdump -k</samp>:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="474"><command>ncdump</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="478"><command>ncdump</command></indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">% ncdump -k foo_3c.nc
classic
@@ -3814,8 +3859,8 @@ netCDF-4
</para>
<para>The third option uses the POSIX-standard <command>od</command> (octal dump)
command:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="475"><command>od</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="476">octal dump</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="479"><command>od</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="480">octal dump</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">% od -An -c -N4 foo_3c.nc
C D F 001
@@ -3890,7 +3935,7 @@ we term autoconversion.
<para><acronym><acronymword>NCO</acronymword></acronym> employs three algorithms to downconvert netCDF4 to netCDF3:
</para><enumerate first="1" endspaces=" ">
<listitem>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="477">autoconversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="481">autoconversion</indexterm></cindex>
<para>Autoconversion of atomic types:
Autoconversion automatically promotes <code>NC_UBYTE</code> to <code>NC_SHORT</code>,
and <code>NC_USHORT</code> to <code>NC_INT</code>.
@@ -3925,7 +3970,7 @@ If this limitation annoys or enrages you, please let us know by being
the squeaky wheel.
</para>
</listitem><listitem>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="478"><code>--fix_rec_dmn all</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="482"><code>--fix_rec_dmn all</code></indexterm></cindex>
<para>Convert multiple record dimensions to fixed-size dimensions.
Many netCDF4 and <acronym><acronymword>HDF5</acronymword></acronym> datasets have multiple unlimited
dimensions.
@@ -3940,7 +3985,7 @@ See <ref label="ncks-netCDF-Kitchen-Sink"><xrefnodename>ncks netCDF Kitchen Sink
<samp>--fix_rec_dmn</samp> option.
</para>
</listitem><listitem>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="479">flattening</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="483">flattening</indexterm></cindex>
<para>Flattening (removal) of groups.
Many netCDF4 and <acronym><acronymword>HDF5</acronymword></acronym> datasets have group hierarchies.
Since a netCDF3 file may not have any groups, groups in the input file
@@ -3973,8 +4018,8 @@ If this feature would interest you, please let us know.
</section>
<node name="Large-File-Support" spaces=" "><nodename>Large File Support</nodename><nodenext spaces=" ">Subsetting Files</nodenext><nodeprev spaces=" ">File Formats and Conversion</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Large File Support</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="480">LFS</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="481">Large File Support</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="484">LFS</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="485">Large File Support</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: none&linebreak;
@@ -4019,21 +4064,21 @@ build time.
</section>
<node name="Subsetting-Files" spaces=" "><nodename>Subsetting Files</nodename><nodenext spaces=" ">Subsetting Coordinate Variables</nodenext><nodeprev spaces=" ">Large File Support</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Subsetting Files</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="482">subsetting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="483">union</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="484">intersection</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="485">exclusion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="486">extraction</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="487"><code>-v <var>var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="488"><code>--variable <var>var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="489"><code>-g <var>grp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="490"><code>--grp <var>grp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="491"><code>--group <var>grp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="492"><code>-x</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="493"><code>--exclude</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="494"><code>--xcl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="495"><code>--unn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="496"><code>--union</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="486">subsetting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="487">union</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="488">intersection</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="489">exclusion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="490">extraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="491"><code>-v <var>var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="492"><code>--variable <var>var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="493"><code>-g <var>grp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="494"><code>--grp <var>grp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="495"><code>--group <var>grp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="496"><code>-x</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="497"><code>--exclude</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="498"><code>--xcl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="499"><code>--unn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="500"><code>--union</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Options <code>--unn</code>&linebreak;
Availability: <command>ncbo</command>, <command>nces</command>,
@@ -4089,12 +4134,12 @@ distinctions.
When learning this syntax it is helpful to keep in mind the similarity
between group hierarchies and directory structures.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="497"><command>mv</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="498"><command>cp</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="499">recursion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="500">recursive</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="501">anchor</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="502">anchoring</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="501"><command>mv</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="502"><command>cp</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="503">recursion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="504">recursive</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="505">anchor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="506">anchoring</indexterm></cindex>
<html endspaces=" ">
<a name="rcr"></a> <!&textndash; http://nco.sf.net/nco.html#rcr &textndash;>
<a name="recursion"></a> <!&textndash; http://nco.sf.net/nco.html#recursion &textndash;>
@@ -4171,12 +4216,12 @@ The fifth command is a special case of the fourth command.
<a name="union"></a> <!&textndash; http://nco.sf.net/nco.html#union &textndash;>
<a name="intersection"></a> <!&textndash; http://nco.sf.net/nco.html#intersection &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="503">union</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="504">intersection</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="505"><code>--unn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="506"><code>--union</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="507"><code>--nsx</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="508"><code>--intersection</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="507">union</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="508">intersection</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="509"><code>--unn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="510"><code>--union</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="511"><code>--nsx</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="512"><code>--intersection</code></indexterm></cindex>
<para>As mentioned above, both <samp>-v</samp> and <samp>-g</samp> options may be
specified simultaneously and <acronym><acronymword>NCO</acronymword></acronym> will, by default, extract the
intersection of the lists, i.e., the specified variables found in the
@@ -4223,7 +4268,7 @@ As discussed below, the group and variable specifications may be comma
separated lists of regular expressions for added control over
subsetting.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="509">memory requirements</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="513">memory requirements</indexterm></cindex>
<para>Remember, if averaging or concatenating large files stresses your
systems memory or disk resources, then the easiest solution is often to
subset (with <samp>-g</samp> and/or <samp>-v</samp>) to retain only the most
@@ -4253,14 +4298,14 @@ indicates that <emph>only</emph> user-defined variables should be output.
<a name="rx"></a> <!&textndash; http://nco.sf.net/nco.html#rx &textndash;>
<a name="wildcarding"></a> <!&textndash; http://nco.sf.net/nco.html#wildcarding &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="510">extended regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="511">regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="512">pattern matching</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="513">wildcards</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="514"><command>grep -E</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="515"><command>egrep</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="516"><command>ncatted</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="517"><acronym><acronymword>GNU</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="514">extended regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="515">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="516">pattern matching</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="517">wildcards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="518"><command>grep -E</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="519"><command>egrep</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="520"><command>ncatted</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="521"><acronym><acronymword>GNU</acronymword></acronym></indexterm></cindex>
<para>Regular expressions the syntax that <acronym><acronymword>NCO</acronymword></acronym> use pattern-match
object names in netCDF file against user requests.
The user can select all variables beginning with the string <samp>DST</samp>
@@ -4282,8 +4327,8 @@ to <command>ncatted</command> may contain <dfn>extended regular expressions</dfn
As of <acronym><acronymword>NCO</acronymword></acronym> 4.2.4 (November, 2012), group name arguments
to the <samp>-g</samp> switch may contain <dfn>extended regular expressions</dfn>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="518"><acronym><acronymword>POSIX</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="519"><code>regex</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="522"><acronym><acronymword>POSIX</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="523"><code>regex</code></indexterm></cindex>
<para>Because of its wide availability, <acronym><acronymword>NCO</acronymword></acronym> uses the <acronym><acronymword>POSIX</acronymword></acronym>
regular expression library <code>regex</code>.
Regular expressions of arbitary complexity may be used.
@@ -4291,11 +4336,11 @@ Since netCDF variable names are relatively simple constructs, only a
few varieties of variable wildcards are likely to be useful.
For convenience, we define the most useful pattern matching operators
here:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="520"><code>.</code> (wildcard character)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="521"><code>$</code> (wildcard character)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="522"><code>^</code> (wildcard character)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="523"><code>?</code> (filename expansion)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="524"><code>*</code> (filename expansion)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="524"><code>.</code> (wildcard character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="525"><code>$</code> (wildcard character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="526"><code>^</code> (wildcard character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="527"><code>?</code> (filename expansion)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="528"><code>*</code> (filename expansion)</indexterm></cindex>
</para><table commandarg="samp" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="samp">^</itemformat></item>
</tableterm><tableitem><para>Matches the beginning of a string
@@ -4306,10 +4351,10 @@ here:
</para></tableitem></tableentry></table>
<noindent></noindent>
<para>The most useful repetition and combination operators are
-<cindex index="cp" spaces=" "><indexterm index="cp" number="525"><code>?</code> (wildcard character)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="526"><code>*</code> (wildcard character)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="527"><code>+</code> (wildcard character)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="528"><code>|</code> (wildcard character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="529"><code>?</code> (wildcard character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="530"><code>*</code> (wildcard character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="531"><code>+</code> (wildcard character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="532"><code>|</code> (wildcard character)</indexterm></cindex>
</para><table commandarg="samp" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="samp">?</itemformat></item>
</tableterm><tableitem><para>The preceding regular expression is optional and matched at most once
@@ -4368,11 +4413,11 @@ extended regular expressions which <acronym><acronymword>NCO</acronymword></acro
<a name="globbing"></a> <!&textndash; http://nco.sf.net/nco.html#globbing &textndash;>
<a name="glb"></a> <!&textndash; http://nco.sf.net/nco.html#glb &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="529">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="530">shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="531"><command>bash</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="532"><command>csh</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="533">quotes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="533">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="534">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="535"><command>bash</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="536"><command>csh</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="537">quotes</indexterm></cindex>
<para>One must be careful to protect any special characters in the regular
expression specification from being interpreted (globbed) by the shell.
This is accomplish by enclosing special characters within single or
@@ -4399,13 +4444,13 @@ filename expansion (globbing).
</section>
<node name="Subsetting-Coordinate-Variables" spaces=" "><nodename>Subsetting Coordinate Variables</nodename><nodenext spaces=" ">Group Path Editing</nodenext><nodeprev spaces=" ">Subsetting Files</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Subsetting Coordinate Variables</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="534">subsetting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="535"><code>-C</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="536"><code>-c</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="537"><code>--no-coords</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="538"><code>--no-crd</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="539"><code>--coords</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="540"><code>--crd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="538">subsetting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="539"><code>-C</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="540"><code>-c</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="541"><code>--no-coords</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="542"><code>--no-crd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="543"><code>--coords</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="544"><code>--crd</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>,
<command>ncecat</command>, <command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>,
@@ -4429,7 +4474,7 @@ automatically specifying that <emph>all</emph> coordinate variables in the
<var>input-files</var> should appear in the <var>output-file</var>.
Thus <samp>-c</samp> allows the user to select all the coordinate variables
without having to know their names.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="541"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="545"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
As of <acronym><acronymword>NCO</acronymword></acronym> version 3.9.6 (January, 2009)
both <samp>-c</samp> and <samp>-C</samp> honor the <acronym><acronymword>CF</acronymword></acronym> <code>coordinates</code>
convention described in <ref label="CF-Conventions"><xrefnodename>CF Conventions</xrefnodename></ref>.
@@ -4443,8 +4488,8 @@ convention described in <ref label="CF-Conventions"><xrefnodename>CF Conventions
</section>
<node name="Group-Path-Editing" spaces=" "><nodename>Group Path Editing</nodename><nodenext spaces=" ">C and Fortran Index Conventions</nodenext><nodeprev spaces=" ">Subsetting Coordinate Variables</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Group Path Editing</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="542"><code>-G <var>gpe_dsc</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="543"><code>--gpe <var>gpe_dsc</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="546"><code>-G <var>gpe_dsc</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="547"><code>--gpe <var>gpe_dsc</var></code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Options <code>-G <var>gpe_dsc</var></code>&linebreak;
Availability: <command>ncbo</command>, <command>ncecat</command>, <command>nces</command>,
@@ -4471,7 +4516,7 @@ the following order:&linebreak;
<table commandarg="var" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="var">grp_pth</itemformat></item>
</tableterm><tableitem><para>Group Path.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="544">group path</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="548">group path</indexterm></cindex>
This (optional) component specifies the output group path that should be
appended after any editing (i.e., deletion or truncation) of the input
path is performed.
@@ -4500,11 +4545,11 @@ positive-definite.
<a name="delete"></a> <!&textndash; http://nco.sf.net/nco.html#delete &textndash;>
<a name="truncate"></a> <!&textndash; http://nco.sf.net/nco.html#truncate &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="545"><code>&arobase;</code> (separator character)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="546"><code>:</code> (separator character)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="547">delete (groups)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="548">truncate (groups)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="549">flatten (groups)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="549"><code>&arobase;</code> (separator character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="550"><code>:</code> (separator character)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="551">delete (groups)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="552">truncate (groups)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="553">flatten (groups)</indexterm></cindex>
<para><acronym><acronymword>GPE</acronymword></acronym> has three editing modes: Delete, Truncate, and
Flatten.
Select one of <acronym><acronymword>GPE</acronymword></acronym>&textrsquo;s three editing modes by supplying a
@@ -4611,10 +4656,10 @@ ncks -G g1:-1 -g g1/g2 -v v1 # /g1/g2/v1 -> /g1/g1/v1
<a name="mv"></a> <!&textndash; http://nco.sf.net/nco.html#mv &textndash;>
<a name="move"></a> <!&textndash; http://nco.sf.net/nco.html#move &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="550">move groups</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="551">groups, moving</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="552">rename groups</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="553">groups, renaming</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="554">move groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="555">groups, moving</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="556">rename groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="557">groups, renaming</indexterm></cindex>
<para>Until fall 2013 (netCDF version 4.3.1-pre1), netCDF contained no library
function for renaming groups, and therefore <command>ncrename</command> cannot
rename groups.
@@ -4668,8 +4713,8 @@ all other groups (e.g., <code>ecmwf</code>, <code>giss</code>).
<a name="disaggregate"></a> <!&textndash; http://nco.sf.net/nco.html#disaggregate &textndash;>
<a name="ncdismember"></a> <!&textndash; http://nco.sf.net/nco.html#ncdismember &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="554">disaggregate</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="555">dismember</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="558">disaggregate</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="559">dismember</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="5" mergedindex="cp">ncdismember</indexterm></findex>
<para>Let us show how to completely disaggregate (or, more memorably)
<emph>dismember</emph> a hierarchical dataset.
@@ -4696,16 +4741,16 @@ cat > ~/ncdismember << 'EOF'
# Optional fourth argument cf_vrs is CF version to check
# Optional fifth argument opt passes straight through to ncks
# chmod a+x ~/sh/ncdismember
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp
-# ncdismember http://dust.ess.uci.edu/nco/mdl.nc /data/zender/nco/tmp
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp
+# ncdismember http://dust.ess.uci.edu/nco/mdl_1.nc /data/zender/nco/tmp
# ncdismember http://thredds-test.ucar.edu/thredds/dodsC/testdods/foo.nc /data/zender/nco/tmp
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf 1.3
-# ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf 1.5 --fix_rec_dmn=all
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf 1.3
+# ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf 1.5 --fix_rec_dmn=all
# Command line argument defaults
-fl_in="${HOME}/nco/data/mdl.nc" # [sng] Input file to dismember/check
+fl_in="${HOME}/nco/data/mdl_1.nc" # [sng] Input file to dismember/check
drc_out="${DATA}/nco/tmp" # [sng] Output directory
flg_cf='0' # [flg] Perform CF-compliance check
cf_vrs='1.5' # [sng] Compliance-check this CF version (e.g., '1.5')
@@ -4750,15 +4795,15 @@ EOF
chmod 755 ~/ncdismember # Make command executable
/bin/mv -f ~/ncdismember ~/sh # Store in location on $PATH, e.g., /usr/local/bin
-zender at roulee:~$ ncdismember ~/nco/data/mdl.nc ${DATA}/nco/tmp
-NCO dismembering file /home/zender/nco/data/mdl.nc
-/data/zender/nco/tmp/mdl.nc/cesm.cesm_01.nc
-/data/zender/nco/tmp/mdl.nc/cesm.cesm_02.nc
-/data/zender/nco/tmp/mdl.nc/cesm.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.ecmwf_01.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.ecmwf_02.nc
-/data/zender/nco/tmp/mdl.nc/ecmwf.nc
-/data/zender/nco/tmp/mdl.nc/root.nc
+zender at roulee:~$ ncdismember ~/nco/data/mdl_1.nc ${DATA}/nco/tmp
+NCO dismembering file /home/zender/nco/data/mdl_1.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.cesm_01.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.cesm_02.nc
+/data/zender/nco/tmp/mdl_1.nc/cesm.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.ecmwf_01.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.ecmwf_02.nc
+/data/zender/nco/tmp/mdl_1.nc/ecmwf.nc
+/data/zender/nco/tmp/mdl_1.nc/root.nc
</verbatim>
</example>
<para>A (potentially more portable) binary executable could be written to
@@ -4779,12 +4824,12 @@ as <code>NC_STRING</code> and <code>NC_UBYTE</code>) to corresponding netCDF3
atomic types (<code>NC_CHAR</code> and <code>NC_SHORT</code>) when the output format
is netCDF3.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="556"><acronym><acronymword>CF</acronymword></acronym> compliance checker</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="560"><acronym><acronymword>CF</acronymword></acronym> compliance checker</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="6" mergedindex="cp">cfchecker</indexterm></findex>
<findex index="fn" spaces=" "><indexterm index="fn" number="7" mergedindex="cp">ncdismember</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="557">compliance checker</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="558">Martin Schultz</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="559">Michael Decker</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="561">compliance checker</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="562">Martin Schultz</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="563">Michael Decker</indexterm></cindex>
<para>One application of dismembering is to check the <acronym><acronymword>CF</acronymword></acronym>-compliance of each
group in a file.
When invoked with the optional third argumnt <samp>cf</samp>,
@@ -4796,8 +4841,8 @@ Forschungszentrum J<accent type="uml" bracketed="off">u</accent>lich and distrib
<command>cfchecker</command> command.
</para><example endspaces=" ">
<verbatim xml:space="preserve">
-zender at roulee:~$ ncdismember ~/nco/data/mdl.nc /data/zender/nco/tmp cf
-NCO dismembering file /home/zender/nco/data/mdl.nc
+zender at roulee:~$ ncdismember ~/nco/data/mdl_1.nc /data/zender/nco/tmp cf
+NCO dismembering file /home/zender/nco/data/mdl_1.nc
CFchecker reports CF-compliance of each group in flat netCDF3 format
WARNING: Using the default (non-CF) Udunits database
cesm.cesm_01.nc:
@@ -4897,12 +4942,12 @@ LDFLAGS="-L${H5DIR}/lib -L${H4DIR}/lib" \
./configure --enable-hdf4 --enable-hdf4-file-tests
make && make check && make installas
-# 4. NCO version 4.4.2. No RPM for this version. Must install by hand.
+# 4. NCO version 4.4.3. No RPM for this version. Must install by hand.
# Earlier versions of NCO are relatively useless for ncdismember
cd ${DATA}/tmp
-wget http://nco.sourceforge.net/src/nco-4.4.2.tar.gz .
-tar xvzf nco-4.4.2.tar.gz
-cd nco-4.4.2
+wget http://nco.sourceforge.net/src/nco-4.4.3.tar.gz .
+tar xvzf nco-4.4.3.tar.gz
+cd nco-4.4.3
./configure --prefix=${NCODIR}
make && make install
@@ -4935,7 +4980,7 @@ sudo python setup.py install
mkdir -p ${DATA}/nco/tmp/hdf
# Many datasets work with a simpler command...
ncdismember ~/nco/data/in.nc ${DATA}/nco/tmp/hdf cf 1.5
-ncdismember ~/nco/data/mdl.nc ${DATA}/nco/tmp/hdf cf 1.5
+ncdismember ~/nco/data/mdl_1.nc ${DATA}/nco/tmp/hdf cf 1.5
ncdismember ${DATA}/hdf/AMSR_E_L2_Rain_V10_200905312326_A.hdf \
${DATA}/nco/tmp/hdf cf 1.5
ncdismember ${DATA}/hdf/BUV-Nimbus04_L3zm_v01-00-2012m0203t144121.h5 \
@@ -4959,11 +5004,11 @@ EOF
</section>
<node name="C-and-Fortran-Index-Conventions" spaces=" "><nodename>C and Fortran Index Conventions</nodename><nodenext spaces=" ">Hyperslabs</nodenext><nodeprev spaces=" ">Group Path Editing</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>C and Fortran Index conventions</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="560">index convention</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="561">Fortran index convention</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="562">C index convention</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="563"><code>-F</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="564"><code>--fortran</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="564">index convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="565">Fortran index convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="566">C index convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="567"><code>-F</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="568"><code>--fortran</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncbo</command>, <command>nces</command>, <command>ncecat</command>,
<command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>, <command>ncra</command>,
@@ -4971,7 +5016,7 @@ EOF
Short options: <samp>-F</samp>&linebreak;
Long options: <samp>--fortran</samp>&linebreak;
</para></cartouche>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="565">I/O</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="569">I/O</indexterm></cindex>
<para>The <samp>-F</samp> switch changes <acronym><acronymword>NCO</acronymword></acronym> to read and write with
the Fortran index convention.
By default, <acronym><acronymword>NCO</acronymword></acronym> uses C-style (0-based) indices for all I/O.
@@ -4981,17 +5026,17 @@ dimensions are ordered from slowest (inner-most) to fastest
In Fortran, indices count <w>from 1</w> (rather <w>than 0</w>), and
dimensions are ordered from fastest (inner-most) to slowest
(outer-most) varying.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="566">transpose</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="570">transpose</indexterm></cindex>
Hence <w>C and</w> Fortran data storage conventions represent mathematical
transposes of eachother.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="567">record variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="571">record variable</indexterm></cindex>
Note that record variables contain the record dimension as the most
slowly varying dimension.
See <ref label="ncpdq-netCDF-Permute-Dimensions-Quickly"><xrefnodename>ncpdq netCDF Permute Dimensions Quickly</xrefnodename></ref> for techniques
to re-order (including transpose) dimensions and to reverse data
storage order.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="568">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="572">record dimension</indexterm></cindex>
<para>Consider a file <file>85.nc</file> containing <w>12 months</w> of data in the
record dimension <code>time</code>.
The following hyperslab operations produce identical results, a
@@ -5022,12 +5067,12 @@ lon(1)=0 lev(1)=100 lat(1)=-90 three_dmn_var(1)=0
</section>
<node name="Hyperslabs" spaces=" "><nodename>Hyperslabs</nodename><nodenext spaces=" ">Stride</nodenext><nodeprev spaces=" ">C and Fortran Index Conventions</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Hyperslabs </sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="569">hyperslab</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="570">dimension limits</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="571">coordinate limits</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="572"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="573"><code>--dimension <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="574"><code>--dmn <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="573">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="574">dimension limits</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="575">coordinate limits</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="576"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="577"><code>--dimension <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="578"><code>--dmn <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncbo</command>, <command>nces</command>, <command>ncecat</command>,
<command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>, <command>ncra</command>,
@@ -5064,7 +5109,7 @@ ncks -F -d lon,1,2 in.nc out.nc
ncks -d lon,1,2 in.nc out.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="575">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="579">stride</indexterm></cindex>
<para>Coordinate values should be specified using real notation with a decimal
point required in the value, whereas dimension indices are specified
using integer notation without a decimal point.
@@ -5121,13 +5166,13 @@ ncks -F -d lon,-3, in.nc out.nc
instead of simply <code>.</code> in order to make obvious the selection of
hyperslab elements based on coordinate value rather than index.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="576"><code>NC_CHAR</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="580"><code>NC_CHAR</code></indexterm></cindex>
<para>User-specified coordinate limits are promoted to double-precision values
while searching for the indices which bracket the range.
Thus, hyperslabs on coordinates of type <code>NC_CHAR</code> are computed
numerically rather than lexically, so the results are unpredictable.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="577">wrapped coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="581">wrapped coordinates</indexterm></cindex>
<para>The relative magnitude of <var>min</var> and <var>max</var> indicate to the
operator whether to expect a <dfn>wrapped coordinate</dfn>
(<pxref label="Wrapped-Coordinates"><xrefnodename>Wrapped Coordinates</xrefnodename></pxref>), such as longitude.
@@ -5165,10 +5210,10 @@ This option may be specified more than once in a single command
</section>
<node name="Stride" spaces=" "><nodename>Stride</nodename><nodenext spaces=" ">Record Appending</nodenext><nodeprev spaces=" ">Hyperslabs</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Stride </sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="578">stride</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="579"><code>-d <var>dim</var>,[<var>min</var>],[<var>max</var>],<var>stride</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="580"><code>--dimension <var>dim</var>,[<var>min</var>],[<var>max</var>],<var>stride</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="581"><code>--dmn <var>dim</var>,[<var>min</var>],[<var>max</var>],<var>stride</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="582">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="583"><code>-d <var>dim</var>,[<var>min</var>],[<var>max</var>],<var>stride</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="584"><code>--dimension <var>dim</var>,[<var>min</var>],[<var>max</var>],<var>stride</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="585"><code>--dmn <var>dim</var>,[<var>min</var>],[<var>max</var>],<var>stride</var></code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncbo</command>, <command>nces</command>, <command>ncecat</command>,
<command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>, <command>ncra</command>,
@@ -5221,8 +5266,8 @@ data are stored in records <w>2, 14, &dots; 50</w> so the desired
Without the <var>stride</var> option, the procedure is very awkward.
One could use <command>ncks</command> five times and then use <command>ncrcat</command> to
concatenate the resulting files together:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="582">Bourne Shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="583">C Shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="586">Bourne Shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="587">C Shell</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">for idx in 02 14 26 38 50; do # Bourne Shell
ncks -d time,${idx} 8501_8912.nc foo.${idx}
@@ -5256,9 +5301,9 @@ ncrcat -F -d time,3,,12 85.nc 86.nc 87.nc 88.nc 89.nc 8503_8903.nc
</section>
<node name="Record-Appending" spaces=" "><nodename>Record Appending</nodename><nodenext spaces=" ">Subcycle</nodenext><nodeprev spaces=" ">Stride</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Record Appending</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="584">record append</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="585"><code>--rec_apn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="586"><code>--record_append</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="588">record append</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="589"><code>--rec_apn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="590"><code>--record_append</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncra</command>, <command>ncrcat</command>&linebreak;
Short options: None&linebreak;
@@ -5334,15 +5379,15 @@ We recommend users try to understand the safety trade-offs involved.
</section>
<node name="Subcycle" spaces=" "><nodename>Subcycle</nodename><nodenext spaces=" ">Multislabs</nodenext><nodeprev spaces=" ">Record Appending</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Subcycle</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="587">duration</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="588">sub-cycle</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="589">subcycle</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="590">MRO</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="591">Multi-Record Operator</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="592"><code>--mro</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="593"><code>-d <var>dim</var>,[<var>min</var>],[<var>max</var>],[<var>stride</var>],[<var>subcycle</var>]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="594"><code>--dimension <var>dim</var>,[<var>min</var>],[<var>max</var>],[<var>stride</var>],[<var>subcycle</var>]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="595"><code>--dmn <var>dim</var>,[<var>min</var>],[<var>max</var>],[<var>stride</var>],<var>subcycle</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="591">duration</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="592">sub-cycle</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="593">subcycle</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="594">MRO</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="595">Multi-Record Operator</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="596"><code>--mro</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="597"><code>-d <var>dim</var>,[<var>min</var>],[<var>max</var>],[<var>stride</var>],[<var>subcycle</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="598"><code>--dimension <var>dim</var>,[<var>min</var>],[<var>max</var>],[<var>stride</var>],[<var>subcycle</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="599"><code>--dmn <var>dim</var>,[<var>min</var>],[<var>max</var>],[<var>stride</var>],<var>subcycle</var>]</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncra</command>, <command>ncrcat</command>&linebreak;
Short options: <samp>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>][,[<var>subcycle</var>]]]]</samp>&linebreak;
@@ -5440,15 +5485,15 @@ records.
</section>
<node name="Multislabs" spaces=" "><nodename>Multislabs</nodename><nodenext spaces=" ">Wrapped Coordinates</nodenext><nodeprev spaces=" ">Subcycle</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Multislabs </sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="596">multislab</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="597">multi-hyperslab</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="598"><acronym><acronymword>MSA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="599"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="600"><code>--dimension <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="601"><code>--dmn <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="602"><code>--msa</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="603"><code>--msa_usr_rdr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="604"><code>--msa_user_order</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="600">multislab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="601">multi-hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="602"><acronym><acronymword>MSA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="603"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="604"><code>--dimension <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="605"><code>--dmn <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="606"><code>--msa</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="607"><code>--msa_usr_rdr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="608"><code>--msa_user_order</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncbo</command>, <command>nces</command>, <command>ncecat</command>,
<command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>, <command>ncra</command>,
@@ -5501,7 +5546,7 @@ to specify the multislab.
the sizes of the multislabs.
This can be used to extend and or pad coordinate grids.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="605">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="609">stride</indexterm></cindex>
<para>Users may specify redundant ranges of indices in a multislab, e.g.,
</para><example endspaces=" ">
<pre xml:space="preserve">ncks -d lon,0,4 -d lon,2,9,2 in.nc out.nc
@@ -5518,7 +5563,7 @@ the <var>stride</var> option only supports index-based hyper-slabbing.
</para>
<para>Multislabs are more efficient than the alternative of sequentially
performing hyperslab operations and concatenating the results.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="606">I/O</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="610">I/O</indexterm></cindex>
This is because <acronym><acronymword>NCO</acronymword></acronym> employs a novel multislab algorithm to
minimize the number of I/O operations when retrieving irregularly spaced
data from disk.
@@ -5638,11 +5683,11 @@ hyperslabs makes this clearer.
</section>
<node name="Wrapped-Coordinates" spaces=" "><nodename>Wrapped Coordinates</nodename><nodenext spaces=" ">Auxiliary Coordinates</nodenext><nodeprev spaces=" ">Multislabs</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Wrapped Coordinates</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="607">wrapped coordinates</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="608">longitude</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="609"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="610"><code>--dimension <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="611"><code>--dmn <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="611">wrapped coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="612">longitude</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="613"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="614"><code>--dimension <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="615"><code>--dmn <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncks</command>&linebreak;
Short options: <samp>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</samp>&linebreak;
@@ -5715,13 +5760,13 @@ values (<pxref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodename></pxref
</section>
<node name="Auxiliary-Coordinates" spaces=" "><nodename>Auxiliary Coordinates</nodename><nodenext spaces=" ">UDUnits Support</nodenext><nodeprev spaces=" ">Wrapped Coordinates</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Auxiliary Coordinates</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="612"><code>-X</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="613"><code>--auxiliary</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="614"><code>standard_name</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="615"><code>coordinates</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="616"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="617"><code>-X <var>lon_min</var>,<var>lon_max</var>,<var>lat_min</var>,<var>lat_max</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="618"><code>--auxiliary <var>lon_min</var>,<var>lon_max</var>,<var>lat_min</var>,<var>lat_max</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="616"><code>-X</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="617"><code>--auxiliary</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="618"><code>standard_name</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="619"><code>coordinates</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="620"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="621"><code>-X <var>lon_min</var>,<var>lon_max</var>,<var>lat_min</var>,<var>lat_max</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="622"><code>--auxiliary <var>lon_min</var>,<var>lon_max</var>,<var>lat_min</var>,<var>lat_max</var></code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncbo</command>, <command>nces</command>, <command>ncecat</command>,
<command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>, <command>ncra</command>,
@@ -5747,7 +5792,7 @@ Cells that contain a value within the user-specified range
[<var>lon_min</var>,<var>lon_max</var>,<var>lat_min</var>,<var>lat_max</var>] are
included in the output hyperslab.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="619">cell-based grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="623">cell-based grids</indexterm></cindex>
<para>A cell-based grid collapses the horizontal spatial information
(latitude and longitude) and stores it along a one-dimensional
coordinate that has a one-to-one mapping to both latitude and longitude
@@ -5859,13 +5904,13 @@ to avoid confusion.
</section>
<node name="UDUnits-Support" spaces=" "><nodename>UDUnits Support</nodename><nodenext spaces=" ">Rebasing Time Coordinate</nodenext><nodeprev spaces=" ">Auxiliary Coordinates</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>UDUnits Support </sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="620">UDUnits</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="621">Unidata</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="622"><code>units</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="623">attribute, <code>units</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="624"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="625"><code>--dimension <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="626"><code>--dmn <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="624">UDUnits</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="625">Unidata</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="626"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="627">attribute, <code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="628"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="629"><code>--dimension <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="630"><code>--dmn <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncbo</command>, <command>nces</command>, <command>ncecat</command>,
<command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>, <command>ncra</command>,
@@ -5887,7 +5932,7 @@ may become required in a future version of <acronym><acronymword>NCO</acronymwor
</para>
<para>Two examples suffice to demonstrate the power and convenience of UDUnits
support.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="627">MKS units</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="631">MKS units</indexterm></cindex>
First, consider extraction of a variable containing non-record
coordinates with physical dimensions stored in MKS units.
In the following example, the user extracts all wavelengths
@@ -5898,7 +5943,7 @@ very frequently used in visible spectroscopy, microns:
wvl[0]=5e-07 meter
</pre></example>
<noindent></noindent>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="628"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="632"><code>units</code></indexterm></cindex>
<para>The hyperslab returns the correct values because the <var>wvl</var> variable
is stored on disk with a length dimension that UDUnits recognizes in the
<code>units</code> attribute.
@@ -5918,7 +5963,7 @@ because each hyperslab argument contains text characters and non-initial
spaces.
Third, <acronym><acronymword>NCO</acronymword></acronym> determines whether the <var>wvl</var> is dimensioned
with a coordinate variable that has a <code>units</code> attribute.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="629">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="633">coordinate variable</indexterm></cindex>
In this case, <var>wvl</var> itself is a coordinate variable.
The value of its <code>units</code> attribute is <code>meter</code>.
Thus <var>wvl</var> passes this test so UDUnits conversion is attempted.
@@ -5940,8 +5985,8 @@ At this point, <acronym><acronymword>NCO</acronymword></acronym> can perform a c
the same algorithm as if the user had specified the hyperslab without
requesting units conversion.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="630"><code>units</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="631"><code>time</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="634"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="635"><code>time</code></indexterm></cindex>
<para>The translation and dimensional innterpretation of time coordinates
shows a more powerful, and probably more common, UDUnits application.
In this example, the user prints all data between <w>4 PM</w> and <w>7 PM</w>
@@ -5953,8 +5998,8 @@ since the year 1900:
time_udunits[1]=876018 hours since 1900-01-01 00:00:0.0
</pre></example>
<noindent></noindent>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="632">stride</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="633">whitespace</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="636">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="637">whitespace</indexterm></cindex>
<para>Here, the user invokes the stride (<pxref label="Stride"><xrefnodename>Stride</xrefnodename></pxref>) capability to obtain
every other timeslice.
This is possible because the UDUnits feature is additive, not
@@ -5970,7 +6015,7 @@ time period spread across multiple input files
<noindent></noindent>
<para>Note that there is no excess whitespace before or after the individual
elements of the <samp>-d</samp> argument.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="634">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="638">shell</indexterm></cindex>
This is important since, as far as the shell knows, <samp>-d</samp> takes
only <emph>one</emph> command-line argument.
Parsing this argument into its component
@@ -6004,8 +6049,8 @@ export UDUNITS2_XML_PATH='/unusual/location/share/udunits/udunits2.xml'
<para>This run-time flexibility can enable the full functionality of
pre-built binaries on machines with libraries in different locations.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="635">Climate and Forecast Metadata Convention</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="636"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="639">Climate and Forecast Metadata Convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="640"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
<para>The <uref><urefurl>http://www.unidata.ucar.edu/packages/udunits</urefurl><urefdesc spaces=" ">UDUnits</urefdesc></uref>
package documentation describes the supported formats of time
dimensions.
@@ -6065,8 +6110,8 @@ data:
<para><samp>ncks -v lon_cal -d lon_cal,'1964-3-1 0:00:0.0','1964-3-4 00:00:0.0'</samp>
results in <code>lon_cal=1,2,3,4</code>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="637">MKS units</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="638">God</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="641">MKS units</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="642">God</indexterm></cindex>
<para>netCDF variables should always be stored with MKS (i.e., God&textrsquo;s) units,
so that application programs may assume MKS dimensions apply to all
input variables.
@@ -6149,9 +6194,9 @@ but also any bounds associated with the record coordinate (e.g.,
</section>
<node name="Multiple-Record-Dimensions" spaces=" "><nodename>Multiple Record Dimensions</nodename><nodenext spaces=" ">Missing Values</nodenext><nodeprev spaces=" ">Rebasing Time Coordinate</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Multiple Record Dimensions</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="639">netCDF4</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="640"><code>--mrd</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="641"><code>--multiple_record_dimensions</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="643">netCDF4</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="644"><code>--mrd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="645"><code>--multiple_record_dimensions</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability:
<command>ncecat</command>, <command>ncpdq</command>
@@ -6208,11 +6253,11 @@ Use <samp>--mrd</samp> to override this.
</section>
<node name="Missing-Values" spaces=" "><nodename>Missing Values</nodename><nodenext spaces=" ">Chunking</nodenext><nodeprev spaces=" ">Multiple Record Dimensions</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Missing values</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="642">missing values</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="643">data, missing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="644">averaging data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="645"><code>missing_value</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="646"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="646">missing values</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="647">data, missing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="648">averaging data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="649"><code>missing_value</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="650"><code>_FillValue</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>,
<command>ncflint</command>, <command>ncpdq</command>, <command>ncra</command>, <command>ncwa</command>&linebreak;
@@ -6222,7 +6267,7 @@ Short options: None&linebreak;
<para>The phrase <dfn>missing data</dfn> refers to data points that are missing,
invalid, or for any reason not intended to be arithmetically processed
in the same fashion as valid data.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="647">arithmetic operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="651">arithmetic operators</indexterm></cindex>
The <acronym><acronymword>NCO</acronymword></acronym> arithmetic operators attempt to handle missing data in
an intelligent fashion.
There are four steps in the <acronym><acronymword>NCO</acronymword></acronym> treatment of missing data:
@@ -6287,7 +6332,7 @@ If <var>var_type</var> equals <var>att_type</var> then <acronym><acronymword>NCO
straightforwardly compares each value of <var>var</var> to
<var>_FillValue</var> to determine which elements of <var>var</var> are to be
treated as missing data.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="648">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="652">C language</indexterm></cindex>
If not, then <acronym><acronymword>NCO</acronymword></acronym> converts <var>_FillValue</var> from
<var>att_type</var> to <var>var_type</var> by using the implicit conversion rules
<w>of C</w>, or, if <var>att_type</var> is <code>NC_CHAR</code>
@@ -6296,7 +6341,7 @@ uses <var>att_type</var> = <code>NC_CHAR</code> and <var>_FillValue</var> =
<samp>-99999.</samp>.
</para></footnote>, by typecasting the results of the <w>C function</w>
<code>strtod(<var>_FillValue</var>)</code>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="649"><command>ncatted</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="653"><command>ncatted</command></indexterm></cindex>
You may use the <acronym><acronymword>NCO</acronymword></acronym> operator <command>ncatted</command> to change the
<code>_FillValue</code> attribute and all data whose data is
<var>_FillValue</var> to a new value
@@ -6305,11 +6350,11 @@ You may use the <acronym><acronymword>NCO</acronymword></acronym> operator <comm
</listitem><listitem>
<para>Identifying missing data during arithmetic operations.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="650">performance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="651">operator speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="652">speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="653">execution time</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="654">arithmetic operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="654">performance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="655">operator speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="656">speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="657">execution time</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="658">arithmetic operators</indexterm></cindex>
<para>When an <acronym><acronymword>NCO</acronymword></acronym> arithmetic operator processes a variable <var>var</var>
with a <code>_FillValue</code> attribute, it compares each value of
<var>var</var> to <var>_FillValue</var> before performing an operation.
@@ -6329,11 +6374,11 @@ valid or not.
</listitem><listitem>
<para>Treatment of any data identified as missing in arithmetic operators.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="655"><command>nces</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="656"><command>ncra</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="657"><command>ncwa</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="658"><command>ncbo</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="659"><command>ncflint</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="659"><command>nces</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="660"><command>ncra</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="661"><command>ncwa</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="662"><command>ncbo</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="663"><command>ncflint</command></indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> averagers (<command>ncra</command>, <command>nces</command>, <command>ncwa</command>)
do not count any element with the value <var>_FillValue</var> towards the
average.
@@ -6377,17 +6422,17 @@ important information from being lost.
</section>
<node name="Chunking" spaces=" "><nodename>Chunking</nodename><nodenext spaces=" ">Deflation</nodenext><nodeprev spaces=" ">Missing Values</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Chunking</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="660"><code>--cnk_byt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="661"><code>--cnk_dmn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="662"><code>--cnk_map</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="663"><code>--cnk_plc</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="664"><code>--cnk_scl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="665"><code>--chunk_byte</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="666"><code>--chunk_dimension</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="667"><code>--chunk_map</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="668"><code>--chunk_policy</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="669"><code>--chunk_scalar</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="670">chunking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="664"><code>--cnk_byt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="665"><code>--cnk_dmn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="666"><code>--cnk_map</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="667"><code>--cnk_plc</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="668"><code>--cnk_scl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="669"><code>--chunk_byte</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="670"><code>--chunk_dimension</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="671"><code>--chunk_map</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="672"><code>--chunk_policy</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="673"><code>--chunk_scalar</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="674">chunking</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>,
<command>ncecat</command>, <command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>,
@@ -6412,9 +6457,9 @@ Dataset chunking issues are described in detail
and
<uref><urefurl>http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_choosing_shapes</urefurl><urefdesc>here</urefdesc></uref>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="671">chunking policy</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="672">chunking map</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="673">chunksize</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="675">chunking policy</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="676">chunking map</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="677">chunksize</indexterm></cindex>
<para>The <acronym><acronymword>NCO</acronymword></acronym> chunking implementation is designed to be flexible.
Users control three aspects of the chunking implementation.
These are known as the <dfn>chunking policy</dfn>, <dfn>chunking map</dfn>,
@@ -6422,9 +6467,9 @@ and <dfn>chunksize</dfn>.
The first two are high-level mechanisms that apply to an entire file
and all variables and dimensions, while the third allows per-dimension
specification of parameters.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="674">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="678">hyperslab</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="10" mergedindex="cp">ncpdq</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="675">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="679">packing</indexterm></cindex>
The implementation is a hybrid of the <command>ncpdq</command> packing policies
(<pxref label="ncpdq-netCDF-Permute-Dimensions-Quickly"><xrefnodename>ncpdq netCDF Permute Dimensions Quickly</xrefnodename></pxref>), and the hyperslab
specifications (<pxref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodename></pxref>).
@@ -6437,21 +6482,21 @@ performance.
(or its long option equivalents, <samp>--cnk_plc</samp> and
<samp>--chunk_policy</samp>) and its <var>cnk_plc</var> argument.
Five chunking policies are currently implemented:&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="676"><samp>all</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="677"><samp>g2d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="678"><samp>g3d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="679"><samp>xpl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="680"><samp>xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="681"><samp>cnk_all</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="682"><samp>cnk_g2d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="683"><samp>cnk_g3d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="684"><samp>cnk_xpl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="685"><samp>cnk_xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="686"><samp>plc_all</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="687"><samp>plc_g2d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="688"><samp>plc_g3d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="689"><samp>plc_xpl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="690"><samp>plc_xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="680"><samp>all</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="681"><samp>g2d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="682"><samp>g3d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="683"><samp>xpl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="684"><samp>xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="685"><samp>cnk_all</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="686"><samp>cnk_g2d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="687"><samp>cnk_g3d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="688"><samp>cnk_xpl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="689"><samp>cnk_xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="690"><samp>plc_all</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="691"><samp>plc_g2d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="692"><samp>plc_g3d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="693"><samp>plc_xpl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="694"><samp>plc_xst</samp></indexterm></cindex>
</para><table commandarg="dfn" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="dfn">Chunk All Variables [<emph>default</emph>]</itemformat></item>
</tableterm><tableitem><para>Definition: Chunk all variables possible.
@@ -6499,12 +6544,12 @@ Multiple equivalent options are provided to satisfy disparate needs
and tastes of <acronym><acronymword>NCO</acronymword></acronym> users working with scripts and from the
command line.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="691">chunking map</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="692">degenerate dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="693"><var>cnk_map</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="694"><code>-M <var>cnk_map</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="695"><code>--cnk_map <var>cnk_map</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="696"><code>--map <var>cnk_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="695">chunking map</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="696">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="697"><var>cnk_map</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="698"><code>-M <var>cnk_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="699"><code>--cnk_map <var>cnk_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="700"><code>--map <var>cnk_map</var></code></indexterm></cindex>
<para>The chunking algorithms must know the chunksizes of each dimension of
each variable to be chunked.
The correspondence between the input variable shape and the chunksizes
@@ -6513,26 +6558,26 @@ The user specifies the desired chunking map with the <samp>-M</samp> switch
(or its long option equivalents, <samp>--cnk_map</samp> and
<samp>--chunk_map</samp>) and its <var>cnk_map</var> argument.
Four chunking maps are currently implemented:&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="697"><samp>dmn</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="698"><samp>scl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="699"><samp>prd</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="700"><samp>lfp</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="701"><samp>rd1</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="702"><samp>xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="703"><samp>rew</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="704"><samp>cnk_dmn</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="705"><samp>cnk_scl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="706"><samp>cnk_prd</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="707"><samp>cnk_lfp</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="708"><samp>cnk_rd1</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="709"><samp>cnk_xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="710"><samp>map_dmn</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="711"><samp>map_scl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="712"><samp>map_prd</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="713"><samp>map_lfp</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="714"><samp>map_rd1</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="715"><samp>map_xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="716">Chris Barker</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="701"><samp>dmn</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="702"><samp>scl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="703"><samp>prd</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="704"><samp>lfp</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="705"><samp>rd1</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="706"><samp>xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="707"><samp>rew</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="708"><samp>cnk_dmn</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="709"><samp>cnk_scl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="710"><samp>cnk_prd</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="711"><samp>cnk_lfp</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="712"><samp>cnk_rd1</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="713"><samp>cnk_xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="714"><samp>map_dmn</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="715"><samp>map_scl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="716"><samp>map_prd</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="717"><samp>map_lfp</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="718"><samp>map_rd1</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="719"><samp>map_xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="720">Chris Barker</indexterm></cindex>
</para><table commandarg="dfn" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="dfn">Chunksize Equals Dimension Size [<emph>default</emph>]</itemformat></item>
</tableterm><tableitem><para>Definition: Chunksize defaults to dimension size.
@@ -6642,7 +6687,7 @@ ncwa -O -4 -D 4 -a time --cnk_plc=g2d --cnk_map=rd1 --cnk_dmn lat,32 \
--cnk_dmn lon,128 dstmch90_clm_0112.nc ~/foo.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="717">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="721">record dimension</indexterm></cindex>
<para>It is appropriate to conclude by informing users about an aspect of
chunking that may not be expected.
Three types of variables are <emph>always</emph> chunked: Record variables,
@@ -6668,12 +6713,12 @@ variables.
</section>
<node name="Deflation" spaces=" "><nodename>Deflation</nodename><nodenext spaces=" ">MD5 digests</nodenext><nodeprev spaces=" ">Chunking</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Deflation</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="718"><code>-L</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="719"><code>--deflate</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="720"><code>--dfl_lvl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="721">Lempel-Ziv deflation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="722">compression</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="723">deflation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="722"><code>-L</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="723"><code>--deflate</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="724"><code>--dfl_lvl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="725">Lempel-Ziv deflation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="726">compression</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="727">deflation</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>,
<command>ncecat</command>, <command>ncflint</command>, <command>ncks</command>, <command>ncpdq</command>,
@@ -6731,15 +6776,15 @@ ncpdq -4 -L 9 in.nc out.nc # Deflated packing (~80% compression)
</section>
<node name="MD5-digests" spaces=" "><nodename>MD5 digests</nodename><nodenext spaces=" ">Buffer sizes</nodenext><nodeprev spaces=" ">Deflation</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>MD5 digests</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="724"><code>--md5_digest</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="725"><code>--md5_dgs</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="726"><code>--md5_wrt_att</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="727"><code>--md5_write_attribute</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="728">integrity</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="729">security</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="730">digest</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="731">hash</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="732">MD5 digest</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="728"><code>--md5_digest</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="729"><code>--md5_dgs</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="730"><code>--md5_wrt_att</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="731"><code>--md5_write_attribute</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="732">integrity</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="733">security</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="734">digest</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="735">hash</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="736">MD5 digest</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability:
<command>ncecat</command>, <command>ncks</command>, <command>ncrcat</command>&linebreak;
@@ -6834,12 +6879,12 @@ We welcome feedback and suggestions from users.
</section>
<node name="Buffer-sizes" spaces=" "><nodename>Buffer sizes</nodename><nodenext spaces=" ">RAM disks</nodenext><nodeprev spaces=" ">MD5 digests</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Buffer sizes</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="733"><code>--bfr_sz_hnt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="734">Buffer sizes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="735">File buffers</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="736"><command>stat() system call</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="737">I/O block size</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="738">System calls</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="737"><code>--bfr_sz_hnt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="738">Buffer sizes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="739">File buffers</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="740"><command>stat() system call</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="741">I/O block size</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="742">System calls</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: &linebreak;
@@ -6879,19 +6924,19 @@ ncks: INFO nc__open() opened file with buffer size = 2097152 bytes
</section>
<node name="RAM-disks" spaces=" "><nodename>RAM disks</nodename><nodenext spaces=" ">Packed data</nodenext><nodeprev spaces=" ">Buffer sizes</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>RAM disks</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="739"><code>--ram_all</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="740"><code>--create_ram</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="741"><code>--open_ram</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="742"><code>--diskless_all</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="743"><acronym><acronymword>RAM</acronymword></acronym> disks</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="744"><acronym><acronymword>RAM</acronymword></acronym> files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="745"><code>NC_DISKLESS</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="746">diskless files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="747">memory requirements</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="748">memory available</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="749"><acronym><acronymword>RAM</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="750">swap space</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="751">peak memory usage</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="743"><code>--ram_all</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="744"><code>--create_ram</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="745"><code>--open_ram</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="746"><code>--diskless_all</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="747"><acronym><acronymword>RAM</acronymword></acronym> disks</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="748"><acronym><acronymword>RAM</acronymword></acronym> files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="749"><code>NC_DISKLESS</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="750">diskless files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="751">memory requirements</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="752">memory available</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="753"><acronym><acronymword>RAM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="754">swap space</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="755">peak memory usage</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: &linebreak;
@@ -6940,7 +6985,7 @@ To be safe, use <samp>--open_ram</samp>, <samp>--ram_all</samp>, or
of four) smaller than your available system <acronym><acronymword>RAM</acronymword></acronym>.
See <ref label="Memory-Requirements"><xrefnodename>Memory Requirements</xrefnodename></ref> for further details.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="752"><acronym><acronymword>RAM</acronymword></acronym> variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="756"><acronym><acronymword>RAM</acronymword></acronym> variables</indexterm></cindex>
<para>The <samp>--create_ram</samp> switch causes output files to be created in RAM,
rather than on disk.
These files are copied to disk only when closed, i.e., when the
@@ -6991,9 +7036,9 @@ It is not unreasonable to for <acronym><acronymword>NCO</acronymword></acronym>
like this in a few minutes.
However, there is no substitute for benchmarking with real files.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="753">temporary output files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="754">temporary files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="755"><code>--no_tmp_fl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="757">temporary output files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="758">temporary files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="759"><code>--no_tmp_fl</code></indexterm></cindex>
<para>A completely independent way to reduce time spent writing files is
to refrain from writing temporary output files.
This is accomplished with the <samp>--no_tmp_fl</samp> switch
@@ -7006,16 +7051,16 @@ This is accomplished with the <samp>--no_tmp_fl</samp> switch
</section>
<node name="Packed-data" spaces=" "><nodename>Packed data</nodename><nodenext spaces=" ">Operation Types</nodenext><nodeprev spaces=" ">RAM disks</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Packed data</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="756">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="757">unpacking</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="758"><code>add_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="759"><code>scale_factor</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="760"><code>missing_value</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="761"><code>_FillValue</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="762"><command>pack(x)</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="763"><command>unpack(x)</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="764"><code>--hdf_upk</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="765"><code>--hdf_unpack</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="760">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="761">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="762"><code>add_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="763"><code>scale_factor</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="764"><code>missing_value</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="765"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="766"><command>pack(x)</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="767"><command>unpack(x)</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="768"><code>--hdf_upk</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="769"><code>--hdf_unpack</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>,
<command>ncflint</command>, <command>ncpdq</command>, <command>ncra</command>, <command>ncwa</command>&linebreak;
@@ -7118,8 +7163,8 @@ unpacked data, i.e., <code>int</code>, <code>float</code> or <code>double</code>
<a name="hdf_upk"></a> <!&textndash; http://nco.sf.net/nco.html#hdf_upk &textndash;>
<a name="hdf_unpack"></a> <!&textndash; http://nco.sf.net/nco.html#hdf_unpack &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="766">interoperability</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="767"><acronym><acronymword>HDF</acronymword></acronym> unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="770">interoperability</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="771"><acronym><acronymword>HDF</acronymword></acronym> unpacking</indexterm></cindex>
<para>Most files originally written in <acronym><acronymword>HDF</acronymword></acronym> format use the
<acronym><acronymword>HDF</acronymword></acronym> packing/unpacking algorithm.
This algorithm is incompatible with the netCDF packing algorithm
@@ -7223,27 +7268,27 @@ Pack and unpack individual variables with <command>ncpdq</command> and the
</section>
<node name="Operation-Types" spaces=" "><nodename>Operation Types</nodename><nodenext spaces=" ">Type Conversion</nodenext><nodeprev spaces=" ">Packed data</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Operation Types</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="768">operation types</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="769"><code>avg</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="770"><code>sqravg</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="771"><code>avgsqr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="772"><code>min</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="773"><code>max</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="774"><code>rmssdn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="775"><code>rms</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="776"><code>ttl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="777"><code>sqrt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="778">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="779">mean</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="780">total</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="781">minimum</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="782">maximum</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="783">root-mean-square</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="784">standard deviation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="785">variance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="786"><code>-y <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="787"><code>--operation <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="788"><code>--op_typ <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="772">operation types</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="773"><code>avg</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="774"><code>sqravg</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="775"><code>avgsqr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="776"><code>min</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="777"><code>max</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="778"><code>rmssdn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="779"><code>rms</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="780"><code>ttl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="781"><code>sqrt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="782">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="783">mean</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="784">total</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="785">minimum</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="786">maximum</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="787">root-mean-square</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="788">standard deviation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="789">variance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="790"><code>-y <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="791"><code>--operation <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="792"><code>--op_typ <var>op_typ</var></code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncap2</command>, <command>ncra</command>, <command>nces</command>, <command>ncwa</command>&linebreak;
Short options: <samp>-y</samp>&linebreak;
@@ -7274,7 +7319,7 @@ Set <var>op_typ</var> to the abbreviated key for the corresponding operation:
</tableterm><tableitem><para>Sum of values
</para></tableitem></tableentry></table>
<noindent></noindent>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="789">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="793">coordinate variable</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> assumes coordinate variables represent grid axes, e.g.,
longitude.
The only rank-reduction which makes sense for coordinate variables
@@ -7508,7 +7553,7 @@ ncwa -y rms -v prs_sfc -a time in.nc foo.nc
<noindent></noindent>
<para>The previous two commands give the same answer but <command>ncra</command> is
preferred because it has a smaller memory footprint.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="790">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="794">degenerate dimension</indexterm></cindex>
A dimension of size one is said to be <dfn>degenerate</dfn>.
By default, <command>ncra</command> leaves the (degenerate) <code>time</code>
dimension in the output file (which is usually useful) whereas
@@ -7533,7 +7578,7 @@ We can now find the three month maximium surface pressure at every point.
<a name="xmp_sdn"></a> <!&textndash; http://nco.sf.net/nco.html#xmp_sdn &textndash;>
</html>
<noindent></noindent>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="791">standard deviation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="795">standard deviation</indexterm></cindex>
<para>It is possible to use a combination of these operations to compute
the variance and standard deviation of a field stored in a single file
or across multiple files.
@@ -7624,7 +7669,7 @@ less required by the <command>ncbo</command> operation in the third step.
</section>
<node name="Type-Conversion" spaces=" "><nodename>Type Conversion</nodename><nodenext spaces=" ">Batch Mode</nodenext><nodeprev spaces=" ">Operation Types</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Type Conversion</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="792">type conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="796">type conversion</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability (automatic type conversion): <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>,
<command>ncflint</command>, <command>ncra</command>, <command>ncwa</command>&linebreak;
@@ -7633,10 +7678,10 @@ Availability (manual type conversion): <command>nces</command>, <command>ncra</c
Short options: None&linebreak;
Long options: <samp>--dbl</samp>, <samp>--flt</samp>, <samp>--rth_dbl</samp>, <samp>--rth_flt</samp>&linebreak;
</para></cartouche>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="793">promotion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="794">demotion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="795">automatic type conversion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="796">manual type conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="797">promotion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="798">demotion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="799">automatic type conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="800">manual type conversion</indexterm></cindex>
<para>Type conversion refers to the casting or coercion of one fundamental or
atomic data type to another, e.g., converting <code>NC_SHORT</code> (two
bytes) to <code>NC_DOUBLE</code> (eight bytes).
@@ -7750,7 +7795,7 @@ Similarly, the total (e.g., <samp>-y ttl</samp>) of <code>17000s</code> and
the final result (the true total) of <math>34000</math> is outside the range
of type <code>NC_SHORT</code>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="797"><code>trunc()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="801"><code>trunc()</code></indexterm></cindex>
<para>After arithmetic is computed in double-precision for promoted variables,
the intermediate double-precision values must be demoted to the
variables&textrsquo; original storage type (e.g., from <code>NC_DOUBLE</code> to
@@ -7758,7 +7803,7 @@ variables&textrsquo; original storage type (e.g., from <code>NC_DOUBLE</code> to
<acronym><acronymword>NCO</acronymword></acronym> has handled this demotion in three ways in its history.
Prior to October, 2011 (version 4.0.8), <acronym><acronymword>NCO</acronymword></acronym> employed the
<w>C library</w> truncate function, <code>trunc()</code>
-<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="798">C language</indexterm></cindex>
+<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="802">C language</indexterm></cindex>
<para>The actual type conversions with trunction were handled by intrinsic
type conversion, so the <code>trunc()</code> function was never explicitly
called, although the results would be the same if it were.</para></footnote>.
@@ -7771,7 +7816,7 @@ integer!
Yet truncation is how the <w>C language</w> performs implicit conversion of
real numbers to integers.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="799">Neil Davis</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="803">Neil Davis</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> stopped using truncation for demotion when an alert user
(Neil Davis) informed us that this caused a small bias in the packing
algorithm employed by <command>ncpdq</command>.
@@ -7790,7 +7835,7 @@ This rounds, for example, <code>1.5d</code> and <code>2.5d</code> to <code>1s</c
and <code>2s</code>, respectively.
</para>
<findex index="fn" spaces=" "><indexterm index="fn" number="13" mergedindex="cp"><code>lrint()</code>.</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="800"><acronym><acronymword>IEEE</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="804"><acronym><acronymword>IEEE</acronymword></acronym></indexterm></cindex>
<para>Since April, 2013 (version 4.3.0), <acronym><acronymword>NCO</acronymword></acronym> has employed the
other <w>C library</w> family of rounding functions, <code>lrint()</code>.
This algorithm rounds <var>x</var> to the nearest integer, using the current
@@ -7818,12 +7863,12 @@ stores it on disk as
</subsection>
<node name="Promoting-Single_002dprecision-to-Double" spaces=" "><nodename>Promoting Single-precision to Double</nodename><nodenext spaces=" ">Manual type conversion</nodenext><nodeprev spaces=" ">Automatic type conversion</nodeprev><nodeup spaces=" ">Type Conversion</nodeup></node>
<subsection spaces=" "><sectiontitle>Promoting Single-precision to Double</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="801">promotion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="802">implicit conversion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="803"><code>--dbl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="804"><code>--rth_dbl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="805"><code>--flt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="806"><code>--rth_flt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="805">promotion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="806">implicit conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="807"><code>--dbl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="808"><code>--rth_dbl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="809"><code>--flt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="810"><code>--rth_flt</code></indexterm></cindex>
<para>Promotion of real numbers from single- to double-precision is
fundamental to scientific computing.
When it should occur depends on the precision of the inputs and the
@@ -7854,8 +7899,8 @@ precision than single-precision numbers.
</para>
<para>Given these properties, there are at least two possible arithmetic
conventions for the treatment of real numbers:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="807">C language</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="808">Fortran</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="811">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="812">Fortran</indexterm></cindex>
</para><enumerate first="1" endspaces=" ">
<listitem spaces=" "><para>Conservative, aka Fortran Convention
Automatic type conversion during arithmetic in the Fortran language is,
@@ -8026,9 +8071,9 @@ degrade the precision in such situtations.
Double-precision arithmetic mititgates this problem, so <samp>--dbl</samp>
would be warranted.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="809"><acronym><acronymword>TREFHT</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="810"><acronym><acronymword>CAM3</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="811"><acronym><acronymword>GCM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="813"><acronym><acronymword>TREFHT</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="814"><acronym><acronymword>CAM3</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="815"><acronym><acronymword>GCM</acronymword></acronym></indexterm></cindex>
<para>This can be seen with another example, averaging a global surface
temperature field with <command>ncwa</command>.
The input contains a single-precision global temperature field
@@ -8107,8 +8152,8 @@ It means that the global mean temperature changes scientists are looking
for are comparable in size to the numerical artifacts produced by the
averaging procedure.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="812">rounding</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="813">random walk</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="816">rounding</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="817">random walk</indexterm></cindex>
<para>Why are the single-precision numerical artifacts so large?
Each global average is the result of multiplying almost 15,000 elements
each by its weight, summing those, and then dividing by the summed
@@ -8117,7 +8162,7 @@ Thus about 50,000 single-precision floating point operations caused
the loss of two to three significant digits of precision.
The net error of a series of independent rounding errors is a random
walk phenomena
-<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="814">Michael Prather</indexterm></cindex>
+<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="818">Michael Prather</indexterm></cindex>
<para>Thanks to <w>Michael J.</w> Prather for explaining this to me.</para></footnote>.
Successive rounding errors displace the answer further from the truth.
An ensemble of such averages will, on average, have no net bias.
@@ -8126,8 +8171,8 @@ rounding errors is zero.
And the error of any given sequence of rounding errors obeys, for large
series, a Gaussian distribution centered on zero.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="815">mantissa</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="816">exponent</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="819">mantissa</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="820">exponent</indexterm></cindex>
<para>Single-precision numbers use three of their four eight-bit bytes to
represent the mantissa so the smallest representable single-precision
mantissa is <math>\epsilon \equiv 2^{-23} = 1.19209 \times 10^{-7}</math>.
@@ -8160,7 +8205,7 @@ agreement.
<!-- c P(>=25500,50000)= ? -->
<!-- c fxm: Use Gaussian distribution/Random Walk -->
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="817">beer</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="821">beer</indexterm></cindex>
<para>The <acronym><acronymword>NCO</acronymword></acronym> results have been independently validated to the
extent possible in three other languages:
<w>C</w>, Matlab, and <acronym><acronymword>NCL</acronymword></acronym>.
@@ -8233,7 +8278,7 @@ Please let us know what you think of the selected defaults and options.
</subsection>
<node name="Manual-type-conversion" spaces=" "><nodename>Manual type conversion</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Promoting Single-precision to Double</nodeprev><nodeup spaces=" ">Type Conversion</nodeup></node>
<subsection spaces=" "><sectiontitle>Manual type conversion</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="818"><command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="822"><command>ncap2</command></indexterm></cindex>
<para><command>ncap2</command> provides intrinsic functions for performing manual type
conversions.
This, for example, converts variable <code>tpt</code> to external type
@@ -8252,17 +8297,17 @@ external type <code>NC_DOUBLE</code> (a C-type <code>double</code>).
</section>
<node name="Batch-Mode" spaces=" "><nodename>Batch Mode</nodename><nodenext spaces=" ">History Attribute</nodenext><nodeprev spaces=" ">Type Conversion</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Batch Mode</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="819">batch mode</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="820">overwriting files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="821">appending to files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="822">force overwrite</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="823">force append</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="824"><code>-O</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="825"><code>-A</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="826"><code>--overwrite</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="827"><code>--ovr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="828"><code>--apn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="829"><code>--append</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="823">batch mode</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="824">overwriting files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="825">appending to files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="826">force overwrite</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="827">force append</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="828"><code>-O</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="829"><code>-A</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="830"><code>--overwrite</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="831"><code>--ovr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="832"><code>--apn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="833"><code>--append</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-O</samp>, <samp>-A</samp>&linebreak;
@@ -8293,13 +8338,13 @@ already contain the appended dimensions.
</section>
<node name="History-Attribute" spaces=" "><nodename>History Attribute</nodename><nodenext spaces=" ">File List Attributes</nodenext><nodeprev spaces=" ">Batch Mode</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>History Attribute</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="830"><code>history</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="831">timestamp</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="832">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="833">attributes, global</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="834"><code>-h</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="835"><code>--hst</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="836"><code>--history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="834"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="835">timestamp</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="836">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="837">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="838"><code>-h</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="839"><code>--hst</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="840"><code>--history</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-h</samp>&linebreak;
@@ -8326,7 +8371,7 @@ attributes.
When more than one global attribute fits the case-insensitive search
for "history", the first one found will be used.
<code>history</code> attribute
-<cindex index="cp" spaces=" "><indexterm index="cp" number="837"><command>ncatted</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="841"><command>ncatted</command></indexterm></cindex>
To avoid information overkill, all operators have an optional switch
(<samp>-h</samp>, <samp>--hst</samp>, or <samp>--history</samp>) to override
automatically appending the <code>history</code> attribute
@@ -8341,14 +8386,14 @@ Note that the <samp>-h</samp> switch also turns off writing the
</section>
<node name="File-List-Attributes" spaces=" "><nodename>File List Attributes</nodename><nodenext spaces=" ">CF Conventions</nodenext><nodeprev spaces=" ">History Attribute</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>File List Attributes</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="838"><code>nco_input_file_list</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="839"><code>nco_input_file_number</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="840"><code>stdin</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="841">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="842">attributes, global</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="843"><code>-H</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="844"><code>--fl_lst_in</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="845"><code>--file_list</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="842"><code>nco_input_file_list</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="843"><code>nco_input_file_number</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="844"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="845">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="846">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="847"><code>-H</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="848"><code>--fl_lst_in</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="849"><code>--file_list</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>nces</command>, <command>ncecat</command>, <command>ncra</command>, <command>ncrcat</command>&linebreak;
Short options: <samp>-H</samp>&linebreak;
@@ -8393,21 +8438,21 @@ may amount to many thousands of filenames in a metadata attribute.
</section>
<node name="CF-Conventions" spaces=" "><nodename>CF Conventions</nodename><nodenext spaces=" ">ARM Conventions</nodenext><nodeprev spaces=" ">File List Attributes</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle><acronym><acronymword>CF</acronymword></acronym> Conventions</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="846"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="847"><acronym><acronymword>CCSM</acronymword></acronym> conventions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="848">UDUnits</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="849"><code>ORO</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="850"><code>area</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="851"><code>datesec</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="852"><code>date</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="853"><code>gw</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="854"><code>hyai</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="855"><code>hyam</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="856"><code>hybi</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="857"><code>hybm</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="858"><code>lat_bnds</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="859"><code>lon_bnds</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="860"><code>msk_*</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="850"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="851"><acronym><acronymword>CCSM</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="852">UDUnits</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="853"><code>ORO</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="854"><code>area</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="855"><code>datesec</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="856"><code>date</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="857"><code>gw</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="858"><code>hyai</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="859"><code>hyam</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="860"><code>hybi</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="861"><code>hybm</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="862"><code>lat_bnds</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="863"><code>lon_bnds</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="864"><code>msk_*</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncbo</command>, <command>nces</command>, <command>ncecat</command>,
<command>ncflint</command>, <command>ncpdq</command>, <command>ncra</command>, <command>ncwa</command>&linebreak;
@@ -8471,7 +8516,7 @@ variables because of their usual meaning in <acronym><acronymword>CF</acronymwor
These variables contain scalar metadata such as the resolution of the
host geophysical model and it makes no sense to change their values.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="861">non-coordinate grid properties</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="865">non-coordinate grid properties</indexterm></cindex>
<para>Furthermore, the <dfn>size and rank-preserving arithmetic operators</dfn> try
not to operate on certain grid properties.
These operators are <command>ncap2</command>, <command>ncbo</command>, <command>nces</command>,
@@ -8515,8 +8560,8 @@ or alter the <code>Conventions</code> attribute.
<a name="cnv_CF_bnd"></a> <!&textndash; http://nco.sf.net/nco.html#cnv_CF_bnd &textndash;>
<a name="bnd"></a> <!&textndash; http://nco.sf.net/nco.html#bnd &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="862"><code>bounds</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="863">bounds convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="866"><code>bounds</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="867">bounds convention</indexterm></cindex>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> version 4.0.8 (April, 2011), <acronym><acronymword>NCO</acronymword></acronym>
supports the <acronym><acronymword>CF</acronymword></acronym> <code>bounds</code> convention for cell boundaries
described
@@ -8534,17 +8579,17 @@ Hence the subsets will themselves be <acronym><acronymword>CF</acronymword></acr
<html endspaces=" ">
<a name="cnv_CF_crd"></a> <!&textndash; http://nco.sf.net/nco.html#cnv_CF_crd &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="864"><code>coordinates</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="865">coordinates convention</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="866">coordinate variable</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="867">auxiliary coordinates</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="868">subsetting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="869"><code>-C</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="870"><code>-c</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="871"><code>--no-coords</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="872"><code>--no-crd</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="873"><code>--coords</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="874"><code>--crd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="868"><code>coordinates</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="869">coordinates convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="870">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="871">auxiliary coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="872">subsetting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="873"><code>-C</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="874"><code>-c</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="875"><code>--no-coords</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="876"><code>--no-crd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="877"><code>--coords</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="878"><code>--crd</code></indexterm></cindex>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> version 3.9.6 (January, 2009), <acronym><acronymword>NCO</acronymword></acronym>
supports the <acronym><acronymword>CF</acronymword></acronym> <code>coordinates</code> convention described
<uref><urefurl>http://cf-pcmdi.llnl.gov/documents/cf-conventions/1.6/cf-conventions.html#coordinate-system</urefurl><urefdesc spaces=" ">here</urefdesc></uref>.
@@ -8562,12 +8607,12 @@ described in <ref label="Subsetting-Coordinate-Variables"><xrefnodename>Subsetti
<a name="no_cll_mth"></a> <!&textndash; http://nco.sf.net/nco.html#no_cll_mth &textndash;>
<a name="cell_methods"></a> <!&textndash; http://nco.sf.net/nco.html#cell_methods &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="875"><code>cell_methods</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="876"><code>--cll_mth</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="877"><code>--no_cll_mth</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="878"><code>--cell_methods</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="879"><code>--no_cell_methods</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="880">cell methods convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="879"><code>cell_methods</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="880"><code>--cll_mth</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="881"><code>--no_cll_mth</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="882"><code>--cell_methods</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="883"><code>--no_cell_methods</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="884">cell methods convention</indexterm></cindex>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> version 4.4.2 (February, 2014), <acronym><acronymword>NCO</acronymword></acronym>
supports some of the <acronym><acronymword>CF</acronymword></acronym> <code>cell_methods</code>
<uref><urefurl>http://cf-pcmdi.llnl.gov/documents/cf-conventions/1.7-draft1/cf-conventions.html#cell-methods</urefurl><urefdesc spaces=" ">convention</urefdesc></uref>
@@ -8603,10 +8648,10 @@ These options are only available in the operators <command>ncwa</command> and
</section>
<node name="ARM-Conventions" spaces=" "><nodename>ARM Conventions</nodename><nodenext spaces=" ">Operator Version</nodenext><nodeprev spaces=" ">CF Conventions</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle><acronym><acronymword>ARM</acronymword></acronym> Conventions</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="881"><acronym><acronymword>ARM</acronymword></acronym> conventions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="882"><code>time_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="883"><code>base_time</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="884"><code>time</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="885"><acronym><acronymword>ARM</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="886"><code>time_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="887"><code>base_time</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="888"><code>time</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncrcat</command>&linebreak;
Short options: None&linebreak;
@@ -8642,9 +8687,9 @@ The values of <code>time</code> are defined by the <acronym><acronymword>ARM</ac
<math><var>time</var> = <var>base_time</var> + <var>time_offset</var></math>.
Thus, if <var>output-file</var> contains the <code>time_offset</code>
variable, it will also contain the <code>time</code> coordinate.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="885"><code>history</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="886">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="887">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="889"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="890">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="891">attributes, global</indexterm></cindex>
<w>A short</w> message is added to the <code>history</code> global attribute
whenever these <acronym><acronymword>ARM</acronymword></acronym>-specific procedures are executed.
</para>
@@ -8655,12 +8700,12 @@ whenever these <acronym><acronymword>ARM</acronymword></acronym>-specific proced
</section>
<node name="Operator-Version" spaces=" "><nodename>Operator Version</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">ARM Conventions</nodeprev><nodeup spaces=" ">Common features</nodeup></node>
<section spaces=" "><sectiontitle>Operator Version</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="888">version</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="889"><acronym><acronymword>RCS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="890"><code>-r</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="891"><code>--revision</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="892"><code>--version</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="893"><code>--vrs</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="892">version</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="893"><acronym><acronymword>RCS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="894"><code>-r</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="895"><code>--revision</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="896"><code>--version</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="897"><code>--vrs</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-r</samp>&linebreak;
@@ -8694,7 +8739,7 @@ This tells you that <command>ncks</command> contains all patches up to version
<para>This chapter presents reference pages for each of the operators
individually.
The operators are presented in alphabetical order.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="894">command line switches</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="898">command line switches</indexterm></cindex>
All valid command line switches are included in the syntax statement.
Recall that descriptions of many of these command line switches are
provided only in <ref label="Common-features"><xrefnodename>Common features</xrefnodename></ref>, to avoid redundancy.
@@ -8723,9 +8768,9 @@ described in any detail in the sections below.
</html>
<node name="ncap2-netCDF-Arithmetic-Processor" spaces=" "><nodename>ncap2 netCDF Arithmetic Processor</nodename><nodenext spaces=" ">ncatted netCDF Attribute Editor</nodenext><nodeprev spaces=" ">Operator Reference Manual</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncap2</command> netCDF Arithmetic Processor</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="895">parser</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="896">lexer</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="897">arithmetic processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="899">parser</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="900">lexer</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="901">arithmetic processor</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="14" mergedindex="cp">ncap</indexterm></findex>
<findex index="fn" spaces=" "><indexterm index="fn" number="15" mergedindex="cp">ncap2</indexterm></findex>
@@ -8767,11 +8812,11 @@ This documentation refers to <command>ncap2</command>, which has a superset of
the <command>ncap</command> functionality.
Eventually <command>ncap</command> will be deprecated in favor <command>ncap2</command>.
<command>ncap2</command> may be renamed <command>ncap</command> in 2013.</para></footnote>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="898">script file</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="899"><code>--script-file</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="900"><code>--fl_spt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="901"><code>--script</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="902"><code>--spt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="902">script file</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="903"><code>--script-file</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="904"><code>--fl_spt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="905"><code>--script</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="906"><code>--spt</code></indexterm></cindex>
The processing instructions are contained either in the <acronym><acronymword>NCO</acronymword></acronym>
script file <file>fl.nco</file> or in a sequence of command line arguments.
The options <samp>-s</samp> (or long options <samp>--spt</samp> or <samp>--script</samp>)
@@ -8780,7 +8825,7 @@ are used for in-line scripts and <samp>-S</samp> (or long options
filename where (usually multiple) scripting commands are pre-stored.
<command>ncap2</command> was written to perform arbitrary algebraic
transformations of data and archive the results as easily as possible.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="903">derived fields</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="907">derived fields</indexterm></cindex>
<xref label="Missing-Values"><xrefnodename>Missing Values</xrefnodename></xref>, for treatment of missing values.
The results of the algebraic manipulations are called
<dfn>derived fields</dfn>.
@@ -8791,7 +8836,7 @@ variables to be operated on as an argument to <samp>-v</samp>
Rather, the <samp>-v</samp> switch takes no arguments and indicates
that <command>ncap2</command> should output <emph>only</emph> user-defined variables.
<command>ncap2</command> neither accepts nor understands the <var>-x</var> switch.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="904">appending variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="908">appending variables</indexterm></cindex>
NB: As of 20120515, <command>ncap2</command> is unable to append to files that
already contain the appended dimensions.
</para>
@@ -8832,7 +8877,7 @@ already contain the appended dimensions.
</html>
<para>Defining new variables in terms of existing variables is a powerful
feature of <command>ncap2</command>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="905">derived fields</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="909">derived fields</indexterm></cindex>
Derived fields inherit the metadata (i.e., attributes) of their
ancestors, if any, in the script or input file.
When the derived field is completely new (no identically-named ancestors
@@ -8852,49 +8897,49 @@ using left hand casting.
</html>
<node name="Syntax-of-ncap2-statements" spaces=" "><nodename>Syntax of ncap2 statements</nodename><nodenext spaces=" ">Expressions</nodenext><nodeprev spaces=" ">ncap2 netCDF Arithmetic Processor</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Syntax of <command>ncap2</command> statements</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="906">statement</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="907">syntax</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="910">statement</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="911">syntax</indexterm></cindex>
<para>Mastering <command>ncap2</command> is relatively simple.
Each valid statement <var>statement</var> consists of standard forward
algebraic expression.
The <file>fl.nco</file>, if present, is simply a list of such statements,
whitespace, and comments.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="908">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="912">C language</indexterm></cindex>
The syntax of statements is most like the computer <w>language C</w>.
The following characteristics <w>of C</w> are preserved:
</para><table commandarg="asis" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="asis">Array syntax</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="909">array syntax</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="910"><code>[]</code> (array delimiters)</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="913">array syntax</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="914"><code>[]</code> (array delimiters)</indexterm></cindex>
<para>Arrays elements are placed within <code>[]</code> characters;
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Array indexing</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="911">array indexing</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="915">array indexing</indexterm></cindex>
<para>Arrays are 0-based;
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Array storage</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="912">array storage</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="916">array storage</indexterm></cindex>
<para>Last dimension is most rapidly varying;
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Assignment statements</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="913">assignment statement</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="914">semi-colon</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="915"><code>;</code> (end of statement)</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="917">assignment statement</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="918">semi-colon</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="919"><code>;</code> (end of statement)</indexterm></cindex>
<para><w>A semi</w>-colon <samp>;</samp> indicates the end of an assignment statement.
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Comments</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="916">comments</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="917"><code>/*...*/</code> (comment)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="918"><code>//</code> (comment)</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="920">comments</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="921"><code>/*...*/</code> (comment)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="922"><code>//</code> (comment)</indexterm></cindex>
<para>Multi-line comments are enclosed within <code>/* */</code> characters.
Single line comments are preceded by <code>//</code> characters.
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Nesting</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="919">including files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="920">nesting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="921"><code>#include</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="923">including files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="924">nesting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="925"><code>#include</code></indexterm></cindex>
<para>Files may be nested in scripts using <code>#include <var>script</var></code>.
Note that the <code>#include</code> command is not followed by a semi-colon
because it is a pre-processor directive, not an assignment statement.
The filename <file>script</file> is interpreted relative to the run directory.
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Attribute syntax</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="922">attribute syntax</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="923"><code>&arobase;</code> (attribute)</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="926">attribute syntax</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="927"><code>&arobase;</code> (attribute)</indexterm></cindex>
<para>The at-sign <code>&arobase;</code> is used to delineate an attribute name from a
variable name.
</para></tableitem></tableentry></table>
@@ -8904,12 +8949,12 @@ variable name.
</html>
</subsection>
<node name="Expressions" spaces=" "><nodename>Expressions</nodename><nodenext spaces=" ">Dimensions</nodenext><nodeprev spaces=" ">Syntax of ncap2 statements</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="924">expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="928">expressions</indexterm></cindex>
<subsection spaces=" "><sectiontitle>Expressions</sectiontitle>
<para>Expressions are the fundamental building block of <command>ncap2</command>.
Expressions are composed of variables, numbers, literals, and
attributes.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="925">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="929">C language</indexterm></cindex>
The following <w>C operators</w> are &textldquo;overloaded&textrdquo; and work with scalars
and multi-dimensional arrays:
</para><example endspaces=" ">
@@ -8938,8 +8983,8 @@ When either type is <code>NC_DOUBLE</code>, the result is also <code>NC_DOUBLE</
</para></listitem></itemize>
<!-- c csz got to here editing -->
-<cindex index="cp" spaces=" "><indexterm index="cp" number="926">broadcasting variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="927">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="930">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="931">rank</indexterm></cindex>
<para><strong>Rank</strong>
</para><itemize commandarg="bullet" spaces=" " endspaces=" "><itemprepend><formattingcommand command="bullet"/> </itemprepend>
<listitem spaces=" "><prepend>•</prepend><para>The Rank of the result is generally equal to Rank of the operand
@@ -8995,7 +9040,7 @@ Consider now
</pre></example>
<noindent></noindent> <para><strong>Binary Operators</strong> &linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="928">binary Operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="932">binary Operators</indexterm></cindex>
Unlike C the binary operators return an array of values.
There is no such thing as short circuiting with the AND/OR operators.
Missing values are carried into the result in the same way they are with
@@ -9057,7 +9102,7 @@ n4=--time; n4=time=0.,1.,2.,3.,4.,5.,6.,7.,8.,9.;
</pre></example>
<noindent></noindent> <para><strong>Conditional Operator ?: </strong> &linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="929">conditional Operator</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="933">conditional Operator</indexterm></cindex>
<noindent></noindent> <emph>exp1 ? exp2 : exp3 </emph> &linebreak;
The conditional operator (or ternary Operator) is a succinct way
of writing an if/then/else. If exp1 evaluates to true then exp2 is
@@ -9075,7 +9120,7 @@ PS_nw=PS-(PS.min() > 100000 ? 100000 : 0);
<a name="clipping"></a> <!&textndash; http://nco.sf.net/nco.html#clipping &textndash;>
</html>
<noindent></noindent> <para><strong>Clipping Operators</strong>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="930">clipping operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="934">clipping operators</indexterm></cindex>
</para><table commandarg="asis" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="asis"><< Less-than Clipping&linebreak;</itemformat></item>
</tableterm><tableitem><para>For arrays, the less-than selection operator selects all values in the
@@ -9106,8 +9151,8 @@ RDM2=RDM << 90s // 1, 9, 36, 84, 90, 90, 84, 36, 9, 1 int
</subsection>
<node name="Dimensions" spaces=" "><nodename>Dimensions</nodename><nodenext spaces=" ">Left hand casting</nodenext><nodeprev spaces=" ">Expressions</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Dimensions</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="931">defining dimensions in <command>ncap2</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="932"><code>defdim()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="935">defining dimensions in <command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="936"><code>defdim()</code></indexterm></cindex>
<para>Dimensions are defined in Output using the <code>defdim()</code> function.
</para><example endspaces=" ">
<pre xml:space="preserve">defdim("cnt",10);
@@ -9172,9 +9217,9 @@ A1['$a--list.A']=30.0;
</subsection>
<node name="Left-hand-casting" spaces=" "><nodename>Left hand casting</nodename><nodenext spaces=" ">Arrays and hyperslabs</nodenext><nodeprev spaces=" ">Dimensions</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Left hand casting</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="933">hybrid coordinate system</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="934">left hand casting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="935"><acronym><acronymword>LHS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="937">hybrid coordinate system</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="938">left hand casting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="939"><acronym><acronymword>LHS</acronymword></acronym></indexterm></cindex>
<para>The following examples demonstrate the utility of the
<dfn>left hand casting</dfn> ability of <command>ncap2</command>.
Consider first this simple, artificial, example.
@@ -9238,10 +9283,10 @@ coordinate system is easy with left hand casting.
<subsection spaces=" "><sectiontitle>Arrays and hyperslabs</sectiontitle>
<findex index="fn" spaces=" "><indexterm index="fn" number="16" mergedindex="cp">array</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="936"><code>array</code> function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="937">arrays</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="938">findgen-equivalent</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="939">indgen-equivalent</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="940"><code>array</code> function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="941">arrays</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="942">findgen-equivalent</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="943">indgen-equivalent</indexterm></cindex>
<para>Generating a regularly spaced one-dimensional array with <command>ncap2</command>
is simple with the <code>array()</code> function.
The syntax is
@@ -9279,7 +9324,7 @@ var_out=array(1+2-2,one,$time); // 1,2,3,4,5,6,7,8,9,10
var_out=array(1,2,three_dmn_rec_var); // 1,3,5,...155,157,159
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="940">hyperslabs</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="944">hyperslabs</indexterm></cindex>
<para>Hyperslabs in <command>ncap2</command> are more limited than hyperslabs with the
other <acronym><acronymword>NCO</acronymword></acronym> operators.
<command>ncap2</command> does not understand the shell command-line syntax
@@ -9392,7 +9437,7 @@ prs(:,1,:,:)=th1
</pre></example>
<noindent></noindent> <para><strong>Reverse method</strong>&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="941">reverse()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="945">reverse()</indexterm></cindex>
Use the <code>reverse()</code> method to reverse a dimension&textrsquo;s elements in a
variable with at least one dimension.
This is equivalent to a negative stride, e.g.,
@@ -9402,7 +9447,7 @@ od_rv=od.reverse($time); // {38,36,34,32,30,28,26,24,22,20}
</pre></example>
<noindent></noindent> <para><strong>Permute method</strong>p&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="942">permute()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="946">permute()</indexterm></cindex>
Use the <code>permute()</code> method to swap the dimensions of a variable.
The number and names of dimension arguments must match the dimensions in
the variable.
@@ -9433,7 +9478,7 @@ three_dmn_var_prm=
</subsection>
<node name="Attributes" spaces=" "><nodename>Attributes</nodename><nodenext spaces=" ">Number literals</nodenext><nodeprev spaces=" ">Arrays and hyperslabs</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Attributes</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="943">attributes<command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="947">attributes<command>ncap2</command></indexterm></cindex>
<noindent></noindent> <para>Attributes are referred to by <emph>var_nm&arobase;att_nm</emph> &linebreak;
All the following are valid statements:
</para><example endspaces=" ">
@@ -9449,7 +9494,7 @@ a1($time.size-1)=a1&arobase;max;
</pre></example>
<para>A <emph>value list</emph> can be used on the RHS of an assign...
-<cindex index="cp" spaces=" "><indexterm index="cp" number="944">value list</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="948">value list</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">a1&arobase;trip1={1,2,3} ;
a1&arobase;triplet={a1&arobase;min,(a1&arobase;min+a1&arobase;max)/2,a1&arobase;max};
@@ -9477,8 +9522,8 @@ sng_arr[$sng_len]=a1&arobase;long_name; // sng_arr now contains "Kelvin&quo
To stop the attribute being written use the ram_delete() method or use a bogus variable name.
</para>
<noindent></noindent> <para><strong>Attribute Propagation and Inheritance</strong>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="945">attribute propagation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="946">attribute inheritance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="949">attribute propagation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="950">attribute inheritance</indexterm></cindex>
</para><itemize commandarg="bullet" spaces=" " endspaces=" "><itemprepend><formattingcommand command="bullet"/></itemprepend>
<beforefirstitem> </beforefirstitem><listitem spaces=" "><prepend>•</prepend><para>Attribute propagation occurs in a regular assign statement. The variable being defined on the LHS gets copies of the attributes from the leftermost variable on the RHS
</para>
@@ -9505,7 +9550,7 @@ th_min=1.0 + 2*three_dmn_var_dbl.min($time);
</subsection>
<node name="Number-literals" spaces=" "><nodename>Number literals</nodename><nodenext spaces=" ">if statement</nodenext><nodeprev spaces=" ">Attributes</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Number literals</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="947">number literals <command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="951">number literals <command>ncap2</command></indexterm></cindex>
<para>The table below lists the postfix character(s) to add to a number
literal for type cohesion.
To use the new netCDF4 types <acronym><acronymword>NCO</acronymword></acronym> must be compiled/linked to
@@ -9566,7 +9611,7 @@ n6&arobase;units="kelvin" // attribute will be type <code>NC_CHAR</cod
</subsection>
<node name="if-statement" spaces=" "><nodename>if statement</nodename><nodenext spaces=" ">print statement</nodenext><nodeprev spaces=" ">Number literals</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>if statement</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="948">if()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="952">if()</indexterm></cindex>
<para>The syntax of the if statement is similar to its C counterpart.
The <emph>Conditional Operator (ternary operator)</emph> has also been
implemented.
@@ -9645,7 +9690,7 @@ th_nw=(three_dmn_var_sht >= 0 ? three_dmn_var_sht.uint() : \
</subsection>
<node name="print-statement" spaces=" "><nodename>print statement</nodename><nodenext spaces=" ">Missing values ncap2</nodenext><nodeprev spaces=" ">if statement</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>print statement</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="949">print() <command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="953">print() <command>ncap2</command></indexterm></cindex>
<example endspaces=" ">
<pre xml:space="preserve">print(variable_name/attribute name/string, format string);
</pre></example>
@@ -9683,7 +9728,7 @@ This function is monotonic
</subsection>
<node name="Missing-values-ncap2" spaces=" "><nodename>Missing values ncap2</nodename><nodenext spaces=" ">Methods and functions</nodenext><nodeprev spaces=" ">print statement</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Missing values ncap2</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="950">missing values ncap2</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="954">missing values ncap2</indexterm></cindex>
<para>Missing values operate slightly differently in <command>ncap2</command>
Consider the expression where op is any of the following operators (excluding &textrsquo;=&textrsquo;)
</para><example endspaces=" ">
@@ -9726,7 +9771,7 @@ with a variable.
They only work on variables in Output.
</para><table commandarg="code" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="code">set_miss(expr)</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="951"><code>set_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="955"><code>set_miss()</code></indexterm></cindex>
<para>The numeric argument <var>expr</var> becomes the new missing value,
overwriting the old missing value, if any.
The argument given is converted if necessary to the variable type.
@@ -9739,23 +9784,23 @@ They only work on variables in Output.
The intrinsic function <code>change_miss()</code> (see below) is typically
used to edit values of existing variables.
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">change_miss(expr)</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="952"><code>change_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="956"><code>change_miss()</code></indexterm></cindex>
<para>Sets or changes (any pre-existing) missing value attribute and missing
data values to <var>expr</var>.
NB: This is an expensive function since all values must be examined.
Use this function when changing missing values for pre-existing
variables.
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">get_miss() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="953"><code>get_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="957"><code>get_miss()</code></indexterm></cindex>
<para>Returns the missing value of a variable.
If the variable exists in Input and Output then the missing value of
the variable in Output is returned.
If the variable has no missing value then an error is returned.
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">delete_miss()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="954"><code>delete_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="958"><code>delete_miss()</code></indexterm></cindex>
<para>Deletes the missing value associated with a variable.
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">number_miss()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="955"><code>number_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="959"><code>number_miss()</code></indexterm></cindex>
<para>Counts the number of missing values a variable contains.
</para></tableitem></tableentry></table>
@@ -9816,26 +9861,26 @@ type double, average it, then convert this back to type short:
</para>
<table commandarg="code" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="code">avg()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="956">avg()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="960">avg()</indexterm></cindex>
<para>Mean value
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">sqravg()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="957">sqravg()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="961">sqravg()</indexterm></cindex>
<para>Square of the mean
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">avgsqr()</itemformat></item>
</tableterm><tableitem><para>Mean of sum of squares
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">max()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="958">max()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="962">max()</indexterm></cindex>
<para>Maximum value
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">min()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="959">min()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="963">min()</indexterm></cindex>
<para>Minimum value
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">rms()</itemformat></item>
</tableterm><tableitem><para>Root-mean-square (normalize by <var>N</var>)
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">rmssdn()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="960">rmssdn()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="964">rmssdn()</indexterm></cindex>
<para>Root-mean square (normalize by <var>N-1</var>)
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">ttl() or total()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="961">ttl()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="965">ttl()</indexterm></cindex>
<para>Sum of values
</para></tableitem></tableentry></table>
@@ -9849,19 +9894,19 @@ four_time_avg=four_dmn_rec_var($time);
For more information see <pxref label="Packed-data"><xrefnodename>Packed data</xrefnodename></pxref> and <pxref label="ncpdq-netCDF-Permute-Dimensions-Quickly"><xrefnodename>ncpdq netCDF Permute Dimensions Quickly</xrefnodename></pxref>&linebreak;
</para><table commandarg="code" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="code">pack() & pack_short()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="962">pack()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="966">pack()</indexterm></cindex>
<para>The default packing algorithm is applied and variable is packed to <code>NC_SHORT</code>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">pack_byte()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="963">pack_byte()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="967">pack_byte()</indexterm></cindex>
<para>Variable is packed to <code>NC_BYTE</code>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">pack_short()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="964">pack_short()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="968">pack_short()</indexterm></cindex>
<para>Variable is packed to <code>NC_SHORT</code>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">pack_int()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="965">pack_int()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="969">pack_int()</indexterm></cindex>
<para>Variable is packed to <code>NC_INT</code>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">unpack()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="966">unpack()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="970">unpack()</indexterm></cindex>
<para>The standard unpacking algorithm is applied.
</para></tableitem></tableentry></table>
@@ -9870,13 +9915,13 @@ These methods work with variables and attributes. They have no arguments
</para>
<table commandarg="code" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="code">size() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="967">size()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="971">size()</indexterm></cindex>
<para>Total number of elements
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">ndims()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="968">ndims()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="972">ndims()</indexterm></cindex>
<para>Number of dimensions in variable
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">type() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="969">type()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="973">type()</indexterm></cindex>
<para>Returns the netcdf type (see previous section)
</para></tableitem></tableentry></table>
@@ -9922,38 +9967,38 @@ lat_2D_rrg_new=0,90,-30,30,-30,30,-90,0
<table commandarg="code" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="code"><strong>netCDF3/4 Types</strong></itemformat></item>
</tableterm></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">byte() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="970">byte()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="974">byte()</indexterm></cindex>
<para>convert to <code>NC_BYTE</code>, a signed 1-byte integer
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">char()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="971">char()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="975">char()</indexterm></cindex>
<para>convert to <code>NC_CHAR</code>, an ISO/ASCII character
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">short() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="972">sshort()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="976">sshort()</indexterm></cindex>
<para>convert to <code>NC_SHORT</code>, a signed 2-byte integer
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">int() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="973">int()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="977">int()</indexterm></cindex>
<para>convert to <code>NC_INT</code>, a signed 4-byte integer
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">float()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="974">float()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="978">float()</indexterm></cindex>
<para>convert to <code>NC_FLOAT</code>, a single-precision (4-byte) floating point number
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">double() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="975">double()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="979">double()</indexterm></cindex>
<para>convert to <code>NC_DOUBLE</code>, a double-precision (8-byte) floating point number
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code"><strong>netCDF4 Types</strong></itemformat></item>
</tableterm></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">ubyte() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="976">ubyte()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="980">ubyte()</indexterm></cindex>
<para>convert to <code>NC_UBYTE</code>, an unsigned 1-byte integer
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">ushort() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="977">ushort()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="981">ushort()</indexterm></cindex>
<para>convert to <code>NC_USHORT</code>, an unsigned 2-byte integer
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">uint()</itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="978">uint()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="982">uint()</indexterm></cindex>
<para>convert to <code>NC_UINT</code>, an unsigned 4-byte integer
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">int64() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="979">int64()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="983">int64()</indexterm></cindex>
<para>convert to <code>NC_INT64</code>, a signed 8-byte integer
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">uint64() </itemformat></item>
-</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="980">unit64()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="984">unit64()</indexterm></cindex>
<para>convert to <code>NC_UINT64</code>, an unsigned 8-byte integer
</para></tableitem></tableentry></table>
@@ -9977,7 +10022,7 @@ n3=1/(three_dmn_var_dbl.cos().pow(2))-tan(three_dmn_var_dbl)^2; // n3 type doubl
<html endspaces=" ">
<a name="ncap_ram"></a> <!&textndash; http://nco.sf.net/nco.html#ncap_ram &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="981"><acronym><acronymword>RAM</acronymword></acronym> variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="985"><acronym><acronymword>RAM</acronymword></acronym> variables</indexterm></cindex>
</subsection>
<node name="RAM-variables" spaces=" "><nodename>RAM variables</nodename><nodenext spaces=" ">Where statement</nodenext><nodeprev spaces=" ">Methods and functions</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle><acronym><acronymword>RAM</acronymword></acronym> variables</sectiontitle>
@@ -9992,8 +10037,8 @@ To delete a <acronym><acronymword>RAM</acronymword></acronym> variables (and rec
<code>ram_delete()</code> method.
To write a <acronym><acronymword>RAM</acronymword></acronym> variable to disk (like a regular variable) use
<code>ram_write()</code>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="982">ram_write()</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="983">ram_delete()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="986">ram_write()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="987">ram_delete()</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">*temp[$time,$lat,$lon]=10.0; // Cast
*temp_avg=temp.avg($time); // Regular assign
@@ -10015,7 +10060,7 @@ temp_avg.ram_write(); // Write Variable to output
</subsection>
<node name="Where-statement" spaces=" "><nodename>Where statement</nodename><nodenext spaces=" ">Loops</nodenext><nodeprev spaces=" ">RAM variables</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Where statement</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="984">where()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="988">where()</indexterm></cindex>
<para>A <code>where()</code> combines the definition and application of a mask all in one go and can lead to succinct code.
The full syntax of a <code>where()</code> statement is as follows:
</para>
@@ -10099,8 +10144,8 @@ temp_max=temperature.max();
</subsection>
<node name="Loops" spaces=" "><nodename>Loops</nodename><nodenext spaces=" ">Include files</nodenext><nodeprev spaces=" ">Where statement</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Loops</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="985">while()</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="986">for()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="989">while()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="990">for()</indexterm></cindex>
<para><command>ncap2</command> supplies <command>for()</command> loops and <command>while()</command> loops.
They are completely unoptimized so use them only with <acronym><acronymword>RAM</acronymword></acronym>
variables unless you want thrash your disk to death.
@@ -10147,7 +10192,7 @@ print("Total of odd elements ");print(sum);print("\n");
</subsection>
<node name="Include-files" spaces=" "><nodename>Include files</nodename><nodenext spaces=" ">Sort methods</nodenext><nodeprev spaces=" ">Loops</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Include files</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="987"><command>include</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="991"><command>include</command></indexterm></cindex>
<para>The syntax of an <var>include-file</var> is:
</para><example endspaces=" ">
<pre xml:space="preserve">#include "script.nco"
@@ -10173,12 +10218,12 @@ e=2.71828; // Regular (disk) variable, written to output
</subsection>
<node name="Sort-methods" spaces=" "><nodename>Sort methods</nodename><nodenext spaces=" ">Irregular grids</nodenext><nodeprev spaces=" ">Include files</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle><command>sort</command> methods</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="988"><command>sort</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="989"><command>asort</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="990"><command>dsort</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="991"><command>remap</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="992"><command>unmap</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="993"><command>invert_map</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="992"><command>sort</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="993"><command>asort</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="994"><command>dsort</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="995"><command>remap</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="996"><command>unmap</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="997"><command>invert_map</command></indexterm></cindex>
<para>In <acronym><acronymword>ncap2</acronymword></acronym> there are multiple ways to sort data.
Beginning with <acronym><acronymword>NCO</acronymword></acronym> 4.1.0 (March, 2012), <acronym><acronymword>ncap2</acronymword></acronym>
support six sorting functions:
@@ -10448,11 +10493,11 @@ ncap2 -O -v -S ~/ncap2_foo.nco ~/nco/data/in.nc ~/foo.nc
</subsection>
<node name="Irregular-grids" spaces=" "><nodename>Irregular grids</nodename><nodenext spaces=" ">Bilinear interpolation</nodenext><nodeprev spaces=" ">Sort methods</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>Irregular Grids</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="994">irregular grids</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="995">rectangular grids</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="996">non-rectangular grids</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="997">non-standard grids</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="998">mask</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="998">irregular grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="999">rectangular grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1000">non-rectangular grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1001">non-standard grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1002">mask</indexterm></cindex>
<!-- c fxm need to edit rrg sxn beginning here -->
<para><acronym><acronymword>NCO</acronymword></acronym> is capable of analyzing datasets for many different
underlying coordinate grid types.
@@ -10488,7 +10533,7 @@ analysis software like <acronym><acronymword>NCO</acronymword></acronym>.
are independent of these grid properties (regularity,
rectangularity).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="999">wrapped coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1003">wrapped coordinates</indexterm></cindex>
<para>The preferred <acronym><acronymword>NCO</acronymword></acronym> technique to analyze data on non-standard
coordinate grids is to create a region mask with <command>ncap2</command>, and
then to use the mask within <command>ncap2</command> for variable-specific
@@ -10570,7 +10615,7 @@ ncl 'file_in="wrfout.nc"' 'file_out="wrfpost.nc"' wrfout_to_
ncl 'file_in="wrfout_d02_2013-10-04_20:00:00"' 'file_out="wrfout_d02_2013-10-04_20:00:00_cf.nc"' wrfout_to_cf.ncl
ncl 'file_in="wrfout_v2_Lambert"' 'file_out="wrfout_v2_Lambert.nc"' wrfout_to_cf.ncl
</ignore>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1000"><acronym><acronymword>WRF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1004"><acronym><acronymword>WRF</acronymword></acronym></indexterm></cindex>
<para>Grids like those produced by the <acronym><acronymword>WRF</acronymword></acronym> model are complex because
one must use global metadata to determine the grid staggering and
offsets to translate <code>XLAT</code> and <code>XLONG</code> into real latitudes,
@@ -10730,7 +10775,7 @@ print(T_out);
</subsection>
<node name="GSL-special-functions" spaces=" "><nodename>GSL special functions</nodename><nodenext spaces=" ">GSL interpolation</nodenext><nodeprev spaces=" ">Bilinear interpolation</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>GSL special functions</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1001"><acronym><acronymword>GSL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1005"><acronym><acronymword>GSL</acronymword></acronym></indexterm></cindex>
<noindent></noindent> <para>As of version 3.9.6 (released January, 2009), <acronym><acronymword>NCO</acronymword></acronym>
can link to the GNU Scientific Library (<acronym><acronymword>GSL</acronymword></acronym>).
<command>ncap2</command> can access most <acronym><acronymword>GSL</acronymword></acronym> special functions including
@@ -10758,8 +10803,8 @@ The slow-down due to calling the error-handling version of the
<acronym><acronymword>GSL</acronymword></acronym> numerical functions was found to be negligible (please let
us know if you find otherwise).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1002">gamma function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1003"><var>gsl_sf_gamma</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1006">gamma function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1007"><var>gsl_sf_gamma</var></indexterm></cindex>
<noindent></noindent> <para>Consider the gamma function.&linebreak;
<noindent></noindent> The <acronym><acronymword>GSL</acronymword></acronym> function prototype is &linebreak;
<code>int gsl_sf_gamma_e(const double x, gsl_sf_result * result)</code>
@@ -10777,8 +10822,8 @@ Otherwise, the default double fill value is used
(defined in the netCDF header <file>netcdf.h</file> as
<code>NC_FILL_DOUBLE = 9.969e+36</code>).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1004">Bessel function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1005"><var>gsl_sf_bessel_Jn</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1008">Bessel function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1009"><var>gsl_sf_bessel_Jn</var></indexterm></cindex>
<noindent></noindent> <para>Consider a call to a Bessel function with <acronym><acronymword>GSL</acronymword></acronym>
prototype&linebreak;
<code>int gsl_sf_bessel_Jn_e(int n, double x, gsl_sf_result * result)</code>
@@ -10807,7 +10852,7 @@ dimension, so <code>n_in</code> in can be broadcast to conform to
<code>three_dmn_var_dbl</code>.
However <code>time_out=gsl_sf_bessel_Jn(n_in,time)</code> is invalid.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1006">Elliptic integrals</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1010">Elliptic integrals</indexterm></cindex>
<para>Consider the elliptical integral with prototype
<code>int gsl_sf_ellint_RD_e(double x, double y, double z, gsl_mode_t mode, gsl_sf_result * result)</code>
</para><example endspaces=" ">
@@ -10848,7 +10893,7 @@ Zero indicates success.
</para>
<noindent></noindent> <para>Consider another array function &linebreak;
<code>int gsl_sf_legendre_Pl_array( int lmax, double x, double *result_array);</code>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1007">Legendre polynomial</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1011">Legendre polynomial</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="17" mergedindex="cp">gsl_sf_legendre_Pl</indexterm></findex>
</para><example endspaces=" ">
<pre xml:space="preserve">a1=time.double();
@@ -11160,7 +11205,7 @@ prototypes look at the spreadsheet <strong>doc/nco_gsl.ods</strong>. &linebreak;
</subsection>
<node name="GSL-interpolation" spaces=" "><nodename>GSL interpolation</nodename><nodenext spaces=" ">GSL least-squares fitting</nodenext><nodeprev spaces=" ">GSL special functions</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>GSL interpolation</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1008"><acronym><acronymword>GSL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1012"><acronym><acronymword>GSL</acronymword></acronym></indexterm></cindex>
<noindent></noindent> <para>As of version 3.9.9 (released July, 2009), <acronym><acronymword>NCO</acronymword></acronym> has wrappers to the <acronym><acronymword>GSL</acronymword></acronym> interpolation functions.
</para>
<noindent></noindent> <para>Given a set of data points (x1,y1)...(xn, yn) the <acronym><acronymword>GSL</acronymword></acronym> functions computes a continuous interpolating function <acronym><acronymword>Y(x)</acronymword></acronym> such that <acronym><acronymword>Y(xi) = yi</acronymword></acronym>. The interpolation is piecewise smooth, and its behavior at the end-points is determined by the type of interpolation used. For more information consult the <acronym><acronymword>GSL</acrony [...]
@@ -11525,8 +11570,8 @@ statements chained together as a single <samp>-s</samp> argument.
<html endspaces=" ">
<a name="xmp_grw"></a> <!&textndash; http://nco.sf.net/nco.html#xmp_grw &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1009">growing dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1010">dimensions, growing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1013">growing dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1014">dimensions, growing</indexterm></cindex>
<para><command>ncap2</command> may be used to &textldquo;grow&textrdquo; dimensions, i.e., to increase
dimension sizes without altering existing data.
Say <file>in.nc</file> has <code>ORO(lat,lon)</code> and the user wishes a new
@@ -11549,7 +11594,7 @@ and then execute the script with
<html endspaces=" ">
<a name="flg"></a> <!&textndash; http://nco.sf.net/nco.html#flg &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1011">flags</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1015">flags</indexterm></cindex>
<para>Imagine you wish to create a binary flag based on the value of
an array.
The flag should have <w>value 1.0</w> where the array <w>exceeds 1.0</w>,
@@ -11564,7 +11609,7 @@ from the continuous array named <code>ORO</code> in <file>in.nc</file>.
</para><example endspaces=" ">
<pre xml:space="preserve">ncap2 -s 'ORO_msk=(ORO==2.0);ORO=ORO_msk*3.0+!ORO_msk*ORO' in.nc out.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1012">mask</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1016">mask</indexterm></cindex>
<para>This creates and uses <code>ORO_msk</code> to mask the subsequent arithmetic
operation.
Values of <code>ORO</code> are only changed where <code>ORO_msk</code> is true,
@@ -11581,7 +11626,7 @@ Using the <code>where</code> statement the above code simplifies to :
variables.
Let the variables <var>u</var> and <var>v</var> be the horizontal
wind components.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1013">covariance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1017">covariance</indexterm></cindex>
<!-- c fxm 20030423: texi2html 1.64 has problems with this legal syntax but makeinfo -html does not -->
The <dfn>covariance</dfn> of <var>u</var> and <var>v</var> is defined
as the time mean product of the deviations of <var>u</var> and
@@ -11604,7 +11649,7 @@ where <math>[<var>x</var>]</math> denotes the time-average of
denotes the deviation from the time-mean.
The covariance tells us how much of the correlation of two signals
arises from the signal fluctuations versus the mean signals.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1014">eddy covariance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1018">eddy covariance</indexterm></cindex>
Sometimes this is called the <dfn>eddy covariance</dfn>.
We will store the covariance in the variable <code>uprmvprm</code>.
</para><example endspaces=" ">
@@ -11629,11 +11674,11 @@ can compute averages, and thus covariances, by itself:
<para>We have not seen a simpler method to script and execute powerful
arithmetic than <command>ncap2</command>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1015">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1016">shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1017">quotes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1018">extended regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1019">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1019">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1020">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1021">quotes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1022">extended regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1023">regular expressions</indexterm></cindex>
<para><command>ncap2</command> utilizes many meta-characters
(e.g., <samp>$</samp>, <samp>?</samp>, <samp>;</samp>, <samp>()</samp>, <samp>[]</samp>)
that can confuse the command-line shell if not quoted properly.
@@ -11664,13 +11709,13 @@ variables in <command>ncap2</command> command-line scripts
In such cases it may be necessary to use the shell backslash character
<samp>\</samp> to protect the <command>ncap2</command> meta-character.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1020">appending data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1021">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1024">appending data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1025">time-averaging</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="18" mergedindex="cp">ncks</indexterm></findex>
<findex index="fn" spaces=" "><indexterm index="fn" number="19" mergedindex="cp">ncwa</indexterm></findex>
<findex index="fn" spaces=" "><indexterm index="fn" number="20" mergedindex="cp">ncra</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1022">degenerate dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1023"><samp>-b</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1026">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1027"><samp>-b</samp></indexterm></cindex>
<para>A dimension of size one is said to be <emph>degenerate</emph>.
Whether a degenerate record dimension is desirable or not
depends on the application.
@@ -11688,7 +11733,7 @@ and <code>vavg</code> to the size of the non-degenerate <var>time</var> dimensio
in the input file.
Thus the append (<command>ncks -A</command>) command would be undefined (and
should fail) in this case.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1024"><code>-C</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1028"><code>-C</code></indexterm></cindex>
Equally important is the <samp>-C</samp> argument
(<pxref label="Subsetting-Coordinate-Variables"><xrefnodename>Subsetting Coordinate Variables</xrefnodename></pxref>) to <command>ncwa</command> to prevent
any scalar <var>time</var> variable from being written to the output file.
@@ -11703,78 +11748,78 @@ Knowing when to use <command>ncwa -a time</command> rather than the default
<subsection spaces=" "><sectiontitle>Intrinsic mathematical methods</sectiontitle>
<para><command>ncap2</command> supports the standard mathematical functions supplied with
most operating systems.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1025">addition</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1026">subtraction</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1027">multiplication</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1028">division</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1029">exponentiation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1030">power</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1031">modulus</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1032"><code>+</code> (addition)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1033"><code>-</code> (subtraction)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1034"><code>*</code> (multiplication)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1035"><code>/</code> (division)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1036"><code>^</code> (power)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1037"><code>%</code> (modulus)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1029">addition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1030">subtraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1031">multiplication</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1032">division</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1033">exponentiation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1034">power</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1035">modulus</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1036"><code>+</code> (addition)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1037"><code>-</code> (subtraction)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1038"><code>*</code> (multiplication)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1039"><code>/</code> (division)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1040"><code>^</code> (power)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1041"><code>%</code> (modulus)</indexterm></cindex>
Standard calculator notation is used for addition <kbd>+</kbd>, subtraction
<kbd>-</kbd>, multiplication <kbd>*</kbd>, division <kbd>/</kbd>, exponentiation
<kbd>^</kbd>, and modulus <kbd>%</kbd>.
The available elementary mathematical functions are:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1038"><var>abs</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1039"><var>acosh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1040"><var>acos</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1041"><var>asinh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1042"><var>asin</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1043"><var>atanh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1044"><var>atan</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1045"><var>ceil</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1046"><var>cosh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1047"><var>cos</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1048"><var>erfc</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1049"><var>erf</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1050"><var>exp</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1051"><var>floor</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1052"><var>gamma</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1053"><var>ln</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1054"><var>log10</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1055"><var>log</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1056"><var>nearbyint</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1057"><var>pow</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1058"><var>rint</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1059"><var>round</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1060"><var>sinh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1061"><var>sin</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1062"><var>sqrt</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1063"><var>tanh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1064"><var>tan</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1065"><var>trunc</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1066">mathematical functions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1067">nearest integer function (inexact)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1068">nearest integer function (exact)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1069">rounding functions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1070">truncation function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1071">absolute value</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1072">arccosine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1073">arcsine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1074">arctangent function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1075">ceiling function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1076">complementary error function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1077">cosine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1078">error function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1079">exponentiation function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1080">floor function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1081">gamma function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1082">hyperbolic arccosine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1083">hyperbolic arcsine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1084">hyperbolic arctangent function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1085">hyperbolic cosine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1086">hyperbolic sine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1087">hyperbolic tangent</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1088">logarithm, base 10</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1089">logarithm, natural</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1090">power function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1091">sine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1092">square root function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1042"><var>abs</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1043"><var>acosh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1044"><var>acos</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1045"><var>asinh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1046"><var>asin</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1047"><var>atanh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1048"><var>atan</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1049"><var>ceil</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1050"><var>cosh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1051"><var>cos</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1052"><var>erfc</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1053"><var>erf</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1054"><var>exp</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1055"><var>floor</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1056"><var>gamma</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1057"><var>ln</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1058"><var>log10</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1059"><var>log</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1060"><var>nearbyint</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1061"><var>pow</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1062"><var>rint</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1063"><var>round</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1064"><var>sinh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1065"><var>sin</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1066"><var>sqrt</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1067"><var>tanh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1068"><var>tan</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1069"><var>trunc</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1070">mathematical functions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1071">nearest integer function (inexact)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1072">nearest integer function (exact)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1073">rounding functions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1074">truncation function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1075">absolute value</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1076">arccosine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1077">arcsine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1078">arctangent function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1079">ceiling function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1080">complementary error function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1081">cosine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1082">error function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1083">exponentiation function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1084">floor function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1085">gamma function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1086">hyperbolic arccosine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1087">hyperbolic arcsine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1088">hyperbolic arctangent function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1089">hyperbolic cosine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1090">hyperbolic sine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1091">hyperbolic tangent</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1092">logarithm, base 10</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1093">logarithm, natural</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1094">power function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1095">sine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1096">square root function</indexterm></cindex>
</para><table commandarg="code" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="code">abs(x)</itemformat></item>
</tableterm><tableitem><para><dfn>Absolute value</dfn>
@@ -11973,7 +12018,7 @@ log$(10.0) = 1.0$
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">nearbyint(x)</itemformat></item>
</tableterm><tableitem><para><dfn>Round inexactly</dfn>
Nearest integer to <var>x</var> is returned in floating point format.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1093">inexact conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1097">inexact conversion</indexterm></cindex>
No exceptions are raised for <dfn>inexact conversions</dfn>.
Example:
<tex endspaces=" ">
@@ -11982,8 +12027,8 @@ nearbyint$(0.1) = 0.0$
<math>nearbyint(0.1) = 0.0</math>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="code">pow(x,y)</itemformat></item>
</tableterm><tableitem><para><dfn>Power</dfn>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1094">promotion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1095">automatic type conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1098">promotion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1099">automatic type conversion</indexterm></cindex>
Value of <var>x</var> is raised to the power of <var>y</var>.
Exceptions are raised for <dfn>domain errors</dfn>.
Due to type-limitations in the <w>C language</w> <code>pow</code> function,
@@ -12072,14 +12117,14 @@ platform-specific.
Functions mandated by <w>ANSI C</w> are <emph>guaranteed</emph> to be present
and are indicated with an asterisk
<!-- c fxm No they're not, not yet -->
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1096"><code>ANSI C</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1097"><code>float</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1098">precision</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1099">quadruple-precision</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1100">single-precision</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1101">double-precision</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1102"><code>long double</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1103"><code>NC_DOUBLE</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1100"><code>ANSI C</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1101"><code>float</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1102">precision</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1103">quadruple-precision</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1104">single-precision</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1105">double-precision</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1106"><code>long double</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1107"><code>NC_DOUBLE</code></indexterm></cindex>
<footnote spaces="\n"><para><w>ANSI C</w> compilers are guaranteed to support double-precision versions
of these functions.
These functions normally operate on netCDF variables of type <code>NC_DOUBLE</code>
@@ -12097,12 +12142,12 @@ performing the operation, and then re-casting.
available, and uses the casting method when they are not.
</para></footnote>.
and are indicated with an asterisk.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1104"><code>-f</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1105"><code>--prn_fnc_tbl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1106"><code>--fnc_tbl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1108"><code>-f</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1109"><code>--prn_fnc_tbl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1110"><code>--fnc_tbl</code></indexterm></cindex>
Use the <samp>-f</samp> (or <samp>fnc_tbl</samp> or <samp>prn_fnc_tbl</samp>) switch
to print a complete list of functions supported on your platform.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1107">Linux</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1111">Linux</indexterm></cindex>
<footnote><para>Linux supports more of these intrinsic functions than
other OSs.</para></footnote>
</para>
@@ -12163,7 +12208,7 @@ other OSs.</para></footnote>
</subsection>
<node name="ID-Quoting" spaces=" "><nodename>ID Quoting</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" " trailingspaces=" ">Operator precedence and associativity</nodeprev><nodeup spaces=" ">ncap2 netCDF Arithmetic Processor</nodeup></node>
<subsection spaces=" "><sectiontitle>ID Quoting</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1108">ID Quoting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1112">ID Quoting</indexterm></cindex>
<para>In this section when I refer to a name I mean a variable name, attribute name or a dimension name
The allowed characters in a valid netCDF name vary from release to release. (See end section). If you want to use metacharacters in a name or use a method name as a variable name then the name has to be quoted wherever it occurs.
</para>
@@ -12236,9 +12281,9 @@ netcdf-4.0 Final 2008/08/28&linebreak;
</section>
<node name="ncatted-netCDF-Attribute-Editor" spaces=" "><nodename>ncatted netCDF Attribute Editor</nodename><nodenext spaces=" ">ncbo netCDF Binary Operator</nodenext><nodeprev spaces=" ">ncap2 netCDF Arithmetic Processor</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncatted</command> netCDF Attribute Editor</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1109">attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1110">attribute names</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1111">editing attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1113">attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1114">attribute names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1115">editing attributes</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="21" mergedindex="cp">ncatted</indexterm></findex>
<noindent></noindent>
@@ -12252,7 +12297,7 @@ netcdf-4.0 Final 2008/08/28&linebreak;
<noindent></noindent>
<para>DESCRIPTION
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1112"><command>ncattget</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1116"><command>ncattget</command></indexterm></cindex>
<para><command>ncatted</command> edits attributes in a netCDF file.
If you are editing attributes then you are spending too much time in the
world of metadata, and <command>ncatted</command> was written to get you back out as
@@ -12267,16 +12312,16 @@ To <emph>read</emph> attribute values in plain text, use <command>ncks -m -M</co
or define something like <command>ncattget</command> as a shell command
(<pxref label="Filters-for-ncks"><xrefnodename>Filters for <command>ncks</command></xrefnodename></pxref>).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1113"><code>history</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1114"><code>-h</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1117"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1118"><code>-h</code></indexterm></cindex>
<para>Because repeated use of <command>ncatted</command> can considerably increase the size
of the <code>history</code> global attribute (<pxref label="History-Attribute"><xrefnodename>History Attribute</xrefnodename></pxref>), the
<samp>-h</samp> switch is provided to override automatically appending the
command to the <code>history</code> global attribute in the <var>output-file</var>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1115">missing values</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1116">data, missing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1117"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1119">missing values</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1120">data, missing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1121"><code>_FillValue</code></indexterm></cindex>
<para>When <command>ncatted</command> is used to change the <code>_FillValue</code> attribute,
it changes the associated missing data self-consistently.
If the internal floating point representation of a missing value,
@@ -12304,10 +12349,10 @@ Example: <code>units</code>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="var">var_nm</itemformat></item>
</tableterm><tableitem><para>Variable name.
Example: <code>pressure</code>, <code>'^H2O'</code>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1118">extended regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1119">regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1120">pattern matching</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1121">wildcards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1122">extended regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1123">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1124">pattern matching</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1125">wildcards</indexterm></cindex>
Regular expressions (<pxref label="Subsetting-Files"><xrefnodename>Subsetting Files</xrefnodename></pxref>) are accepted and will
select any matching variable names.
The names <code>global</code> and <code>group</code> have special meaning.
@@ -12338,8 +12383,8 @@ If <var>att_nm</var> is omitted (i.e., left blank) and <dfn>Delete</dfn> mode is
selected, then all attributes associated with the specified variable
will be deleted.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1122">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1123">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1126">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1127">attributes, global</indexterm></cindex>
<para>The value of <var>var_nm</var> is the name of the variable containing the
attribute (named <var>att_nm</var>) that you want to edit.
There are three very important and useful exceptions to this rule.
@@ -12367,12 +12412,12 @@ conventions you use for describing the data.
<para>The value of <var>mode</var> is a single character abbreviation (<code>a</code>,
<code>c</code>, <code>d</code>, <code>m</code>, or <code>o</code>) standing for one of
five editing modes:&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1124">attributes, appending</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1125">attributes, creating</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1126">attributes, deleting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1127">attributes, modifying</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1128">attributes, editing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1129">attributes, overwriting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1128">attributes, appending</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1129">attributes, creating</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1130">attributes, deleting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1131">attributes, modifying</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1132">attributes, editing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1133">attributes, overwriting</indexterm></cindex>
</para><table commandarg="code" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="code">a </itemformat></item>
</tableterm><tableitem><para><dfn>Append</dfn>.
@@ -12492,15 +12537,15 @@ The quotes are strictly unnecessary around <var>att_val</var> except
when <var>att_val</var> contains characters which would confuse the calling
shell, such as spaces, commas, and wildcard characters.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1130">Perl</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1131"><acronym><acronymword>ASCII</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1134">Perl</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1135"><acronym><acronymword>ASCII</acronymword></acronym></indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> processing of <code>NC_CHAR</code> attributes is a bit like Perl in
that it attempts to do what you want by default (but this sometimes
causes unexpected results if you want unusual data storage).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1132"><code>printf()</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1133"><code>\n</code> (<acronym><acronymword>ASCII</acronymword></acronym> LF, linefeed)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1134">characters, special</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1135"><code>\t</code> (<acronym><acronymword>ASCII</acronymword></acronym> HT, horizontal tab)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1136"><code>printf()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1137"><code>\n</code> (<acronym><acronymword>ASCII</acronymword></acronym> LF, linefeed)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1138">characters, special</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1139"><code>\t</code> (<acronym><acronymword>ASCII</acronymword></acronym> HT, horizontal tab)</indexterm></cindex>
If the <var>att_type</var> is <code>NC_CHAR</code> then the argument is interpreted as a
string and it may contain C-language escape sequences, e.g., <code>\n</code>,
which <acronym><acronymword>NCO</acronymword></acronym> will interpret before writing anything to disk.
@@ -12514,27 +12559,27 @@ The most frequently used C-language escape sequences are <code>\n</code> (for
linefeed) and <code>\t</code> (for horizontal tab).
These sequences in particular allow convenient editing of formatted text
attributes.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1136"><code>\a</code> (<acronym><acronymword>ASCII</acronymword></acronym> BEL, bell)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1137"><code>\b</code> (<acronym><acronymword>ASCII</acronymword></acronym> BS, backspace)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1138"><code>\f</code> (<acronym><acronymword>ASCII</acronymword></acronym> FF, formfeed)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1139"><code>\r</code> (<acronym><acronymword>ASCII</acronymword></acronym> CR, carriage return)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1140"><code>\v</code> (<acronym><acronymword>ASCII</acronymword></acronym> VT, vertical tab)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1141"><code>\\</code> (<acronym><acronymword>ASCII</acronymword></acronym> \, backslash)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1140"><code>\a</code> (<acronym><acronymword>ASCII</acronymword></acronym> BEL, bell)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1141"><code>\b</code> (<acronym><acronymword>ASCII</acronymword></acronym> BS, backspace)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1142"><code>\f</code> (<acronym><acronymword>ASCII</acronymword></acronym> FF, formfeed)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1143"><code>\r</code> (<acronym><acronymword>ASCII</acronymword></acronym> CR, carriage return)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1144"><code>\v</code> (<acronym><acronymword>ASCII</acronymword></acronym> VT, vertical tab)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1145"><code>\\</code> (<acronym><acronymword>ASCII</acronymword></acronym> \, backslash)</indexterm></cindex>
The other valid <acronym><acronymword>ASCII</acronymword></acronym> codes are <code>\a</code>, <code>\b</code>, <code>\f</code>,
<code>\r</code>, <code>\v</code>, and <code>\\</code>.
<xref label="ncks-netCDF-Kitchen-Sink"><xrefnodename>ncks netCDF Kitchen Sink</xrefnodename></xref>, for more examples of string formatting
(with the <command>ncks</command> <samp>-s</samp> option) with special characters.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1142"><code>\'</code> (protected end quote)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1143"><code>\"</code> (protected double quote)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1144"><code>\?</code> (protected question mark)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1145"><code>\\</code> (protected backslash)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1146"><code>'</code> (end quote)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1147"><code>"</code> (double quote)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1148"><code>?</code> (question mark)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1149"><code>\</code> (backslash)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1150">special characters</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1151"><acronym><acronymword>ASCII</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1146"><code>\'</code> (protected end quote)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1147"><code>\"</code> (protected double quote)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1148"><code>\?</code> (protected question mark)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1149"><code>\\</code> (protected backslash)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1150"><code>'</code> (end quote)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1151"><code>"</code> (double quote)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1152"><code>?</code> (question mark)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1153"><code>\</code> (backslash)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1154">special characters</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1155"><acronym><acronymword>ASCII</acronymword></acronym></indexterm></cindex>
<para>Analogous to <code>printf</code>, other special characters are also allowed by
<command>ncatted</command> if they are "protected" by a backslash.
The characters <code>"</code>, <code>'</code>, <code>?</code>, and <code>\</code> may be
@@ -12546,11 +12591,11 @@ Backslashes which precede any other character (e.g., <code>3</code>, <code>m</co
<code>$</code>, <code>|</code>, <code>&</code>, <code>&arobase;</code>, <code>%</code>, <code>{</code>, and
<code>}</code>) will not be filtered and will be included in the attribute.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1152">strings</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1153">NUL-termination</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1154">NUL</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1155">C language</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1156"><code>0</code> (NUL)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1156">strings</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1157">NUL-termination</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1158">NUL</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1159">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1160"><code>0</code> (NUL)</indexterm></cindex>
<para>Note that the NUL character <code>\0</code> which terminates <w>C language</w>
strings is assumed and need not be explicitly specified.
<!-- comment If @code{\0} is input, it will not be translated (because it would -->
@@ -12590,9 +12635,9 @@ from whatever it currently is to "temperature":
<html endspaces=" ">
<a name="NaN"></a> <!&textndash; http://nco.sf.net/nco.html#NaN &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1157">NaN</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1158">IEEE NaN</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1159">Not-a-Number</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1161">NaN</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1162">IEEE NaN</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1163">Not-a-Number</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> arithmetic operators will not work as expected on IEEE
NaN (short for Not-a-Number) and NaN-like numbers such as positive
infinity and negative infinity.
@@ -12621,9 +12666,9 @@ variables in the file.
The values of <var>att_type</var> and <var>att_val</var> were left blank because
they are superfluous in <dfn>Delete</dfn> mode.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1160"><code>global</code> attribute</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1161">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1162">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1164"><code>global</code> attribute</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1165">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1166">attributes, global</indexterm></cindex>
<para>Delete all attributes associated with the <code>tpt</code> variable, and
delete all global attributes
</para><example endspaces=" ">
@@ -12635,13 +12680,13 @@ attributes associated with the variable.
To delete all global attributes, simply replace <code>tpt</code> with
<code>global</code> in the above.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1163"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1167"><code>units</code></indexterm></cindex>
<para>Modify all existing <code>units</code> attributes to "meter second-1":
</para><example endspaces=" ">
<pre xml:space="preserve">ncatted -a units,,m,c,"meter second-1" in.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1164"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1168"><code>units</code></indexterm></cindex>
<para>Add a <code>units</code> attribute of "kilogram kilogram-1" to all variables
whose first three characters are <samp>H2O</samp>:
</para><example endspaces=" ">
@@ -12654,10 +12699,10 @@ whose first three characters are <samp>H2O</samp>:
<pre xml:space="preserve">ncatted -O -a quanta,energy,o,s,"010,101,111,121" in.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1165">extended regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1166">regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1167">pattern matching</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1168">wildcards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1169">extended regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1170">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1171">pattern matching</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1172">wildcards</indexterm></cindex>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> 3.9.6 (January, 2009), <command>ncatted</command> accepts
<dfn>extended regular expressions</dfn> as arguments for variable names.
Create <code>isotope</code> attributes for all variables containing <samp>H2O</samp>
@@ -12667,7 +12712,7 @@ in their names.
</pre></example>
<para>See <ref label="Subsetting-Files"><xrefnodename>Subsetting Files</xrefnodename></ref> for more details.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1169">groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1173">groups</indexterm></cindex>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> 4.3.8 (November, 2013), <command>ncatted</command>
accepts full and partial group paths in names of attributes,
variables, dimensions, and groups.
@@ -12726,14 +12771,14 @@ omitted in batch scripts.
<findex index="fn" spaces=" "><indexterm index="fn" number="27" mergedindex="cp">ncmult</indexterm></findex>
<findex index="fn" spaces=" "><indexterm index="fn" number="28" mergedindex="cp">ncmultiply</indexterm></findex>
<findex index="fn" spaces=" "><indexterm index="fn" number="29" mergedindex="cp">ncdivide</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1170">binary operations</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1171">addition</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1172">subtraction</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1173">multiplication</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1174">adding data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1175">subtracting data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1176">multiplying data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1177">dividing data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1174">binary operations</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1175">addition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1176">subtraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1177">multiplication</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1178">adding data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1179">subtracting data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1180">multiplying data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1181">dividing data</indexterm></cindex>
<noindent></noindent>
<para>SYNTAX
@@ -12760,18 +12805,18 @@ variables).
One of the four standard arithmetic binary operations currently
supported must be selected with the <samp>-y <var>op_typ</var></samp> switch (or
long options <samp>--op_typ</samp> or <samp>--operation</samp>).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1178"><code>add</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1179"><code>subtract</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1180"><code>multiply</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1181"><code>divide</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1182"><code>+</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1183"><code>-</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1184"><code>*</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1185"><code>/</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1186"><code>-y <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1187"><code>--operation <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1188"><code>--op_typ <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1189">alternate invocations</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1182"><code>add</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1183"><code>subtract</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1184"><code>multiply</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1185"><code>divide</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1186"><code>+</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1187"><code>-</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1188"><code>*</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1189"><code>/</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1190"><code>-y <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1191"><code>--operation <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1192"><code>--op_typ <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1193">alternate invocations</indexterm></cindex>
The valid binary operations for <command>ncbo</command>, their definitions,
corresponding values of the <var>op_typ</var> key, and alternate invocations
are:
@@ -12802,12 +12847,12 @@ Examples: <samp>ncbo --op_typ=/ 1.nc 2.nc 3.nc</samp>, <samp>ncdivide 1.nc 2.nc
<para>Care should be taken when using the shortest form of key values,
i.e., <samp>+</samp>, <samp>-</samp>, <samp>*</samp>, <w>and <samp>/</samp></w>.
Some of these single characters may have special meanings to the shell
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1190">naked characters</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1194">naked characters</indexterm></cindex>
<footnote><para><w>A naked</w> (i.e., unprotected or unquoted) <samp>*</samp> is a
wildcard character.
<w>A naked</w> <samp>-</samp> may confuse the command line parser.
<w>A naked</w> <samp>+</samp> and <samp>/</samp> are relatively harmless.</para></footnote>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1191">Bash shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1195">Bash shell</indexterm></cindex>
Place these characters inside quotes to keep them from being interpreted
(globbed) by the shell
<footnote><para>The widely used shell Bash correctly interprets all these
@@ -12817,9 +12862,9 @@ the intended arithmetic operation when the following arguments are given
(without quotes) to <command>ncbo</command>:
<samp>--op_typ=+</samp>, <samp>--op_typ=-</samp>, <samp>--op_typ=*</samp>,
and <samp>--op_typ=/</samp></para></footnote>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1192">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1193">shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1194">quotes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1196">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1197">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1198">quotes</indexterm></cindex>
For example, the following commands are equivalent
</para><example endspaces=" ">
<pre xml:space="preserve">ncbo --op_typ=* 1.nc 2.nc 3.nc # Dangerous (shell may try to glob)
@@ -12835,9 +12880,9 @@ ncmultiply 1.nc 2.nc 3.nc # First do 'ln -s ncbo ncmultiply'
<para>No particular argument or invocation form is preferred.
Users are encouraged to use the forms which are most intuitive to them.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1195"><command>alias</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1196"><command>ln -s</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1197">symbolic links</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1199"><command>alias</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1200"><command>ln -s</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1201">symbolic links</indexterm></cindex>
<para>Normally, <command>ncbo</command> will fail unless an operation type is specified
with <samp>-y</samp> (equivalent to <samp>--op_typ</samp>).
You may create exceptions to this rule to suit your particular tastes,
@@ -12879,12 +12924,12 @@ This ensures portability of scripts between users and sites.
<html endspaces=" ">
<a name="brd_var"></a> <!&textndash; http://nco.sf.net/nco.html#brd_var &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1198">broadcasting variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1199">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1202">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1203">rank</indexterm></cindex>
<para><command>ncbo</command> operates (e.g., adds) variables in <var>file_2</var> with the
corresponding variables (those with the same name) in <var>file_1</var> and
stores the results in <var>file_3</var>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1200">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1204">broadcasting variables</indexterm></cindex>
Variables in <var>file_1</var> or <var>file_2</var> are <dfn>broadcast</dfn> to conform
to the corresponding variable in the other input file if
necessary<footnote spaces="\n"><para>Prior to <acronym><acronymword>NCO</acronymword></acronym> version 4.3.1 (May, 2013), <command>ncbo</command>
@@ -12907,12 +12952,12 @@ by copying data in existing dimensions.
For example, a two dimensional variable in <var>file_2</var> can be
subtracted from a four, three, or two (not one or zero)
dimensional variable (of the same name) in <code>file_1</code>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1201">anomalies</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1205">anomalies</indexterm></cindex>
This functionality allows the user to compute anomalies from the mean.
In the future, we will broadcast variables in <var>file_1</var>, if necessary
to conform to their counterparts in <var>file_2</var>.
<!-- c TODO #268 -->
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1202">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1206">rank</indexterm></cindex>
Thus, presently, the number of dimensions, or <dfn>rank</dfn>, of any
processed variable in <var>file_1</var> must be greater than or equal to the
rank of the same variable in <var>file_2</var>.
@@ -12932,8 +12977,8 @@ If <var>file_2</var> were created by averaging <var>file_1</var> over the
the <command>ncwa</command> operator, then <var>file_2</var> will have a <code>time</code>
dimension of <w>size 1</w> rather than having no <code>time</code> dimension at
all
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1203">degenerate dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1204"><samp>-b</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1207">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1208"><samp>-b</samp></indexterm></cindex>
<footnote><para>This is because <command>ncra</command> collapses the record dimension
to a size <w>of 1</w> (making it a <dfn>degenerate</dfn> dimension), but does
not remove it, while, unless <samp>-b</samp> is given, <command>ncwa</command> removes
@@ -12947,14 +12992,14 @@ To prevent this from occuring, use <command>ncwa</command> to remove the
<code>time</code> dimension from <var>file_2</var>.
See the example below.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1205">coordinate variable</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1206"><code>NC_CHAR</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1209">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1210"><code>NC_CHAR</code></indexterm></cindex>
<para><command>ncbo</command> never operates on coordinate variables or variables
of type <code>NC_CHAR</code> or <code>NC_STRING</code>.
This ensures that coordinates like (e.g., latitude and longitude) are
physically meaningful in the output file, <var>file_3</var>.
This behavior is hardcoded.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1207"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1211"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
<command>ncbo</command> applies special rules to some
<acronym><acronymword>CF</acronymword></acronym>-defined (and/or <acronym><acronymword>NCAR CCSM</acronymword></acronym> or <acronym><acronymword>NCAR CCM</acronymword></acronym>
fields) such as <code>ORO</code>.
@@ -12965,11 +13010,12 @@ As such, it also performs file subtraction, addition, multiplication,
albeit in a more convoluted way than <command>ncbo</command>.
</para>
<html endspaces=" ">
+<a name="grp_brd"></a> <!&textndash; http://nco.sf.net/nco.html#grp_brd &textndash;>
<a name="brd_grp"></a> <!&textndash; http://nco.sf.net/nco.html#brd_grp &textndash;>
<a name="gb"></a> <!&textndash; http://nco.sf.net/nco.html#gb &textndash;>
<a name="GB"></a> <!&textndash; http://nco.sf.net/nco.html#GB &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1208">broadcasting groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1212">broadcasting groups</indexterm></cindex>
<para>Beginning with <acronym><acronymword>NCO</acronymword></acronym> version 4.3.1 (May, 2013), <command>ncbo</command>
supports <dfn>group broadcasting</dfn>.
Group broadcasting means processing data based on group patterns in the
@@ -13004,8 +13050,8 @@ ncbo --op_typ='-' 86_0112.nc 85_0112.nc 86m85_0112.nc
<noindent></noindent>
<para>These commands are all different ways of expressing the same thing.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1209">broadcasting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1210">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1213">broadcasting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1214">rank</indexterm></cindex>
<para>The following examples demonstrate the broadcasting feature of
<command>ncbo</command>.
Say we wish to compute the monthly anomalies of <code>T</code> from the yearly
@@ -13052,7 +13098,7 @@ ncdiff 85_0112.nc 85_x.nc tx_anm_85_0112.nc
<code>time</code> and <code>lon</code>, and that <file>85_x.nc</file> has no <code>time</code>
or <code>lon</code> dimension.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1211">broadcasting groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1215">broadcasting groups</indexterm></cindex>
<para>Group broadcasting simplifies evaluation of multiple models against
observations.
Consider the input file <file>cmip5.nc</file> which contains multiple
@@ -13105,9 +13151,9 @@ one file, and use <command>ncra</command> to create the average anomaly for all
five Januarys.
These commands are embedded in a shell loop so they are repeated for all
twelve months:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1212">Bash Shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1213">Bourne Shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1214">C Shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1216">Bash Shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1217">Bourne Shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1218">C Shell</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">for idx in {1..12}; do # Bash Shell (version 3.0+)
idx=`printf "%02d" ${idx}` # Zero-pad to preserve order
@@ -13146,8 +13192,8 @@ seasonal cycle of the monthly anomalies:
</section>
<node name="nces-netCDF-Ensemble-Statistics" spaces=" "><nodename>nces netCDF Ensemble Statistics</nodename><nodenext spaces=" ">ncecat netCDF Ensemble Concatenator</nodenext><nodeprev spaces=" ">ncbo netCDF Binary Operator</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>nces</command> netCDF Ensemble Statistics</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1215">averaging data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1216">ensemble average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1219">averaging data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1220">ensemble average</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="30" mergedindex="cp">nces</indexterm></findex>
<noindent></noindent>
@@ -13177,7 +13223,7 @@ released December, 2013.
<acronym><acronymword>NCO</acronymword></acronym> will attempt to maintain back-compatibility and work
as expected with invocations of <command>ncea</command> for as long as possible.
Please replace <command>ncea</command> by <command>nces</command> in all future work.</para></footnote>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1217">ensemble</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1221">ensemble</indexterm></cindex>
For example, <command>nces</command> will average a set of files or groups,
weighting each file or group evenly.
This is distinct from <command>ncra</command>, which performs statistics only
@@ -13207,17 +13253,17 @@ the hypserslabs may (and usually do) change the size of the dimensions
from the input to the output files.
Prior to this, <command>nces</command> was only guaranteed to work on hyperslabs
in the record dimension that resolved to the same size.</para></footnote>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1218">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1219">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1222">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1223">hyperslab</indexterm></cindex>
<command>nces</command> does allow files to differ in the record dimension size
if the requested record hyperslab (<pxref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodename></pxref>) resolves to the
same size for all files.
<command>nces</command> recomputes the record dimension hyperslab limits for
each input file so that coordinate limits may be used to select equal
length timeseries from unequal length files.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1220"><acronym><acronymword>IPCC</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1221"><acronym><acronymword>AR4</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1222"><acronym><acronymword>CMIP</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1224"><acronym><acronymword>IPCC</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1225"><acronym><acronymword>AR4</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1226"><acronym><acronymword>CMIP</acronymword></acronym></indexterm></cindex>
This simplifies analysis of unequal length timeseries from simulation
ensembles (e.g., the <acronym><acronymword>CMIP3</acronymword></acronym> <acronym><acronymword>IPCC</acronymword></acronym> <acronym><acronymword>AR4</acronymword></acronym>
archive).
@@ -13227,12 +13273,12 @@ archive).
<a name="nsm_grp"></a> <!&textndash; http://nco.sf.net/nco.html#nsm_grp &textndash;>
<a name="nsm_sfx"></a> <!&textndash; http://nco.sf.net/nco.html#nsm_sfx &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1223"><code>--nsm_fl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1224"><code>--nsm_grp</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1225"><code>--ensemble_file</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1226"><code>--ensemble_group</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1227"><code>--nsm_sfx</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1228"><code>--ensemble_suffix</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1227"><code>--nsm_fl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1228"><code>--nsm_grp</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1229"><code>--ensemble_file</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1230"><code>--ensemble_group</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1231"><code>--nsm_sfx</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1232"><code>--ensemble_suffix</code></indexterm></cindex>
<para><command>nces</command> works in one of two modes, file ensembles
or group ensembles.
File ensembles are the default (equivalent to the old <command>ncea</command>)
@@ -13270,9 +13316,9 @@ nces --nsm_grp --nsm_sfx='_avg' mdl1.nc mdl2.nc mdl3.nc out.nc
<para><xref label="Statistics-vs_002e-Concatenation"><xrefnodename>Statistics vs. Concatenation</xrefnodename></xref>, for a description of the
distinctions between the statistics tools and concatenators.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1229">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1230">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1231"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1233">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1234">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1235"><code>stdin</code></indexterm></cindex>
As a multi-file operator, <command>nces</command> will read the list of
<var>input-files</var> from <code>stdin</code> if they are not specified
as positional arguments on the command line
@@ -13370,8 +13416,8 @@ member in the first file.
</section>
<node name="ncecat-netCDF-Ensemble-Concatenator" spaces=" "><nodename>ncecat netCDF Ensemble Concatenator</nodename><nodenext spaces=" ">ncflint netCDF File Interpolator</nodenext><nodeprev spaces=" ">nces netCDF Ensemble Statistics</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncecat</command> netCDF Ensemble Concatenator</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1232">concatenation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1233">ensemble concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1236">concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1237">ensemble concatenation</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="31" mergedindex="cp">ncecat</indexterm></findex>
<noindent></noindent>
@@ -13407,8 +13453,8 @@ subsetting simultaneously (<pxref label="Subsetting-Files"><xrefnodename>Subsett
<html endspaces=" ">
<a name="rag"></a> <!&textndash; http://nco.sf.net/nco.html#rag &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1234">record aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1235"><acronym><acronymword>RAG</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1238">record aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1239"><acronym><acronymword>RAG</acronymword></acronym></indexterm></cindex>
<para><acronym><acronymword>RAG</acronymword></acronym> makes each variable (except coordinate variables) in each
input file into a single record of the same variable in the output file.
Coordinate variables are not concatenated, they are instead simply
@@ -13421,27 +13467,27 @@ data.
The new record dimension is defined in the root group of the output file
so it is visible to all sub-groups.
Its name is, by default, &textldquo;record&textrdquo;.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1236">unlimited dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1237">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1238"><samp>-u <var>ulm_nm</var></samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1239"><samp>--ulm_nm <var>ulm_nm</var></samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1240"><samp>--rcd_nm <var>ulm_nm</var></samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1240">unlimited dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1241">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1242"><samp>-u <var>ulm_nm</var></samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1243"><samp>--ulm_nm <var>ulm_nm</var></samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1244"><samp>--rcd_nm <var>ulm_nm</var></samp></indexterm></cindex>
This default name can be overridden with the <samp>-u <var>ulm_nm</var></samp>
short option (or the <samp>--ulm_nm</samp> or <samp>rcd_nm</samp> long options).
</para>
<para>Each extracted variable must be constant in size and rank across all
<var>input-files</var>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1241">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1242">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1245">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1246">hyperslab</indexterm></cindex>
The only exception is that <command>ncecat</command> allows files to differ in
the record dimension size if the requested record hyperslab
(<pxref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodename></pxref>) resolves to the same size for all files.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1243"><acronym><acronymword>CMIP</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1247"><acronym><acronymword>CMIP</acronymword></acronym></indexterm></cindex>
This allows easier gluing/averaging of unequal length timeseries from
simulation ensembles (e.g., the <acronym><acronymword>CMIP</acronymword></acronym> rchive).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1244">fixed dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1245">fix record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1248">fixed dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1249">fix record dimension</indexterm></cindex>
<para>Classic (i.e., all netCDF3 and <code>NETCDF4_CLASSIC</code>) output files
can contain only one record dimension.
<command>ncecat</command> makes room for the new glue record dimension by
@@ -13454,8 +13500,8 @@ if any, of the input files as it copies them to the output file.
<html endspaces=" ">
<a name="gag"></a> <!&textndash; http://nco.sf.net/nco.html#gag &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1246">group aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1247"><acronym><acronymword>GAG</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1250">group aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1251"><acronym><acronymword>GAG</acronymword></acronym></indexterm></cindex>
<para><dfn>Group AGgregation</dfn> (<acronym><acronymword>GAG</acronymword></acronym>) stores <var>input-files</var> as
top-level groups in the <var>output-file</var>.
No assumption is made about the size or shape or type of a given
@@ -13464,7 +13510,7 @@ The entire contents of the extracted portion of each input file
is placed in its own top-level group in <var>output-file</var>, which
is automatically made as a netCDF4-format file.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1248"><option>--gag</option></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1252"><option>--gag</option></indexterm></cindex>
<para><acronym><acronymword>GAG</acronymword></acronym> has two methods to specify group names for the
<var>output-file</var>.
The <samp>-G</samp> option, or its long-option equivalent <samp>--gpe</samp>,
@@ -13493,17 +13539,17 @@ ncecat -G 85/ a.nc b.nc c.nc 8589.nc # Output groups 85/00, 85/01, 85/02
the sum of the sizes of the extracted variables in the input files.
<xref label="Statistics-vs_002e-Concatenation"><xrefnodename>Statistics vs. Concatenation</xrefnodename></xref>, for a description of the
distinctions between the various statistics tools and concatenators.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1249">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1250">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1251"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1253">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1254">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1255"><code>stdin</code></indexterm></cindex>
As a multi-file operator, <command>ncecat</command> will read the list of
<var>input-files</var> from <code>stdin</code> if they are not specified
as positional arguments on the command line
(<pxref label="Large-Numbers-of-Files"><xrefnodename>Large Numbers of Files</xrefnodename></pxref>).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1252"><code>-M</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1253"><code>--glb_mtd_spp</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1254">metadata, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1256"><code>-M</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1257"><code>--glb_mtd_spp</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1258">metadata, global</indexterm></cindex>
<para>Suppress global metadata copying.
By default <acronym><acronymword>NCO</acronymword></acronym>&textrsquo;s multi-file operators copy the global metadata
from the first input file into <var>output-file</var>.
@@ -13517,7 +13563,7 @@ metadata.
metadata via the <samp>-M</samp> switch (or its long option equivalents,
<samp>--glb_mtd_spp</samp> and <samp>--global_metadata_suppress</samp>).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1255">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1259">climate model</indexterm></cindex>
<para>Consider five realizations, <file>85a.nc</file>, <file>85b.nc</file>,
<w>&dots; <file>85e.nc</file></w> of 1985 predictions from the same climate
model.
@@ -13532,10 +13578,10 @@ Normally this means all the input files are the same size, and contain
data on different realizations of the same variables.
</para>
<findex index="fn" spaces=" "><indexterm index="fn" number="32" mergedindex="cp">ncpdq</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1256">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1257">unpacking</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1258"><code>add_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1259"><code>scale_factor</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1260">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1261">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1262"><code>add_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1263"><code>scale_factor</code></indexterm></cindex>
<para>Concatenating a variable packed with different scales across multiple
datasets is beyond the capabilities of <command>ncecat</command> (and
<command>ncrcat</command>, the other concatenator (<ref label="Concatenation"><xrefnodename>Concatenation</xrefnodename></ref>).
@@ -13596,10 +13642,10 @@ such descriptive coordinates are used.
<html endspaces=" ">
<a name="dmn_rcd_rm"></a> <!&textndash; http://nco.sf.net/nco.html#dmn_rcd_rm &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1260">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1261">fixed dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1262">fix record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1263"><code>--mk_rec_dmn <var>dim</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1264">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1265">fixed dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1266">fix record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1267"><code>--mk_rec_dmn <var>dim</var></code></indexterm></cindex>
<para>Consider a file with an existing record dimension named <code>time</code>.
and suppose the user wishes to convert <code>time</code> from a record
dimension to a non-record dimension.
@@ -13608,7 +13654,7 @@ record variable.
The simplest method is to use <samp>ncks --fix_rec_dmn</samp> but another
possibility is to use <command>ncecat</command> followed by
<command>ncwa</command>:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1264">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1268">degenerate dimension</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">ncecat in.nc out.nc # Convert time to non-record dimension
ncwa -a record in.nc out.nc # Remove new degenerate record dimension
@@ -13626,10 +13672,10 @@ of changing variable dimensionality, including the record dimension.
</section>
<node name="ncflint-netCDF-File-Interpolator" spaces=" "><nodename>ncflint netCDF File Interpolator</nodename><nodenext spaces=" ">ncks netCDF Kitchen Sink</nodenext><nodeprev spaces=" ">ncecat netCDF Ensemble Concatenator</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncflint</command> netCDF File Interpolator</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1265">interpolation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1266">adding data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1267">multiplying data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1268">addition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1269">interpolation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1270">adding data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1271">multiplying data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1272">addition</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="33" mergedindex="cp">ncflint</indexterm></findex>
<noindent></noindent>
@@ -13672,9 +13718,9 @@ $val3 = wgt1 \times val1 + wgt2 \times val2$
Here at least <var>wgt1</var>, and, optionally, <var>wgt2</var>, are specified on
the command line with the <samp>-w</samp> (or <samp>--weight</samp> or
<samp>--wgt_var</samp>) switch.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1269"><code>-w <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1270"><code>--weight <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1271"><code>--wgt_var <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1273"><code>-w <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1274"><code>--weight <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1275"><code>--wgt_var <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
If only <var>wgt1</var> is specified then <var>wgt2</var> is automatically
computed as <math><var>wgt2</var> = 1 − <var>wgt1</var></math>.
Note that weights larger <w>than 1</w> are allowed.
@@ -13693,7 +13739,7 @@ weights and adding together the results to produce the output values.
It makes sense to use this when the weights are known
<emph><w>a priori</w></emph>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1272">arrival value</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1276">arrival value</indexterm></cindex>
<para>Another class of problems has the <dfn>arrival value</dfn> (i.e., <var>val3</var>)
of a particular variable <var>var</var> known <emph><w>a priori</w></emph>.
In this case, the implied weights can always be inferred by examining
@@ -13716,7 +13762,7 @@ and <var>val3</var> with the <samp>-i</samp> option.
weights on all variables to generate the output file.
Although <var>var</var> may have any number of dimensions in the input
files, it must represent a single, scalar value.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1273">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1277">degenerate dimension</indexterm></cindex>
Thus any dimensions associated with <var>var</var> must be <dfn>degenerate</dfn>,
i.e., of size one.
</para>
@@ -13743,8 +13789,8 @@ in <acronym><acronymword>NCO</acronymword></acronym> version 4.2.6 (March, 2013)
It prevents <command>ncflint</command> from multiplying or interpolating any
coordinate variables, including record coordinate variables.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1274">missing values</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1275"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1278">missing values</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1279"><code>_FillValue</code></indexterm></cindex>
<para>Depending on your intuition, <command>ncflint</command> may treat missing values
unexpectedly.
Consider a point where the value in one input file, say <var>val1</var>,
@@ -13820,13 +13866,13 @@ together to make <file>tst.nc</file>:
<pre xml:space="preserve">ncflint -w 3,-2 85.nc 85.nc tst.nc
</pre></example>
<noindent></noindent>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1276">null operation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1280">null operation</indexterm></cindex>
<para>This is an example of a null operation, so <file>tst.nc</file> should be
identical (within machine precision) to <file>85.nc</file>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1277">multiplication</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1278">file multiplication</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1279">scaling</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1281">multiplication</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1282">file multiplication</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1283">scaling</indexterm></cindex>
<para>Multiply all the variables except the coordinate variables in the file
<file>emissions.nc</file> by <w>by 0.8</w>:
</para><example endspaces=" ">
@@ -13846,14 +13892,14 @@ ncdiff 85.nc 86.nc 85m86.nc
<noindent></noindent>
<para>Thus <command>ncflint</command> can be used to mimic some <command>ncbo</command>
operations.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1280">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1284">broadcasting variables</indexterm></cindex>
However this is not a good idea in practice because <command>ncflint</command>
does not broadcast (<pxref label="ncbo-netCDF-Binary-Operator"><xrefnodename>ncbo netCDF Binary Operator</xrefnodename></pxref>) conforming
variables during arithmetic.
Thus the final two commands would produce identical results except that
<command>ncflint</command> would fail if any variables needed to be broadcast.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1281"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1285"><code>units</code></indexterm></cindex>
<para>Rescale the dimensional units of the surface pressure <code>prs_sfc</code>
from Pascals to hectopascals (millibars)
</para><example endspaces=" ">
@@ -13869,9 +13915,9 @@ ncatted -a units,prs_sfc,o,c,millibar out.nc
</section>
<node name="ncks-netCDF-Kitchen-Sink" spaces=" "><nodename>ncks netCDF Kitchen Sink</nodename><nodenext spaces=" ">ncpdq netCDF Permute Dimensions Quickly</nodenext><nodeprev spaces=" ">ncflint netCDF File Interpolator</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncks</command> netCDF Kitchen Sink</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1282">kitchen sink</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1283">printing files contents</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1284">printing variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1286">kitchen sink</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1287">printing files contents</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1288">printing variables</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="34" mergedindex="cp">ncks</indexterm></findex>
<noindent></noindent>
@@ -13891,7 +13937,7 @@ ncatted -a units,prs_sfc,o,c,millibar out.nc
<noindent></noindent>
<para>DESCRIPTION
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1285"><command>ncextr</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1289"><command>ncextr</command></indexterm></cindex>
<para>The nickname &textldquo;kitchen sink&textrdquo; is a catch-all because <command>ncks</command>
combines most features of <command>ncdump</command> and <command>nccopy</command> with
extra features to extract, hyperslab, multi-slab, sub-set, and translate
@@ -13920,8 +13966,8 @@ including <acronym><acronymword>CDL</acronymword></acronym> and <acronym><acrony
<samp>-s</samp>, <samp>-u</samp>, <samp>--xml</samp> (and their long option counterparts)
control the formatted appearance of the data.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1286">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1287">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1290">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1291">attributes, global</indexterm></cindex>
<para><command>ncks</command> extracts (and optionally creates a new netCDF file
comprised of) only selected variables from the input file
(similar to the old <command>ncextr</command> specification).
@@ -13938,8 +13984,8 @@ Input dimensions that are not associated with any output variable do
not appear in the output netCDF.
This feature removes superfluous dimensions from netCDF files.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1288">appending data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1289">merging files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1292">appending data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1293">merging files</indexterm></cindex>
<para><command>ncks</command> will append variables and attributes from the
<var>input-file</var> to <var>output-file</var> if <var>output-file</var> is a
pre-existing netCDF file whose relevant dimensions conform to dimension
@@ -13966,8 +14012,8 @@ with the members of <var>output-file</var> then it will be added to
<var>output-file</var>.
In this case the relevant dimensions must agree (conform) between the
two files; new dimensions are created in <var>output-file</var> as required.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1290">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1291">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1294">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1295">attributes, global</indexterm></cindex>
When a name conflict occurs, a global attribute from <var>input-file</var>
will overwrite the corresponding global attribute from
<var>output-file</var>.
@@ -14016,7 +14062,7 @@ Features common to many operators are described in
<html endspaces=" ">
<a name="-5"></a> <!&textndash; http://nco.sf.net/nco.html#-5 &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1292"><code>-5</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1296"><code>-5</code></indexterm></cindex>
</beforefirstitem><tableentry><tableterm><item spaces=" "><itemformat command="samp">-5 </itemformat></item>
</tableterm><tableitem><para>Print data to screen alphabetically by group, and alphabetically by
variable within each group.
@@ -14025,11 +14071,11 @@ and may be selected for traditional mode printing with <samp>-5</samp>
(The switch for invocation may change to something more descriptive in
the future).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1293">alphabetization</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1294">sort alphabetically</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1295"><code>-a</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1296"><code>--abc</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1297"><code>--alphabetize</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1297">alphabetization</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1298">sort alphabetically</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1299"><code>-a</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1300"><code>--abc</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1301"><code>--alphabetize</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-a</itemformat></item>
</tableterm><tableitem><para>Do not alphabetize extracted fields.
By default, the specified output variables are extracted, printed, and
@@ -14042,11 +14088,11 @@ file.
Thus <code>-a</code> retains the original ordering of the variables.
Also <samp>--abc</samp> and <samp>--alphabetize</samp>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1298">binary format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1299"><code>-b</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1300"><code>--fl_bnr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1301"><code>--bnr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1302"><code>--binary</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1302">binary format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1303"><code>-b</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1304"><code>--fl_bnr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1305"><code>--bnr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1306"><code>--binary</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-b <file>file</file></itemformat></item>
</tableterm><tableitem><para>Activate native machine binary output writing to binary file
<file>file</file>.
@@ -14057,10 +14103,10 @@ Writing packed variables in binary format is not supported.
<a name="dmn_fix_mk"></a> <!&textndash; http://nco.sf.net/nco.html#dmn_fix_mk &textndash;>
<a name="fix_rec_dmn"></a> <!&textndash; http://nco.sf.net/nco.html#fix_rec_dmn &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1303">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1304">fixed dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1305"><code>--fix_rec_dmn <var>dim</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1306"><code>--no_rec_dmn <var>dim</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1307">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1308">fixed dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1309"><code>--fix_rec_dmn <var>dim</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1310"><code>--no_rec_dmn <var>dim</var></code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">--fix_rec_dmn</itemformat></item>
</tableterm><tableitem><para>Change record dimension <var>dim</var> in the input file into a fixed
dimension in the output file.
@@ -14092,18 +14138,18 @@ limited to at most one record dimension) (<pxref label="Group-Path-Editing"><xre
<a name="hdn"></a> <!&textndash; http://nco.sf.net/nco.html#hdn &textndash;>
<a name="hidden"></a> <!&textndash; http://nco.sf.net/nco.html#hidden &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1307">hidden attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1308">special attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1309"><code>--hdn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1310"><code>--hidden</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1311"><code>_Format</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1312"><code>_DeflateLevel</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1313"><code>_Shuffle</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1314"><code>_Storage</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1315"><code>_ChunkSizes</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1316"><code>_Endianness</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1317"><code>_Fletcher32</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1318"><code>_NOFILL</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1311">hidden attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1312">special attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1313"><code>--hdn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1314"><code>--hidden</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1315"><code>_Format</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1316"><code>_DeflateLevel</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1317"><code>_Shuffle</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1318"><code>_Storage</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1319"><code>_ChunkSizes</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1320"><code>_Endianness</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1321"><code>_Fletcher32</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1322"><code>_NOFILL</code></indexterm></cindex>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> version 4.4.0 (January, 2014), the <samp>--hdn</samp>
or <samp>--hidden</samp> options print hidden (aka special) attributes.
This is equivalent to <samp>ncdump -s</samp>.
@@ -14124,15 +14170,15 @@ detailed descriptions of the meanings of these attributes.
<a name="hncgen"></a> <!&textndash; http://nco.sf.net/nco.html#hncgen &textndash;>
<a name="ncgen-hdf"></a> <!&textndash; http://nco.sf.net/nco.html#ncgen-hdf &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1319"><command>hdp</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1320"><command>ncgen</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1321"><command>ncgen-hdf</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1322"><command>hncgen</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1323"><command>ncdump</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1324"><code>--cdl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1325"><acronym><acronymword>CDL</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1326"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1327"><acronym><acronymword>HDF4</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1323"><command>hdp</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1324"><command>ncgen</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1325"><command>ncgen-hdf</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1326"><command>hncgen</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1327"><command>ncdump</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1328"><code>--cdl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1329"><acronym><acronymword>CDL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1330"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1331"><acronym><acronymword>HDF4</acronymword></acronym></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">--cdl </itemformat></item>
</tableterm><tableitem><para>As of <acronym><acronymword>NCO</acronymword></acronym> version 4.3.3 (July, 2013), <command>ncks</command> can
print extracted data and metadata to screen (i.e., <code>stdout</code>) as
@@ -14173,7 +14219,7 @@ into an <acronym><acronymword>HDF</acronymword></acronym> file:
<pre xml:space="preserve">/usr/hdf4/bin/ncgen -b -o ~/in.hdf ~/in.cdl # HDF ncgen (local builds)
/usr/bin/hncgen -b -o ~/in.hdf ~/in.cdl # Same as HDF ncgen (RPM packages?)
/usr/bin/ncgen-hdf -b -o ~/in.hdf ~/in.cdl # Same as HDF ncgen (Debian packages?)
-hdp dumpsds ~/in.hdf # ncdump-equivalent for HDF4 files
+hdp dumpsds ~/in.hdf # ncdump/h5dump-equivalent for HDF4
</pre></example>
<para>Note that <acronym><acronymword>HDF4</acronymword></acronym> does not support netCDF-style groups, so the
above commands fail when the input file contains groups.
@@ -14186,10 +14232,10 @@ name installed, is not robust and can fail on valid netCDF3
<a name="dmn_rec_mk"></a> <!&textndash; http://nco.sf.net/nco.html#dmn_rec_mk &textndash;>
<a name="mk_rec_dmn"></a> <!&textndash; http://nco.sf.net/nco.html#mk_rec_dmn &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1328">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1329">fixed dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1330">fix record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1331"><code>--mk_rec_dmn <var>dim</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1332">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1333">fixed dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1334">fix record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1335"><code>--mk_rec_dmn <var>dim</var></code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">--mk_rec_dmn <var>dim</var></itemformat></item>
</tableterm><tableitem><para>Change existing dimension <var>dim</var> to a record dimension in the output file.
This is the most straightforward way of changing a dimension to a/the
@@ -14201,9 +14247,9 @@ changing variable dimensionality, including the record dimension.
<html endspaces=" ">
<a name="prn"></a> <!&textndash; http://nco.sf.net/nco.html#prn &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1332"><code>-H</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1333"><code>--data</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1334"><code>--hieronymus</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1336"><code>-H</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1337"><code>--data</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1338"><code>--hieronymus</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-H </itemformat></item>
</tableterm><tableitem><para>Turn-on printing to screen or turn-off copying data (not metadata).
Also activated using <samp>--print</samp> or <samp>--prn</samp>.
@@ -14259,10 +14305,10 @@ lat[0]=90 lev[0]=1000 lon[2]=180 three_dmn_var[2]=22
lat[0]=90 lev[0]=1000 lon[3]=270 three_dmn_var[3]=23
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1335"><code>-M</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1336"><code>--Mtd</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1337"><code>--Metadata</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1338">metadata, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1339"><code>-M</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1340"><code>--Mtd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1341"><code>--Metadata</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1342">metadata, global</indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-M</itemformat></item>
</tableterm><tableitem><para>Turn-on printing to screen or turn-off copying global and group metadata.
This includes file summary information and global and group attributes.
@@ -14313,20 +14359,20 @@ ncks -A -M -m -v one in.nc out.nc # Append GAs not VAs
<para>where <code>VAs</code> and <code>GAs</code> denote variable and group/global
attributes, respectively.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1339"><command>ncdump</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1340"><code>-m</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1341"><code>--mtd</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1342"><code>--metadata</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1343">metadata</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1343"><command>ncdump</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1344"><code>-m</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1345"><code>--mtd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1346"><code>--metadata</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1347">metadata</indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-m</itemformat></item>
</tableterm><tableitem><para>Turn-on printing to screen or turn-off copying variable metadata.
Using <samp>-m</samp> will print variable metadata to screen (similar to
<kbd>ncdump -h</kbd>).
This displays all metadata pertaining to each variable, one variable
at a time.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1344">chunking</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1345">compression</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1346">deflation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1348">chunking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1349">compression</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1350">deflation</indexterm></cindex>
This includes information on the storage properties of the variable,
such as whether it employs chunking, compression, or packing.
Also activated using <samp>--mtd</samp> and <samp>--metadata</samp>.
@@ -14337,11 +14383,11 @@ specified.
Also use <samp>-m</samp> to turn-off copying of variable metadata to an output
file.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1347"><code>--no_blank</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1348"><code>--noblank</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1349"><code>--no-blank</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1350">blank</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1351">missing values</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1351"><code>--no_blank</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1352"><code>--noblank</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1353"><code>--no-blank</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1354">blank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1355">missing values</indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">--no_blank</itemformat></item>
</tableterm><tableitem><para>Print numeric representation of missing values.
As of <acronym><acronymword>NCO</acronymword></acronym>
@@ -14351,9 +14397,9 @@ To enable the old behavior of printing the numeric representation of
missing values (e.g., <code>1.0e36</code>), use the <samp>--no_blank</samp> switch.
Also activated using <samp>--noblank</samp> or <samp>--no-blank</samp>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1352"><code>-P</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1353"><code>--print</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1354"><code>--prn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1356"><code>-P</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1357"><code>--print</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1358"><code>--prn</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-P </itemformat></item>
</tableterm><tableitem><para>Print data, metadata, and units to screen.
The <samp>-P</samp> switch is a convenience abbreviation for
@@ -14361,7 +14407,7 @@ The <samp>-P</samp> switch is a convenience abbreviation for
Also activated using <samp>--print</samp> or <samp>--prn</samp>.
This set of switches is useful for exploring file contents.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1355"><code>-Q</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1359"><code>-Q</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-Q </itemformat></item>
</tableterm><tableitem><para>Toggle printing of dimension indices and coordinate values when printing
arrays.
@@ -14369,9 +14415,9 @@ Each variable&textrsquo;s name appears flush left in the output.
This helps locate specific variables in lists with many variables and
different dimensions.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1356"><code>-q</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1357"><code>--quiet</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1358">quiet</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1360"><code>-q</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1361"><code>--quiet</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1362">quiet</indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-q </itemformat></item>
</tableterm><tableitem><para>Turn off all printing to screen.
This overrides the setting of all print-related switches, equivalent to
@@ -14382,18 +14428,18 @@ This allows <command>ncks</command> to retrieve remote files without
automatically trying to print them.
Also <samp>--quiet</samp>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1359"><code>-s</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1360"><code>--string</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1361"><code>--sng_fmt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1362"><code>printf()</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1363">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1363"><code>-s</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1364"><code>--string</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1365"><code>--sng_fmt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1366"><code>printf()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1367">C language</indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-s <var>format</var></itemformat></item>
</tableterm><tableitem><para>String format for text output.
Accepts <w>C language</w> escape sequences and <code>printf()</code> formats.
Also <samp>--string</samp> and <samp>--sng_fmt</samp>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1364"><code>-u</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1365"><code>--units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1368"><code>-u</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1369"><code>--units</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-u </itemformat></item>
</tableterm><tableitem><para>Toggle the printing of a variable&textrsquo;s <code>units</code> attribute, if any,
with its values.
@@ -14403,11 +14449,11 @@ Also <samp>--units</samp>.
<a name="xml"></a> <!&textndash; http://nco.sf.net/nco.html#xml &textndash;>
<a name="ncmnl"></a> <!&textndash; http://nco.sf.net/nco.html#ncml &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1366"><code>--xml</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1367"><code>--ncml</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1368"><command>ncdump</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1369"><acronym><acronymword>XML</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1370"><acronym><acronymword>NcML</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1370"><code>--xml</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1371"><code>--ncml</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1372"><command>ncdump</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1373"><acronym><acronymword>XML</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1374"><acronym><acronymword>NcML</acronymword></acronym></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">--xml, --ncml</itemformat></item>
</tableterm><tableitem><para>As of <acronym><acronymword>NCO</acronymword></acronym> version 4.3.3 (July, 2013), <command>ncks</command> can
print extracted metadata to screen (i.e., <code>stdout</code>) as
@@ -14446,10 +14492,10 @@ comparison to output from Unidata&textrsquo;s <command>toolsUI</command> Java pr
Please let us know how to improve <acronym><acronymword>XML</acronymword></acronym>/<acronym><acronymword>NcML</acronymword></acronym>
features.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1371"><code>--xml_no_location</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1372"><code>--xml_spr_chr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1373"><code>--xml_spr_nmr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1374">separator</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1375"><code>--xml_no_location</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1376"><code>--xml_spr_chr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1377"><code>--xml_spr_nmr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1378">separator</indexterm></cindex>
<para><command>ncks</command> provides additional options to configure <acronym><acronymword>NcML</acronymword></acronym>
output: <samp>--xml_no_location</samp>, <samp>--xml_spr_chr</samp>, and
<samp>--xml_spr_nmr</samp>.
@@ -14525,25 +14571,25 @@ include an NcML formatting characters (e.g., commas, angles, quotes).
</unnumberedsubsec>
<node name="Filters-for-ncks" spaces=" "><nodename>Filters for <command>ncks</command></nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">ncks netCDF Kitchen Sink</nodeprev><nodeup spaces=" ">ncks netCDF Kitchen Sink</nodeup></node>
<subsection spaces=" "><sectiontitle>Filters for <command>ncks</command></sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1375"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1376"><command>ncattget</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1377"><command>ncavg</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1378"><command>ncdmnsz</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1379"><command>nclist</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1380"><command>ncmax</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1381"><command>ncmdn</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1382"><command>ncmin</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1383"><command>ncrecsz</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1384"><command>ncrng</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1385"><command>ncunits</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1386"><file>.bashrc</file></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1387">filters</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1388">alias</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1389">shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1390">Bash shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1391">Csh shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1392">Sh shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1393"><command>bash</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1379"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1380"><command>ncattget</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1381"><command>ncavg</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1382"><command>ncdmnsz</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1383"><command>nclist</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1384"><command>ncmax</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1385"><command>ncmdn</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1386"><command>ncmin</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1387"><command>ncrecsz</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1388"><command>ncrng</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1389"><command>ncunits</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1390"><file>.bashrc</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1391">filters</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1392">alias</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1393">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1394">Bash shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1395">Csh shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1396">Sh shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1397"><command>bash</command></indexterm></cindex>
<para>We encourage the use of standard <acronym><acronymword>UNIX</acronymword></acronym> pipes and filters to
narrow the verbose output of <command>ncks</command> into more precise targets.
For example, to obtain an uncluttered listing of the variables in a file
@@ -14668,12 +14714,12 @@ conventions:
<para>Now the file <file>out.nc</file> contains all the data from <file>in.nc</file>.
There are, however, two differences between <file>in.nc</file> and
<file>out.nc</file>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1394"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1398"><code>history</code></indexterm></cindex>
First, the <code>history</code> global attribute (<pxref label="History-Attribute"><xrefnodename>History Attribute</xrefnodename></pxref>)
will contain the command used to create <file>out.nc</file>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1395">alphabetize output</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1396">sort alphabetically</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1397"><code>-a</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1399">alphabetize output</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1400">sort alphabetically</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1401"><code>-a</code></indexterm></cindex>
Second, the variables in <file>out.nc</file> will be defined in alphabetical
order.
Of course the internal storage of variable in a netCDF file should be
@@ -14683,16 +14729,16 @@ is useful (see description of <code>-a</code> switch).
<html endspaces=" ">
<a name="xmp_att_glb_cpy"></a> <!&textndash; http://nco.sf.net/nco.html#xmp_att_glb_cpy &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1398">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1399">attributes, global</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1400">subsetting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1401">exclusion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1402">extraction</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1403"><code>-v <var>var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1404"><code>--variable <var>var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1405"><code>-x</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1406"><code>--exclude</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1407"><code>--xcl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1402">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1403">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1404">subsetting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1405">exclusion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1406">extraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1407"><code>-v <var>var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1408"><code>--variable <var>var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1409"><code>-x</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1410"><code>--exclude</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1411"><code>--xcl</code></indexterm></cindex>
<para>Copy all global attributes (and no variables) from <file>in.nc</file> to
<file>out.nc</file>:
</para><example endspaces=" ">
@@ -14703,10 +14749,10 @@ list (<pxref label="Subsetting-Files"><xrefnodename>Subsetting Files</xrefnodena
Since no extraction list is explicitly specified (with <samp>-v</samp>),
the default is to extract all variables.
The complement of all variables is no variables.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1408"><code>-A</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1409"><code>--apn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1410"><code>--append</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1411">appending to files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1412"><code>-A</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1413"><code>--apn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1414"><code>--append</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1415">appending to files</indexterm></cindex>
Without any variables to extract, the append (<samp>-A</samp>) command
(<pxref label="Appending-Variables"><xrefnodename>Appending Variables</xrefnodename></pxref>) has only to extract and copy
(i.e., append) global attributes to the output file.
@@ -14734,9 +14780,9 @@ ncks -A -C -H -v one,three_dmn_rec_var ~/in2.nc ~/out.nc
<para>Variables in <file>out.nc</file> now contain data (not metadata) from
<file>in.nc</file> and metadata (not data) from <file>in2.nc</file>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1412"><code>printf()</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1413"><code>\n</code> (linefeed)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1414"><code>\t</code> (horizontal tab)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1416"><code>printf()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1417"><code>\n</code> (linefeed)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1418"><code>\t</code> (horizontal tab)</indexterm></cindex>
<para>Print variable <code>three_dmn_var</code> from file <file>in.nc</file> with
default notations.
Next print <code>three_dmn_var</code> as an un-annotated text column.
@@ -14795,13 +14841,13 @@ multidimensional arrays of characters representing fixed length strings
<pre xml:space="preserve">ncks -s '%c' -v fl_nm_arr in.nc
</pre></example>
<noindent></noindent>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1415"><code>core dump</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1419"><code>core dump</code></indexterm></cindex>
<para>Using the <code>%s</code> format code on strings which are not NUL-terminated
(and thus not technically strings) is likely to result in a core dump.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1416">subsetting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1417">exclusion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1418">extraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1420">subsetting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1421">exclusion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1422">extraction</indexterm></cindex>
<para>Create netCDF <file>out.nc</file> containing all variables, and any associated
coordinates, except variable <code>time</code>, from netCDF <file>in.nc</file>:
</para><example endspaces=" ">
@@ -14858,7 +14904,7 @@ decimal point <xref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodename></
-d lev,1000.0 in.nc out.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1419">wrapped coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1423">wrapped coordinates</indexterm></cindex>
<para>Assume the domain of the monotonically increasing longitude coordinate
<code>lon</code> is <math>0 < <var>lon</var> < 360</math>.
Here, <code>lon</code> is an example of a wrapped coordinate.
@@ -14883,13 +14929,13 @@ the easternmost longitude as <var>max</var>, as follows:
<findex index="fn" spaces=" "><indexterm index="fn" number="35" mergedindex="cp">ncpdq</indexterm></findex>
<findex index="fn" spaces=" "><indexterm index="fn" number="36" mergedindex="cp">ncpack</indexterm></findex>
<findex index="fn" spaces=" "><indexterm index="fn" number="37" mergedindex="cp">ncunpack</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1420">reshape variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1421">permute dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1422">reverse dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1423">re-order dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1424">re-dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1425">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1426">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1424">reshape variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1425">permute dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1426">reverse dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1427">re-order dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1428">re-dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1429">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1430">unpacking</indexterm></cindex>
<noindent></noindent>
<para>SYNTAX
@@ -14914,10 +14960,10 @@ fashion with a minimum of time and memory.
The <dfn>pdq</dfn> may stand for &textldquo;Permute Dimensions Quickly&textrdquo;,
&textldquo;Pack Data Quietly&textrdquo;, &textldquo;Pillory Dan Quayle&textrdquo;, or other silly uses.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1427"><code>add_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1428"><code>scale_factor</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1429"><command>ncap2</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1430">packing policy</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1431"><code>add_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1432"><code>scale_factor</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1433"><command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1434">packing policy</indexterm></cindex>
<unnumberedsubsec spaces=" "><sectiontitle>Packing and Unpacking Functions</sectiontitle>
<para>The <command>ncpdq</command> packing (and unpacking) algorithms are described
in <ref label="Methods-and-functions"><xrefnodename>Methods and functions</xrefnodename></ref>, and are also implemented in
@@ -14925,10 +14971,10 @@ in <ref label="Methods-and-functions"><xrefnodename>Methods and functions</xrefn
<command>ncpdq</command> extends the functionality of these algorithms by
providing high level control of the <dfn>packing policy</dfn> so that
users can consistently pack (and unpack) entire files with one command.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1431"><var>pck_plc</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1432"><code>-P <var>pck_plc</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1433"><code>--pck_plc <var>pck_plc</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1434"><code>--pack_policy <var>pck_plc</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1435"><var>pck_plc</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1436"><code>-P <var>pck_plc</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1437"><code>--pck_plc <var>pck_plc</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1438"><code>--pack_policy <var>pck_plc</var></code></indexterm></cindex>
The user specifies the desired packing policy with the <samp>-P</samp> switch
(or its long option equivalents, <samp>--pck_plc</samp> and
<samp>--pack_policy</samp>) and its <var>pck_plc</var> argument.
@@ -14993,9 +15039,9 @@ unlike <command>ncpdq</command>.
Similarly, <command>ncunpack</command> is a synonym for <command>ncpdq</command>
except that <command>ncpack</command> implicitly assumes a request to unpack,
i.e., <samp>-P pck_upk</samp>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1435"><code>-U</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1436"><code>--upk</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1437"><code>--unpack</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1439"><code>-U</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1440"><code>--upk</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1441"><code>--unpack</code></indexterm></cindex>
Finally, the <command>ncpdq</command> <samp>-U</samp> switch (or its long option
equivalents, <samp>--upk</samp> and <samp>--unpack</samp>) requires no argument.
It simply requests unpacking.
@@ -15010,20 +15056,20 @@ The following commands are equivalent for unpacking:
and <code>ncunpack</code>.
Equivalent commands for other packing policies, e.g., <samp>all_xst</samp>,
follow by analogy.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1438"><command>alias</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1439"><command>ln -s</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1440">symbolic links</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1442"><command>alias</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1443"><command>ln -s</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1444">symbolic links</indexterm></cindex>
Note that <command>ncpdq</command> synonyms are subject to the same constraints
and recommendations discussed in the secion on <command>ncbo</command> synonyms
(<pxref label="ncbo-netCDF-Binary-Operator"><xrefnodename>ncbo netCDF Binary Operator</xrefnodename></pxref>).
That is, symbolic links must exist from the synonym to <command>ncpdq</command>,
or else the user must define an <command>alias</command>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1441">packing map</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1442"><var>pck_map</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1443"><code>-M <var>pck_map</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1444"><code>--pck_map <var>pck_map</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1445"><code>--map <var>pck_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1445">packing map</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1446"><var>pck_map</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1447"><code>-M <var>pck_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1448"><code>--pck_map <var>pck_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1449"><code>--map <var>pck_map</var></code></indexterm></cindex>
<para>The <command>ncpdq</command> packing algorithms must know to which type
particular types of input variables are to be packed.
The correspondence between the input variable type and the output,
@@ -15032,22 +15078,22 @@ The user specifies the desired packing map with the <samp>-M</samp> switch
(or its long option equivalents, <samp>--pck_map</samp> and
<samp>--map</samp>) and its <var>pck_map</var> argument.
Five packing maps are currently implemented:&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1446"><samp>hgh_sht</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1447"><samp>hgh_byt</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1448"><samp>flt_sht</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1449"><samp>flt_byt</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1450"><samp>nxt_lsr</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1451"><code>NC_DOUBLE</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1452"><code>NC_FLOAT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1453"><code>NC_INT64</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1454"><code>NC_UINT64</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1455"><code>NC_INT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1456"><code>NC_UINT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1457"><code>NC_SHORT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1458"><code>NC_USHORT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1459"><code>NC_CHAR</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1460"><code>NC_BYTE</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1461"><code>NC_UBYTE</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1450"><samp>hgh_sht</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1451"><samp>hgh_byt</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1452"><samp>flt_sht</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1453"><samp>flt_byt</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1454"><samp>nxt_lsr</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1455"><code>NC_DOUBLE</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1456"><code>NC_FLOAT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1457"><code>NC_INT64</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1458"><code>NC_UINT64</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1459"><code>NC_INT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1460"><code>NC_UINT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1461"><code>NC_SHORT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1462"><code>NC_USHORT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1463"><code>NC_CHAR</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1464"><code>NC_BYTE</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1465"><code>NC_UBYTE</code></indexterm></cindex>
</para><table commandarg="dfn" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="dfn">Pack Floating Precisions to <code>NC_SHORT</code> [<emph>default</emph>]</itemformat></item>
</tableterm><tableitem><para>Definition: Pack floating precision types to <code>NC_SHORT</code>&linebreak;
@@ -15086,9 +15132,9 @@ file size by <w>about 50%.</w>
<samp>flt_byt</samp> packing reduces an <code>NC_DOUBLE</code>-dominated file by
<w>about 87%.</w>
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1462"><var>_FillValue</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1463"><code>_FillValue</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1464"><code>NUL</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1466"><var>_FillValue</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1467"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1468"><code>NUL</code></indexterm></cindex>
<para>The netCDF packing algorithm (<pxref label="Methods-and-functions"><xrefnodename>Methods and functions</xrefnodename></pxref>) is
lossy&textmdash;once packed, the exact original data cannot be recovered without
a full backup.
@@ -15126,16 +15172,16 @@ dimension list, e.g., <samp>-a -lat</samp>.
Re-ordering and reversal may be performed simultaneously, e.g.,
<samp>-a lon,-lat,time,-lev</samp>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1465">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1469">record dimension</indexterm></cindex>
<para>Users may specify any permutation of dimensions, including
permutations which change the record dimension identity.
The record dimension is re-ordered like any other dimension.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1466">concatenation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1467">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1470">concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1471">record dimension</indexterm></cindex>
This unique <command>ncpdq</command> capability makes it possible to concatenate
files along any dimension.
See <ref label="Concatenation"><xrefnodename>Concatenation</xrefnodename></ref> for a detailed example.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1468">record variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1472">record variable</indexterm></cindex>
The record dimension is always the most slowly varying dimension in a
record variable (<pxref label="C-and-Fortran-Index-Conventions"><xrefnodename>C and Fortran Index Conventions</xrefnodename></pxref>).
The specified re-ordering fails if it requires creating more than
@@ -15150,7 +15196,7 @@ variable.
To do this, include all the variable&textrsquo;s dimensions in the dimension
re-order list in their original order, and prefix each dimension name
with the negative sign.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1469">transpose</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1473">transpose</indexterm></cindex>
Second, it may useful to transpose a variable&textrsquo;s storage order, e.g.,
<w>from C</w> to Fortran data storage order
(<pxref label="C-and-Fortran-Index-Conventions"><xrefnodename>C and Fortran Index Conventions</xrefnodename></pxref>).
@@ -15271,9 +15317,9 @@ and the packing policy <var>pck_plc</var> as <samp>all_xst</samp>:
</para><example endspaces=" ">
<pre xml:space="preserve">ncpdq -P all_xst -M hgh_byt in.nc out.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1470">appending variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1471"><samp>-A</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1472"><samp>-v</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1474">appending variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1475"><samp>-A</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1476"><samp>-v</samp></indexterm></cindex>
<para>Many different packing maps may be used to construct a given file
by performing the packing on subsets of variables (e.g., with <samp>-v</samp>)
and using the append feature with <samp>-A</samp> (<pxref label="Appending-Variables"><xrefnodename>Appending Variables</xrefnodename></pxref>).
@@ -15281,8 +15327,8 @@ and using the append feature with <samp>-A</samp> (<pxref label="Appending-Varia
<para>Users may wish to unpack data packed with the <acronym><acronymword>HDF</acronymword></acronym> convention,
and then re-pack it with the netCDF convention so that all their
datasets use the same packing convention prior to intercomparison.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1473"><command>ncl_convert2nc</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1474"><acronym><acronymword>NCL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1477"><command>ncl_convert2nc</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1478"><acronym><acronymword>NCL</acronymword></acronym></indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve"># One-step procedure: For NCO 4.4.0+, netCDF 4.3.1+
# 1. Convert, unpack, and repack HDF file into netCDF file
@@ -15340,7 +15386,7 @@ ncpdq -v three_dmn_var -a lon,lat in.nc out.nc
The second command extracts and re-orders only the variable
<code>three_dmn_var</code>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1475">reverse dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1479">reverse dimensions</indexterm></cindex>
<para>Suppose the dimension <code>lat</code> represents latitude and monotonically
increases increases from south to north.
Reversing the <code>lat</code> dimension means re-ordering the data so that
@@ -15358,8 +15404,8 @@ lat[1]=-90
<para>This operation reversed the latitude dimension of all variables.
Whitespace immediately preceding the negative sign that specifies
dimension reversal may be dangerous.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1476">long options</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1477">quotes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1480">long options</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1481">quotes</indexterm></cindex>
Quotes and long options can help protect negative signs that should
indicate dimension reversal from being interpreted by the shell as
dashes that indicate new command line switches.
@@ -15370,7 +15416,7 @@ ncpdq -a lon,-lat in.nc out.nc # OK. No whitespace before "-"
ncpdq --rdr=-lat in.nc out.nc # Preferred. Uses "=" not whitespace
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1478">reverse dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1482">reverse dimensions</indexterm></cindex>
<para>To create the mathematical transpose of a variable, place all its
dimensions in the dimension re-order list in reversed order.
This example creates the transpose of <code>three_dmn_var</code>:
@@ -15394,7 +15440,7 @@ lon[3]=270 lev[2]=1000 lat[0]=-90 three_dmn_var[22]=11
lon[3]=270 lev[2]=1000 lat[1]=90 three_dmn_var[23]=23
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1479">reverse data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1483">reverse data</indexterm></cindex>
<para>To completely reverse the storage order of a variable, include
all its dimensions in the re-order list, each prefixed by a negative
sign.
@@ -15429,7 +15475,7 @@ has no existing record dimension is simple with <command>ncecat</command>:
<pre xml:space="preserve">ncecat -O -u time in.nc out.nc # Create degenerate record dimension named "time"
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1480">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1484">record dimension</indexterm></cindex>
<para>Now consider a file with all dimensions, including <code>time</code>, fixed
(non-record).
Suppose the user wishes to convert <code>time</code> from a fixed dimension to
@@ -15448,7 +15494,7 @@ a record dimension required three separate commands,
The recommended method is now to use <samp>ncks --fix_rec_dmn</samp>, yet it
is still instructive to present the original procedure, as it shows how
multiple operators can achieve the same ends by different means:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1481">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1485">degenerate dimension</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">ncecat -O in.nc out.nc # Add degenerate record dimension named "record"
ncpdq -O -a time,record out.nc out.nc # Switch "record" and "time"
@@ -15478,10 +15524,10 @@ changing variable dimensionality, including the record dimension.
</section>
<node name="ncra-netCDF-Record-Averager" spaces=" "><nodename>ncra netCDF Record Averager</nodename><nodenext spaces=" ">ncrcat netCDF Record Concatenator</nodenext><nodeprev spaces=" ">ncpdq netCDF Permute Dimensions Quickly</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncra</command> netCDF Record Averager</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1482">averaging data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1483">record average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1484">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1485">running average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1486">averaging data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1487">record average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1488">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1489">running average</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="38" mergedindex="cp">ncra</indexterm></findex>
<noindent></noindent>
@@ -15502,15 +15548,15 @@ changing variable dimensionality, including the record dimension.
</para>
<para><command>ncra</command> averages record variables across an arbitrary number of
<var>input-files</var>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1486">degenerate dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1487">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1490">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1491">record dimension</indexterm></cindex>
The record dimension is, by default, retained as a degenerate
<w>(size 1)</w> dimension in the output variables.
<xref label="Statistics-vs_002e-Concatenation"><xrefnodename>Statistics vs. Concatenation</xrefnodename></xref>, for a description of the
distinctions between the various statistics tools and concatenators.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1488">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1489">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1490"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1492">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1493">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1494"><code>stdin</code></indexterm></cindex>
As a multi-file operator, <command>ncra</command> will read the list of
<var>input-files</var> from <code>stdin</code> if they are not specified
as positional arguments on the command line
@@ -15519,10 +15565,10 @@ as positional arguments on the command line
<para>Input files may vary in size, but each must have a record dimension.
The record coordinate, if any, should be monotonic (or else non-fatal
warnings may be generated).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1491">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1495">hyperslab</indexterm></cindex>
Hyperslabs of the record dimension which include more than one file
work correctly.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1492">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1496">stride</indexterm></cindex>
<command>ncra</command> supports the <var>stride</var> argument to the <samp>-d</samp>
hyperslab option (<pxref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodename></pxref>) for the record dimension only,
<var>stride</var> is not supported for non-record dimensions.
@@ -15532,7 +15578,7 @@ hyperslab option (<pxref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodena
<command>ncra</command> does not attempt to see if, say, the <code>time</code>
coordinate is irregularly spaced and thus would require a weighted
average in order to be a true time average.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1493">operation types</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1497">operation types</indexterm></cindex>
<command>ncra</command> <emph>always averages</emph> coordinate variables regardless of
the arithmetic operation type performed on the non-coordinate variables.
(<pxref label="Operation-Types"><xrefnodename>Operation Types</xrefnodename></pxref>).
@@ -15545,10 +15591,10 @@ the arithmetic operation type performed on the non-coordinate variables.
</para>
<para>Average files <file>85.nc</file>, <file>86.nc</file>, <w>&dots; <file>89.nc</file></w>
along the record dimension, and store the results in <file>8589.nc</file>:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1494">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1495"><code>NINTAP</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1496">Processor</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1497"><acronym><acronymword>CCM</acronymword></acronym> Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1498">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1499"><code>NINTAP</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1500">Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1501"><acronym><acronymword>CCM</acronymword></acronym> Processor</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">ncra 85.nc 86.nc 87.nc 88.nc 89.nc 8589.nc
ncra 8[56789].nc 8589.nc
@@ -15558,7 +15604,7 @@ ncra -n 5,2,1 85.nc 8589.nc
<xref label="Specifying-Input-Files"><xrefnodename>Specifying Input Files</xrefnodename></xref>, for an explanation of the distinctions
between these methods.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1498">Fortran</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1502">Fortran</indexterm></cindex>
<para>Assume the files <file>85.nc</file>, <file>86.nc</file>, <w>&dots; <file>89.nc</file></w>
each contain a record coordinate <var>time</var> of length 12 defined such
that the third record in <file>86.nc</file> contains data from March 1986,
@@ -15572,7 +15618,7 @@ ncra -F -d time,12,14 85.nc 86.nc 87.nc 8512_8602.nc
<noindent></noindent>
<para>The file <file>87.nc</file> is superfluous, but does not cause an error.
The <samp>-F</samp> turns on the Fortran (1-based) indexing convention.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1499">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1503">stride</indexterm></cindex>
The following uses the <var>stride</var> option to average all the March
temperature data from multiple input files into a single output file
</para><example endspaces=" ">
@@ -15595,8 +15641,8 @@ averages June, 1985&textndash;June, 1989:
</section>
<node name="ncrcat-netCDF-Record-Concatenator" spaces=" "><nodename>ncrcat netCDF Record Concatenator</nodename><nodenext spaces=" ">ncrename netCDF Renamer</nodenext><nodeprev spaces=" ">ncra netCDF Record Averager</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncrcat</command> netCDF Record Concatenator</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1500">concatenation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1501">record concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1504">concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1505">record concatenation</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="39" mergedindex="cp">ncrcat</indexterm></findex>
<noindent></noindent>
@@ -15617,14 +15663,14 @@ averages June, 1985&textndash;June, 1989:
</para>
<para><command>ncrcat</command> concatenates record variables across an arbitrary
number of <var>input-files</var>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1502">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1506">record dimension</indexterm></cindex>
The final record dimension is by default the sum of the lengths of the
record dimensions in the input files.
<xref label="Statistics-vs_002e-Concatenation"><xrefnodename>Statistics vs. Concatenation</xrefnodename></xref>, for a description of the
distinctions between the various statistics tools and concatenators.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1503">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1504">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1505"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1507">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1508">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1509"><code>stdin</code></indexterm></cindex>
As a multi-file operator, <command>ncrcat</command> will read the list of
<var>input-files</var> from <code>stdin</code> if they are not specified
as positional arguments on the command line
@@ -15633,19 +15679,19 @@ as positional arguments on the command line
<para>Input files may vary in size, but each must have a record dimension.
The record coordinate, if any, should be monotonic (or else non-fatal
warnings may be generated).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1506">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1510">hyperslab</indexterm></cindex>
Hyperslabs along the record dimension that span more than one file are
handled correctly.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1507">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1511">stride</indexterm></cindex>
<command>ncra</command> supports the <var>stride</var> argument to the <samp>-d</samp>
hyperslab option for the record dimension only, <var>stride</var> is not
supported for non-record dimensions.
</para>
<findex index="fn" spaces=" "><indexterm index="fn" number="40" mergedindex="cp">ncpdq</indexterm></findex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1508">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1509">unpacking</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1510"><code>add_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1511"><code>scale_factor</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1512">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1513">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1514"><code>add_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1515"><code>scale_factor</code></indexterm></cindex>
<para>Concatenating a variable packed with different scales multiple datasets
is beyond the capabilities of <command>ncrcat</command> (and <command>ncecat</command>,
the other concatenator (<ref label="Concatenation"><xrefnodename>Concatenation</xrefnodename></ref>).
@@ -15662,7 +15708,7 @@ First, unpack the data using <command>ncpdq</command>.
Second, concatenate the unpacked data using <command>ncrcat</command>,
Third, re-pack the result with <command>ncpdq</command>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1512">ARM conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1516">ARM conventions</indexterm></cindex>
<para><command>ncrcat</command> applies special rules to <acronym><acronymword>ARM</acronymword></acronym> convention time
fields (e.g., <code>time_offset</code>).
See <ref label="ARM-Conventions"><xrefnodename>ARM Conventions</xrefnodename></ref> for a complete description.
@@ -15675,10 +15721,10 @@ See <ref label="ARM-Conventions"><xrefnodename>ARM Conventions</xrefnodename></r
</para>
<para>Concatenate files <file>85.nc</file>, <file>86.nc</file>, <w>&dots; <file>89.nc</file></w>
along the record dimension, and store the results in <file>8589.nc</file>:
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1513">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1514"><code>NINTAP</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1515">Processor</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1516"><acronym><acronymword>CCM</acronymword></acronym> Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1517">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1518"><code>NINTAP</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1519">Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1520"><acronym><acronymword>CCM</acronymword></acronym> Processor</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">ncrcat 85.nc 86.nc 87.nc 88.nc 89.nc 8589.nc
ncrcat 8[56789].nc 8589.nc
@@ -15689,7 +15735,7 @@ ncrcat -n 5,2,1 85.nc 8589.nc
<xref label="Specifying-Input-Files"><xrefnodename>Specifying Input Files</xrefnodename></xref>, for an explanation of the distinctions
between these methods.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1517">Fortran</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1521">Fortran</indexterm></cindex>
<para>Assume the files <file>85.nc</file>, <file>86.nc</file>, <w>&dots; <file>89.nc</file></w>
each contain a record coordinate <var>time</var> of <w>length 12</w> defined
such that the third record in <file>86.nc</file> contains data from March
@@ -15706,7 +15752,7 @@ When <command>ncra</command> and <command>ncrcat</command> encounter a file whic
contain any records that meet the specified hyperslab criteria, they
disregard the file and proceed to the next file without failing.
The <samp>-F</samp> turns on the Fortran (1-based) indexing convention.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1518">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1522">stride</indexterm></cindex>
</para>
<para>The following uses the <var>stride</var> option to concatenate all the March
temperature data from multiple input files into a single output file
@@ -15730,14 +15776,14 @@ concatenates June, 1985&textndash;June, 1989:
</section>
<node name="ncrename-netCDF-Renamer" spaces=" "><nodename>ncrename netCDF Renamer</nodename><nodenext spaces=" ">ncwa netCDF Weighted Averager</nodenext><nodeprev spaces=" ">ncrcat netCDF Record Concatenator</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncrename</command> netCDF Renamer</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1519">renaming variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1520">renaming groups</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1521">renaming dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1522">renaming attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1523">variable names</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1524">dimension names</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1525">attribute names</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1526">group names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1523">renaming variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1524">renaming groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1525">renaming dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1526">renaming attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1527">variable names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1528">dimension names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1529">attribute names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1530">group names</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="41" mergedindex="cp">ncrename</indexterm></findex>
<noindent></noindent>
@@ -15753,7 +15799,7 @@ concatenates June, 1985&textndash;June, 1989:
<noindent></noindent>
<para>DESCRIPTION
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1527"><kbd>.</kbd></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1531"><kbd>.</kbd></indexterm></cindex>
<para><command>ncrename</command> renames netCDF dimensions, variables, attributes, and
groups.
Each object that has a name in the list of old names is renamed using
@@ -15782,9 +15828,9 @@ The object name is the terminal path component of <var>new_name</var> and
this object must already exist in the group specified by the
<var>old_name</var> path.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1528">data safety</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1529">safeguards</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1530">temporary output files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1532">data safety</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1533">safeguards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1534">temporary output files</indexterm></cindex>
<para><command>ncrename</command> is an exception to the normal <acronym><acronymword>NCO</acronymword></acronym> rule that
the user will be interactively prompted before an existing file is
changed, and that a temporary copy of an output file is constructed
@@ -15804,10 +15850,10 @@ In this case, the named dependent variable must be one-dimensional and
should have no missing values.
Such a variable will become a coordinate variable.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1531">performance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1532">operator speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1533">speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1534">execution time</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1535">performance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1536">operator speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1537">speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1538">execution time</indexterm></cindex>
<para>According to the <cite>netCDF User Guide</cite>, renaming properties in
netCDF files does not incur the penalty of recopying the entire file
when the <var>new_name</var> is shorter than the <var>old_name</var>.
@@ -15821,9 +15867,9 @@ when the <var>new_name</var> is shorter than the <var>old_name</var>.
The old and new names of the attribute are specified with <samp>-a</samp>
(or <samp>--attribute</samp>) by the associated <var>old_name</var> and
<var>new_name</var> values.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1535"><code>global</code> attribute</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1536">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1537">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1539"><code>global</code> attribute</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1540">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1541">attributes, global</indexterm></cindex>
Global attributes are treated no differently than variable attributes.
This option may be specified more than once.
As mentioned above, all occurrences of the attribute of a given name
@@ -15903,7 +15949,7 @@ ncrename -v /g1/lon,/g1/longitude in_grp.nc # Alternate
<html endspaces=" ">
<a name="ncrename_crd"></a> <!&textndash; http://nco.sf.net/nco.html#ncrename_crd &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1538">coordinate variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1542">coordinate variables</indexterm></cindex>
<para><command>ncrename</command> does not automatically attach dimensions to variables of
the same name.
This is done to make renaming an easy way to change whether a variable
@@ -15938,10 +15984,10 @@ ncrename -O -d lat_T42,lat ~/foo.nc ~/foo2.nc # Also renames variable
version 4.3.1-rc5 or later, or convert the file to netCDF3 first,
then rename as intended, then convert back.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1539">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1540">attributes, global</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1541"><code>_FillValue</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1542"><code>missing_value</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1543">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1544">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1545"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1546"><code>missing_value</code></indexterm></cindex>
<para>Create netCDF <file>out.nc</file> identical to <file>in.nc</file> except the
attribute <code>_FillValue</code> is changed to <code>missing_value</code>,
the attribute <code>units</code> is changed to <code>CGS_units</code> (but only in
@@ -15994,10 +16040,10 @@ Variables not prefixed with a period (<code>global</code>) must be present.
</section>
<node name="ncwa-netCDF-Weighted-Averager" spaces=" "><nodename>ncwa netCDF Weighted Averager</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">ncrename netCDF Renamer</nodeprev><nodeup spaces=" ">Operator Reference Manual</nodeup></node>
<section spaces=" "><sectiontitle><command>ncwa</command> netCDF Weighted Averager</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1543">averaging data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1544">weighted average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1545">masked average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1546">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1547">averaging data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1548">weighted average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1549">masked average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1550">broadcasting variables</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="42" mergedindex="cp">ncwa</indexterm></findex>
<noindent></noindent>
@@ -16025,7 +16071,7 @@ The default behavior of <command>ncwa</command> is to arithmetically average
every numerical variable over all dimensions and to produce a scalar
result for each.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1547">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1551">degenerate dimension</indexterm></cindex>
<para>Averaged dimensions are, by default, eliminated as dimensions.
Their corresponding coordinates, if any, are output as scalar
variables.
@@ -16039,9 +16085,9 @@ concatenation along the degenerate dimension.
<para>To average variables over only a subset of their dimensions, specify
these dimensions in a comma-separated list following <samp>-a</samp>, e.g.,
<samp>-a time,lat,lon</samp>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1548">arithmetic operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1549">hyperslab</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1550"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1552">arithmetic operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1553">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1554"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>]]</code></indexterm></cindex>
As with all arithmetic operators, the operation may be restricted to
an arbitrary hypserslab by employing the <samp>-d</samp> option
(<pxref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodename></pxref>).
@@ -16056,20 +16102,20 @@ With these options, <command>ncwa</command> can compute sophisticated averages
<a name="-w"></a> <!&textndash; http://nco.sf.net/nco.html#-w &textndash;>
<a name="wgt"></a> <!&textndash; http://nco.sf.net/nco.html#wgt &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1551"><code>-w <var>weight</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1552"><code>--weight <var>weight</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1553"><code>--wgt_var <var>weight</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1554"><code>-m <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1555"><code>--mask-variable <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1556"><code>--mask_variable <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1557"><code>--msk_nm <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1558"><code>--msk_var <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1559"><code>-B <var>mask_cond</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1560"><code>--msk_cnd <var>mask_cond</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1561"><code>--mask_condition <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1555"><code>-w <var>weight</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1556"><code>--weight <var>weight</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1557"><code>--wgt_var <var>weight</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1558"><code>-m <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1559"><code>--mask-variable <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1560"><code>--mask_variable <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1561"><code>--msk_nm <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1562"><code>--msk_var <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1563"><code>-B <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1564"><code>--msk_cnd <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1565"><code>--mask_condition <var>mask_cond</var></code></indexterm></cindex>
<para><var>mask_var</var> and <var>weight</var>, if specified, are broadcast to conform
to the variables being averaged.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1562">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1566">rank</indexterm></cindex>
The rank of variables is reduced by the number of dimensions which they
are averaged over.
Thus arrays which are one dimensional in the <var>input-file</var> and are
@@ -16104,8 +16150,8 @@ Since, by default <command>ncwa</command> weights coordinate variables, the
value of <code>latitude</code> in the <var>output-file</var> depends on the weights
in <var>lat_wgt</var> and is not likely to <w>be 45.0</w>, the midpoint latitude
of the hyperslab.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1563">coordinate variable</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1564"><code>-I</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1567">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1568"><code>-I</code></indexterm></cindex>
Option <samp>-I</samp> overrides this default behavior and causes
<command>ncwa</command> not to weight or mask coordinate variables
<footnote><para>The default behavior of (<samp>-I</samp>) changed on
@@ -16123,8 +16169,8 @@ area-weighted mean latitude.
centroid of the hyperslab.
For the example given, this is about <w>30 degrees.</w></para></footnote>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1565">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1566">operation types</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1569">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1570">operation types</indexterm></cindex>
<para>As explained in <xref label="Operation-Types"><xrefnodename>Operation Types</xrefnodename></xref>, <command>ncwa</command>
<emph>always averages</emph> coordinate variables regardless of the arithmetic
operation type performed on the non-coordinate variables.
@@ -16144,8 +16190,8 @@ is given above (<pxref label="Operation-Types"><xrefnodename>Operation Types</xr
</html>
<node name="Mask-condition" spaces=" "><nodename>Mask condition</nodename><nodenext spaces=" ">Normalization and Integration</nodenext><nodeprev spaces=" ">ncwa netCDF Weighted Averager</nodeprev><nodeup spaces=" ">ncwa netCDF Weighted Averager</nodeup></node>
<subsection spaces=" "><sectiontitle>Mask condition</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1567">mask condition</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1568">truth condition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1571">mask condition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1572">truth condition</indexterm></cindex>
<tex endspaces=" ">
Each $\xxx_{\idx}$ also has an associated masking
weight~$\mskflg_{\idx}$ whose value is~0 or~1 (false or true).
@@ -16160,12 +16206,12 @@ As expected, $\mskflg_{\idx} = 1$ when the mask condition is
<dfn>true</dfn> and $\mskflg_{\idx} = 0$ otherwise.
</tex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1569"><code>--op_rlt <var>mask_comp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1570"><code>--mask_comparator <var>mask_comp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1571"><code>--msk_cmp_typ <var>mask_comp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1572"><code>--msk_cnd_sng <var>mask_cond</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1573"><code>--mask_condition <var>mask_cond</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1574"><code>-B <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1573"><code>--op_rlt <var>mask_comp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1574"><code>--mask_comparator <var>mask_comp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1575"><code>--msk_cmp_typ <var>mask_comp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1576"><code>--msk_cnd_sng <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1577"><code>--mask_condition <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1578"><code>-B <var>mask_cond</var></code></indexterm></cindex>
<para>The mask condition has the syntax <math><var>mask_var</var></math>
<math><var>mask_comp</var></math> <math><var>mask_val</var></math>.
The preferred method to specify the mask condition is in one string with
@@ -16180,7 +16226,7 @@ It is safest to write scripts using <samp>--mask_condition</samp>.</para></footn
The <var>mask_condition</var> string is automatically parsed into its three
constituents <var>mask_var</var>, <var>mask_comp</var>, and <var>mask_val</var>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1575">comparator</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1579">comparator</indexterm></cindex>
<para>Here <var>mask_var</var> is the name of the masking variable (specified with
<samp>-m</samp>, <samp>--mask-variable</samp>, <samp>--mask_variable</samp>,
<samp>--msk_nm</samp>, or <samp>--msk_var</samp>).
@@ -16199,9 +16245,9 @@ comparisons <math>==</math>, <math>!=</math>, <math>></math>, <math><</mat
<math><=</math>.
<clear name="flg" line=" flg"></clear>
The mask comparator defaults to <kbd>eq</kbd> (equality).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1576"><code>--mask-value <var>mask_val</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1577"><code>--mask_value <var>mask_val</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1578"><code>--msk_val <var>mask_val</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1580"><code>--mask-value <var>mask_val</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1581"><code>--mask_value <var>mask_val</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1582"><code>--msk_val <var>mask_val</var></code></indexterm></cindex>
The <var>mask_val</var> argument to <samp>-M</samp> (or <samp>--mask-value</samp>, or
<samp>--msk_val</samp>) is the right hand side of the
<dfn>mask condition</dfn>.
@@ -16254,11 +16300,11 @@ weight $\wgt_{\idx}=0.0$ as well).
</subsection>
<node name="Normalization-and-Integration" spaces=" "><nodename>Normalization and Integration</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Mask condition</nodeprev><nodeup spaces=" ">ncwa netCDF Weighted Averager</nodeup></node>
<subsection spaces=" "><sectiontitle>Normalization and Integration</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1579">normalization</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1580"><code>-N</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1581"><code>numerator</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1582">integration</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1583">dot product</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1583">normalization</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1584"><code>-N</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1585"><code>numerator</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1586">integration</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1587">dot product</indexterm></cindex>
<para><command>ncwa</command> has one switch which controls the normalization of the
averages appearing in the <var>output-file</var>.
Short option <samp>-N</samp> (or long options <samp>--nmr</samp> or
@@ -16283,7 +16329,7 @@ integrals (i.e., weighted sums) to be output.
For example, consider the variable
<code>lev</code> where <math><var>lev</var> = [100,500,1000]</math> weighted by
the weight <code>lev_wgt</code> where <math><var>lev_wgt</var> = [10,2,1]</math>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1584">dot product</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1588">dot product</indexterm></cindex>
The vertical integral of <code>lev</code>, weighted by <code>lev_wgt</code>,
is the dot product of <var>lev</var> and <var>lev_wgt</var>.
That this is <w>is 3000.0</w> can be seen by inspection and verified with
@@ -16362,7 +16408,7 @@ specified (with <samp>-a</samp>).
ncwa -a lon -b in.nc out2.nc
</pre></example>
<noindent></noindent>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1585">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1589">degenerate dimension</indexterm></cindex>
<para>The first command turns <code>lon</code> into a scalar and the second retains
<code>lon</code> as a degenerate dimension in all variables.
</para><example endspaces=" ">
@@ -16374,9 +16420,9 @@ lon[0] = 135
<para>In either case the tally is simply the size of <code>lon</code>, i.e., 180
for the <file>85_0112.nc</file> file described by the sample header above.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1586"><code>gw</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1587">Gaussian weights</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1588">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1590"><code>gw</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1591">Gaussian weights</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1592">climate model</indexterm></cindex>
<para>Compute the meridional (latitudinal) mean, with values weighted by
the corresponding element of <var>gw</var>
<footnote><para><code>gw</code> stands for <dfn>Gaussian weight</dfn> in many
@@ -16402,8 +16448,8 @@ $64 \times 128 = 8192$.
64 times 128 = 8192.
<clear name="flg" line=" flg"></clear>
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1589"><code>ORO</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1590">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1593"><code>ORO</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1594">climate model</indexterm></cindex>
<para>Compute the area-mean over the globe using only points for which
<set name="flg" line=" flg"></set>
<tex endspaces=" ">
@@ -16458,8 +16504,8 @@ the variable <var>area</var> contains the area of each gridcell
Thus the <samp>-N</samp> switch, or, equivalently, the <samp>-y ttl</samp> switch,
correctly integrate the cell areas into a total regional area.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1591">mask condition</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1592">truth condition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1595">mask condition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1596">truth condition</indexterm></cindex>
<para>Mask a file to contain <var>_FillValue</var> everywhere except where
<math><var>thr_min</var> <= <var>msk_var</var> <= <var>thr_max</var></math>:
</para><example endspaces=" ">
@@ -16487,17 +16533,17 @@ where <math><var>thr_min</var> <= <var>msk_var</var> <= <var>thr_max</var>
</chapter>
<node name="Contributing" spaces=" "><nodename>Contributing</nodename><nodenext spaces=" ">Quick Start</nodenext><nodeprev spaces=" ">Operator Reference Manual</nodeprev><nodeup spaces=" ">Top</nodeup></node>
<chapter spaces=" "><sectiontitle>Contributing</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1593">contributing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1597">contributing</indexterm></cindex>
<para>We welcome contributions from anyone.
The project homepage at <uref><urefurl>https://sf.net/projects/nco</urefurl></uref>
contains more information on how to contribute.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1594">PayPal</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1598">PayPal</indexterm></cindex>
<para>Financial contributions to <acronym><acronymword>NCO</acronymword></acronym> development may be made through
<uref><urefurl>https://www.paypal.com/xclick/business=zender%40uci.edu&item_name=NCO+development&item_number=nco_dnt_dvl&no_note=1&tax=0¤cy_code=USD</urefurl><urefdesc spaces=" ">PayPal</urefdesc></uref>.
<acronym><acronymword>NCO</acronymword></acronym> has been shared for over <w>10 years</w> yet only two
users have contributed any money to the developers
-<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="1595">chocolate</indexterm></cindex>
+<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="1599">chocolate</indexterm></cindex>
<para>Happy users have sent me a few gifts, though.
This includes a box of imported chocolate.
Mmm.
@@ -16523,13 +16569,13 @@ So you could be the third!
<para><acronym><acronymword>NCO</acronymword></acronym> would not exist without the dedicated efforts of the
remarkable software engineers who conceive, develop, and
maintain netCDF, UDUnits, and OPeNDAP.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1596">Russ Rew</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1597">John Caron</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1598">Glenn Davis</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1599">Steve Emmerson</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1600">James Gallagher</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1601">Ed Hartnett</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1602">Dennis Heimbigner</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1600">Russ Rew</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1601">John Caron</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1602">Glenn Davis</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1603">Steve Emmerson</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1604">James Gallagher</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1605">Ed Hartnett</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1606">Dennis Heimbigner</indexterm></cindex>
Since 1995 <acronym><acronymword>NCO</acronymword></acronym> has received support from, I believe, the
entire staff of all these projects, including
Russ Rew,
@@ -16544,19 +16590,19 @@ In addition to their roles in maintaining the software stack on which
or contributed to <acronym><acronymword>NCO</acronymword></acronym> specifically. That support is
acknowledged separately below.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1603">contributors</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1607">contributors</indexterm></cindex>
<para>The primary contributors to <acronym><acronymword>NCO</acronymword></acronym> development have been:
</para><table commandarg="asis" spaces=" " endspaces=" ">
-<beforefirstitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1604">Charlie Zender</indexterm></cindex>
+<beforefirstitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1608">Charlie Zender</indexterm></cindex>
</beforefirstitem><tableentry><tableterm><item spaces=" "><itemformat command="asis">Charlie Zender</itemformat></item>
-</tableterm><tableitem><para>All concept, design and implementation from 1995-2000.
+</tableterm><tableitem><para>All concept, design and implementation from 1995&textndash;2000.
Since then autotools, bug-squashing, <acronym><acronymword>CDL</acronymword></acronym>, chunking,
documentation, anchoring, recursion, <acronym><acronymword>GPE</acronymword></acronym>, packing,
<acronym><acronymword>NCO</acronymword></acronym> library redesign, <command>ncap2</command> features,
<command>ncbo</command>, <command>ncpdq</command>, SMP threading and MPI parallelization,
netCDF4 integration, external funding, project management, science
research, releases.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1605">Henry Butowsky</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1609">Henry Butowsky</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Henry Butowsky</itemformat></item>
</tableterm><tableitem><para>Non-linear operations and <code>min()</code>, <code>max()</code>, <code>total()</code>
support in <command>ncra</command> and <command>ncwa</command>.
@@ -16567,111 +16613,114 @@ Multislabbing algorithm.
Variable wildcarding.
Numerous hacks.
<command>ncap2</command> language.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1606">Rorik Peterson</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1610">Rorik Peterson</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Rorik Peterson</itemformat></item>
</tableterm><tableitem><para>Original autotool build support.
Long command-line options.
Original UDUnits support.
Debianization.
Numerous bug-fixes.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1607">Daniel Wang</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1611">Joe Hamman</indexterm></cindex>
+</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Joe Hamman</itemformat></item>
+</tableterm><tableitem><para>Python bindings (NCOpy).
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1612">Daniel Wang</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Daniel Wang</itemformat></item>
-</tableterm><tableitem><para>Script Workflow Analysis for MultiProcessing (SWAMP).
-RPM support.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1608">Harry Mangalam</indexterm></cindex>
+</tableterm><tableitem><para>Script Workflow Analysis for MultiProcessing (<acronym><acronymword>SWAMP</acronymword></acronym>).
+<acronym><acronymword>RPM</acronymword></acronym> support.
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1613">Harry Mangalam</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Harry Mangalam</itemformat></item>
</tableterm><tableitem><para>Benchmarking.
OPeNDAP configuration.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1609">Pedro Vicente</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1614">Pedro Vicente</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Pedro Vicente</itemformat></item>
</tableterm><tableitem><para>Windows Visual Studio support.
netCDF4 groups.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1610">Russ Rew</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1615">Russ Rew</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Russ Rew</itemformat></item>
</tableterm><tableitem><para>Advice on NCO structural algorithms
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1611">Brian Mays</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1616">Brian Mays</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Brian Mays</itemformat></item>
</tableterm><tableitem><para>Original packaging for Debian <acronym><acronymword>GNU</acronymword></acronym>/Linux, <command>nroff</command> man pages.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1612">George Shapovalov</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1617">George Shapovalov</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">George Shapovalov</itemformat></item>
</tableterm><tableitem><para>Packaging for Gentoo <acronym><acronymword>GNU</acronymword></acronym>/Linux.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1613">Bill Kocik</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1618">Bill Kocik</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Bill Kocik</itemformat></item>
</tableterm><tableitem><para>Memory management.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1614">Len Makin</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1619">Len Makin</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Len Makin</itemformat></item>
</tableterm><tableitem><para>NEC SX architecture support.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1615">Jim Edwards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1620">Jim Edwards</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Jim Edwards</itemformat></item>
</tableterm><tableitem><para>AIX architecture support.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1616">Juliana Rew</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1621">Juliana Rew</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Juliana Rew</itemformat></item>
</tableterm><tableitem><para>Compatibility with large <acronym><acronymword>PID</acronymword></acronym>s.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1617">Karen Schuchardt</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1622">Karen Schuchardt</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Karen Schuchardt</itemformat></item>
</tableterm><tableitem><para>Auxiliary coordinate support.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1618">Gayathri Venkitachalam</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1623">Gayathri Venkitachalam</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Gayathri Venkitachalam</itemformat></item>
</tableterm><tableitem><para><acronym><acronymword>MPI</acronymword></acronym> implementation.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1619">Scott Capps</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1624">Scott Capps</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Scott Capps</itemformat></item>
</tableterm><tableitem><para>Large work-load testing
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1620">Peter Campbell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1621">Martin Dix</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1622">Mark Flanner</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1623">Markus Liebig</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1624">Keith Lindsay</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1625">Stu Muller</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1626">Mike Page</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1627">Martin Schmidt</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1628">Lori Sentman</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1629">Michael Schulz</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1630">Gary Strand</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1631">Andrew Wittenberg</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1632">George White</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1633">Remik Ziemlinski</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1625">Peter Campbell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1626">Martin Dix</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1627">Mark Flanner</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1628">Markus Liebig</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1629">Keith Lindsay</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1630">Stu Muller</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1631">Mike Page</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1632">Martin Schmidt</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1633">Lori Sentman</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1634">Michael Schulz</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1635">Gary Strand</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1636">Andrew Wittenberg</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1637">George White</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1638">Remik Ziemlinski</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Peter Campbell, Martin Dix, Mark Flanner, Markus Liebig, Keith Lindsay, Mike Page, Martin Schmidt, Michael Schulz, Lori Sentman, Gary Strand, George White Andrew Wittenberg, Remik Ziemlinski</itemformat></item>
</tableterm><tableitem><para>Excellent bug reports and feature requests.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1634">Daniel Baumann</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1635">Nick Bower</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1636">Luk Claes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1637">Barry deFreese</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1638">Aleksandar Jelenak</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1639">Francesco Lovergine</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1640">Matej Vela</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1639">Daniel Baumann</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1640">Nick Bower</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1641">Luk Claes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1642">Barry deFreese</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1643">Aleksandar Jelenak</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1644">Francesco Lovergine</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1645">Matej Vela</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Daniel Baumann, Nick Bower, Luk Claebs, Barry deFreese, Aleksandar Jelenak, Francesco Lovergine, Matej Vela</itemformat></item>
</tableterm><tableitem><para>Debian packaging
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1641">Patrice Dumas</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1642">Ed Hill</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1643">Orion Powlawski</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1646">Patrice Dumas</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1647">Ed Hill</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1648">Orion Powlawski</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Patrice Dumas, Ed Hill, Orion Poplawski</itemformat></item>
</tableterm><tableitem><para>RedHat packaging
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1644">George Shapavalov</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1645">Patrick Kursawe</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1649">George Shapavalov</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1650">Patrick Kursawe</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">George Shapavalov, Patrick Kursawe</itemformat></item>
</tableterm><tableitem><para>Gentoo packaging
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1646">Filipe Fernandes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1651">Filipe Fernandes</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Filipe Fernandes</itemformat></item>
</tableterm><tableitem><para>OpenSuse packaging
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1647">Alexander Hansen</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1648">Takeshi Enomoto</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1652">Alexander Hansen</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1653">Takeshi Enomoto</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Takeshi Enomoto, Alexander Hansen</itemformat></item>
</tableterm><tableitem><para>Mac OS packaging
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1649">Eric Blake</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1654">Eric Blake</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Eric Blake</itemformat></item>
</tableterm><tableitem><para>Autoconf/M4 help
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1650">Gavin Burris</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1651">Kyle Wilcox</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1655">Gavin Burris</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1656">Kyle Wilcox</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Gavin Burris, Kyle Wilcox</itemformat></item>
</tableterm><tableitem><para>RHEL and CentOS build scripts and bug reports.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1652">Andrea Cimatoribus</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1657">Andrea Cimatoribus</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Andrea Cimatoribus</itemformat></item>
</tableterm><tableitem><para><acronym><acronymword>NCO</acronymword></acronym> Spiral Logo
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1653">Martin Otte</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1654">Etienne Tourigny</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1658">Martin Otte</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1659">Etienne Tourigny</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Martin Otte, Etienne Tourigny</itemformat></item>
</tableterm><tableitem><para>Single bug reports and fixes
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1655">Wenshan Wang</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1660">Wenshan Wang</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Wenshan Wang</itemformat></item>
</tableterm><tableitem><para><acronym><acronymword>CMIP5</acronymword></acronym> and <acronym><acronymword>MODIS</acronymword></acronym> processing documentation.
</para></tableitem></tableentry></table>
@@ -16689,27 +16738,27 @@ netCDF4 groups.
</section>
<node name="Proposals-for-Institutional-Funding" spaces=" "><nodename>Proposals for Institutional Funding</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Contributors</nodeprev><nodeup spaces=" ">Contributing</nodeup></node>
<section spaces=" "><sectiontitle>Proposals for Institutional Funding</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1656">funding</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1657">proposals</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1658"><acronym><acronymword>NSF</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1659">server-side processing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1660">Distributed Data Reduction & Analysis</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1661">Scientific Data Operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1662"><acronym><acronymword>DDRA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1663">Server-Side Distributed Data Reduction & Analysis</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1664"><acronym><acronymword>SSDDRA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1665"><acronym><acronymword>CCSM</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1666"><acronym><acronymword>IPCC</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1667"><acronym><acronymword>NSF</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1668"><acronym><acronymword>SDO</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1669"><acronym><acronymword>SEIII</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1670">OptIPuter</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1661">funding</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1662">proposals</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1663"><acronym><acronymword>NSF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1664">server-side processing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1665">Distributed Data Reduction & Analysis</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1666">Scientific Data Operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1667"><acronym><acronymword>DDRA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1668">Server-Side Distributed Data Reduction & Analysis</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1669"><acronym><acronymword>SSDDRA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1670"><acronym><acronymword>CCSM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1671"><acronym><acronymword>IPCC</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1672"><acronym><acronymword>NSF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1673"><acronym><acronymword>SDO</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1674"><acronym><acronymword>SEIII</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1675">OptIPuter</indexterm></cindex>
<para><acronym><acronymword>NSF</acronymword></acronym> has funded a
<uref><urefurl>http://nco.sf.net#prp_sei</urefurl><urefdesc spaces=" ">project</urefdesc></uref>
to improve Distributed Data Reduction & Analysis (<acronym><acronymword>DDRA</acronymword></acronym>) by
evolving <acronym><acronymword>NCO</acronymword></acronym> into a suite of Scientific Data Operators called
<acronym><acronymword>SDO</acronymword></acronym>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1671">parallelism</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1676">parallelism</indexterm></cindex>
The two main components of this project are <acronym><acronymword>NCO</acronymword></acronym> parallelism
(OpenMP, <acronym><acronymword>MPI</acronymword></acronym>) and Server-Side <acronym><acronymword>DDRA</acronymword></acronym>
(<acronym><acronymword>SSDDRA</acronymword></acronym>) implemented through extensions to <acronym><acronymword>OPeNDAP</acronymword></acronym>
@@ -16717,9 +16766,9 @@ and netCDF4.
This project will dramatically reduce bandwidth usage for <acronym><acronymword>NCO</acronymword></acronym>
<acronym><acronymword>DDRA</acronymword></acronym>.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1672"><acronym><acronymword>NASA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1673"><acronym><acronymword>NRA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1674"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1677"><acronym><acronymword>NASA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1678"><acronym><acronymword>NRA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1679"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
<para>With this first <acronym><acronymword>NCO</acronymword></acronym> proposal funded, the content of the
next <acronym><acronymword>NCO</acronymword></acronym> proposal is clear.
We are interested in obtaining <acronym><acronymword>NASA</acronymword></acronym> support for
@@ -16739,7 +16788,7 @@ Comments on the proposals and letters of support are also very welcome.
</chapter>
<node name="Quick-Start" spaces=" "><nodename>Quick Start</nodename><nodenext spaces=" ">CMIP5 Example</nodenext><nodeprev spaces=" ">Contributing</nodeprev><nodeup spaces=" ">Top</nodeup></node>
<chapter spaces=" "><sectiontitle>Quick Start</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1675">Quick Start</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1680">Quick Start</indexterm></cindex>
<para>Simple examples in Bash shell scripts showing how to average data with
different file structures.
Here we include monthly, seasonal and annual average with daily or
@@ -16754,15 +16803,15 @@ monthly data in either one file or multiple files.
<node name="Daily-data-in-one-file" spaces=" "><nodename>Daily data in one file</nodename><nodenext spaces=" ">Monthly data in one file</nodenext><nodeprev spaces=" ">Quick Start</nodeprev><nodeup spaces=" ">Quick Start</nodeup></node>
<section spaces=" "><sectiontitle>Daily data in one file</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1676">daily data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1681">daily data</indexterm></cindex>
<para>Suppose we have daily data from Jan 1st, 1990 to Dec. 31, 2005 in the
file of <file>in.nc</file> with the record dimension as <code>time</code>.
</para>
<noindent></noindent>
<para><strong>Monthly average:</strong>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1677">monthly average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1678">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1679">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1682">monthly average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1683">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1684">time-averaging</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">for yyyy in {1990..2005}; do # Loop over years
for moy in {1..12}; do # Loop over months
@@ -16780,9 +16829,9 @@ ncrcat -O in_??????.nc out.nc
<noindent></noindent>
<para><strong>Annual average:</strong>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1680">annual average from daily data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1681">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1682">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1685">annual average from daily data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1686">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1687">time-averaging</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">for yyyy in {1990..2005}; do # Loop over years
ncra -O -d time,"${yyyy}-01-01","${yyyy}-12-31" in.nc in_${yyyy}.nc
@@ -16799,23 +16848,23 @@ There are detailed instructions on <command>ncra</command> (<pxref label="ncra-n
</section>
<node name="Monthly-data-in-one-file" spaces=" "><nodename>Monthly data in one file</nodename><nodenext spaces=" ">One time point one file</nodenext><nodeprev spaces=" ">Daily data in one file</nodeprev><nodeup spaces=" ">Quick Start</nodeup></node>
<section spaces=" "><sectiontitle>Monthly data in one file</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1683">monthly data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1688">monthly data</indexterm></cindex>
<para>Inside the input file <file>in.nc</file>, the record dimension <code>time</code> is from Jan 1990 to Dec 2005.
</para>
<noindent></noindent>
<para><strong>Seasonal average (e.g., DJF):</strong>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1684">seasonal average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1685">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1686">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1689">seasonal average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1690">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1691">time-averaging</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">ncra -O --mro -d time,"1990-12-01",,12,3 in.nc out.nc
</pre></example>
<noindent></noindent>
<para><strong>Annual average:</strong>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1687">annual average from monthly data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1688">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1689">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1692">annual average from monthly data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1693">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1694">time-averaging</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">ncra -O --mro -d time,,,12,12 in.nc out.nc
</pre></example>
@@ -16840,10 +16889,10 @@ you can leave it blank if you want to include the minimum or the maximum of the
</section>
<node name="One-time-point-one-file" spaces=" "><nodename>One time point one file</nodename><nodenext spaces=" ">Multiple files with multiple time points</nodenext><nodeprev spaces=" ">Monthly data in one file</nodeprev><nodeup spaces=" ">Quick Start</nodeup></node>
<section spaces=" "><sectiontitle>One time point one file</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1690">daily data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1691">monthly data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1692">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1693">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1695">daily data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1696">monthly data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1697">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1698">time-averaging</indexterm></cindex>
<para>This means if you have daily data of 30 days, there will be 30 data files.
Or if you have monthly data of 12 months, there will be 12 data files.
Dealing with this kind of files, you need to specify the file names in shell scripts and pass them to NCO operators.
@@ -16864,8 +16913,8 @@ done
</section>
<node name="Multiple-files-with-multiple-time-points" spaces=" "><nodename>Multiple files with multiple time points</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">One time point one file</nodeprev><nodeup spaces=" ">Quick Start</nodeup></node>
<section spaces=" "><sectiontitle>Multiple files with multiple time points</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1694">daily data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1695">monthly data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1699">daily data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1700">monthly data</indexterm></cindex>
<para>Similar as the last one, it&textrsquo;s more about shell scripts.
Suppose you have daily data with one month of them in one data file.
The monthly average is simply to apply <command>ncra</command> on the specific data file.
@@ -16878,7 +16927,7 @@ And for seasonal averages, you can specify the three months by shell scripts.
</chapter>
<node name="CMIP5-Example" spaces=" "><nodename>CMIP5 Example</nodename><nodenext spaces=" ">Parallel</nodenext><nodeprev spaces=" ">Quick Start</nodeprev><nodeup spaces=" ">Top</nodeup></node>
<chapter spaces=" "><sectiontitle><acronym><acronymword>CMIP5</acronymword></acronym> Example</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1696"><acronym><acronymword>CMIP5</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1701"><acronym><acronymword>CMIP5</acronymword></acronym></indexterm></cindex>
<ignore>
This @uref{http://nco.sf.net/xmp_cesm.html,Wonderful CMIP5 Documentation}
shows complete processing of the @acronym{CMIP5} dataset.
@@ -16927,7 +16976,7 @@ group-based processing as well.
<node name="Combine-Files" spaces=" "><nodename>Combine Files</nodename><nodenext spaces=" ">Global Distribution of Long-term Average</nodenext><nodeprev spaces=" ">CMIP5 Example</nodeprev><nodeup spaces=" ">CMIP5 Example</nodeup></node>
<section spaces=" "><sectiontitle>Combine Files</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1697">file combination</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1702">file combination</indexterm></cindex>
<para>Sometimes, the data of one ensemble member will be stored in several
files to reduce single file size.
But it is not convenient to process in a batch mode.
@@ -16956,10 +17005,10 @@ These ensemble members are on the third level.
In each sub-group of ensemble members, we appended two variables,
<var>snc</var> and <var>snd</var> (these stand for snow cover and snow depth, by
the way).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1698"><option>--gag</option></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1699">aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1700">group aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1701">groups, creating</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1703"><option>--gag</option></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1704">aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1705">group aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1706">groups, creating</indexterm></cindex>
</para><example endspaces=" ">
<verbatiminclude file="xmp/cmb_fl_grp.sh" spaces=" ">xmp/cmb_fl_grp.sh</verbatiminclude>
</example>
@@ -16967,10 +17016,10 @@ the way).
</section>
<node name="Global-Distribution-of-Long_002dterm-Average" spaces=" "><nodename>Global Distribution of Long-term Average</nodename><nodenext spaces=" ">Annual Average over Regions</nodenext><nodeprev spaces=" ">Combine Files</nodeprev><nodeup spaces=" ">CMIP5 Example</nodeup></node>
<section spaces=" "><sectiontitle>Global Distribution of Long-term Average</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1702">spatial distribution</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1703">long-term average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1704">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1705">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1707">spatial distribution</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1708">long-term average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1709">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1710">time-averaging</indexterm></cindex>
<float name="fgr_003aglb" type="Figure" number="7.1" spaces=" " endspaces=" "><floattype>Figure</floattype><floatname>fgr:glb</floatname>
<image><imagefile>xmp/fgr1</imagefile><imagewidth>3.5in</imagewidth></image>
<caption><para>Global Distribution of Long-term Average.</para></caption>
@@ -16991,8 +17040,8 @@ Key steps include:
</example>
<para>With the use of <key>group</key>, the above script
-will be shortened to just <w>TWO LINES</w>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1706">groups, averaging</indexterm></cindex>
+will be shortened to just <w>ONE LINE</w>.
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1711">groups, averaging</indexterm></cindex>
<ignore>
Isn't it amazing or what?!
</ignore>
@@ -17002,8 +17051,6 @@ Isn't it amazing or what?!
nces -O --nsm_grp --nsm_sfx='_avg' \
sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512.nc \
sn_LImon_all-mdl_all-xpt_nsm-avg.nc
-ncra -O -g 'avg$' sn_LImon_all-mdl_all-xpt_nsm-avg.nc \
- sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc
</pre></example>
<para>The input file, <file>sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512.nc</file>, produced by <file>cmb_fl_grp.sh</file>,
includes all the ensemble members as groups.
@@ -17011,30 +17058,30 @@ The option <samp>--nsm_grp</samp> denotes
that we are using <uref><urefurl>http://nco.sf.net/nco.html#nsm_grp</urefurl><urefdesc spaces=" ">group ensembles mode</urefdesc></uref> of <command>nces</command>,
instead of <uref><urefurl>http://nco.sf.net/nco.html#nsm_fl</urefurl><urefdesc spaces=" ">file ensembles mode</urefdesc></uref>, <samp>--nsm_fl</samp>.
The option <samp>--nsm_sfx='_avg'</samp> instructs <command>nces</command>
-to store the output as a new child group <file>/[model]/[model name]_avg</file>,
-instead of in the parent group <file>/[model]</file>.
+to store the output as a new child group <file>/[model]/[model name]_avg/var</file>;
+otherwise, the output will be stored directly in the parent group <file>/[model]/var</file>.
In the final output file, <file>sn_LImon_all-mdl_all-xpt_nsm-avg_tm-avg.nc</file>,
sub-groups with a suffix of &textlsquo;avg&textrsquo; are the long-term averages of each model.
-Here, <samp>-g 'avg$'</samp> is used to retrieve groups having &textrsquo;avg&textrsquo; at the end of their names,
-i.e., the long-term average groups.
+One thing to notice is that for now,
+ensembles with only one ensemble member will be left untouched.
</para>
</section>
<node name="Annual-Average-over-Regions" spaces=" "><nodename>Annual Average over Regions</nodename><nodenext spaces=" ">Monthly Cycle</nodenext><nodeprev spaces=" ">Global Distribution of Long-term Average</nodeprev><nodeup spaces=" ">CMIP5 Example</nodeup></node>
<section spaces=" "><sectiontitle>Annual Average over Regions</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1707">annual average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1708">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1709">time-averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1710">area-averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1711">dimension order</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1712">anomalies</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1713">standard deviation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1714">renaming variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1715">attributes, editing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1716">attributes, modifying</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1717">attributes, overwriting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1718">regression</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1719">nco script file</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1720">variables, appending</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1712">annual average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1713">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1714">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1715">area-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1716">dimension order</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1717">anomalies</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1718">standard deviation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1719">renaming variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1720">attributes, editing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1721">attributes, modifying</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1722">attributes, overwriting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1723">regression</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1724">nco script file</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1725">variables, appending</indexterm></cindex>
<float name="fgr_003aanl" type="Figure" number="7.2" spaces=" " endspaces=" "><floattype>Figure</floattype><floatname>fgr:anl</floatname>
<image><imagefile>xmp/fgr2</imagefile><imagewidth>4in</imagewidth></image>
<caption><para>Annual Average over Regions.</para></caption>
@@ -17069,12 +17116,12 @@ all the loops over experiments, models and ensemble members can be omitted.
As we are working on implementing <key>group</key> feature in all <acronym><acronymword>NCO</acronymword></acronym> operators,
some functions (e.g., regression and standard deviation over ensemble members)
may have to wait until the new versions.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1721">group, spatial averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1722">group, temporal averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1723">group, anomaly</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1724">group, standard deviation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1725">group, aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1726">group, dimension permutation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1726">group, spatial averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1727">group, temporal averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1728">group, anomaly</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1729">group, standard deviation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1730">group, aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1731">group, dimension permutation</indexterm></cindex>
</para><example endspaces=" ">
<verbatiminclude file="xmp/ann_avg_grp.sh" spaces=" ">xmp/ann_avg_grp.sh</verbatiminclude>
</example>
@@ -17082,12 +17129,12 @@ may have to wait until the new versions.
</section>
<node name="Monthly-Cycle" spaces=" "><nodename>Monthly Cycle</nodename><nodenext spaces=" ">Regrid MODIS Data</nodenext><nodeprev spaces=" ">Annual Average over Regions</nodeprev><nodeup spaces=" ">CMIP5 Example</nodeup></node>
<section spaces=" "><sectiontitle>Monthly Cycle</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1727">monthly average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1728">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1729">time-averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1730">anomalies</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1731">geographical weight</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1732">weighted average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1732">monthly average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1733">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1734">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1735">anomalies</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1736">geographical weight</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1737">weighted average</indexterm></cindex>
<float name="fgr_003amon" type="Figure" number="7.3" spaces=" " endspaces=" "><floattype>Figure</floattype><floatname>fgr:mon</floatname>
<image><imagefile>xmp/fgr3</imagefile><imagewidth>4in</imagewidth></image>
<caption><para>Monthly Cycle.</para></caption>
@@ -17113,16 +17160,16 @@ the script will be shortened.
</section>
<node name="Regrid-MODIS-Data" spaces=" "><nodename>Regrid MODIS Data</nodename><nodenext spaces=" ">Add Coordinates to MODIS Data</nodenext><nodeprev spaces=" ">Monthly Cycle</nodeprev><nodeup spaces=" ">CMIP5 Example</nodeup></node>
<section spaces=" "><sectiontitle>Regrid <acronym><acronymword>MODIS</acronymword></acronym> Data</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1733">regrid</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1734">MODIS</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1735">bilinear interpolation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1736">interpolation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1737">renaming variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1738">renaming attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1739">renaming dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1740">attributes, editing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1741">attributes, modifying</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1742">attributes, overwriting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1738">regrid</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1739">MODIS</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1740">bilinear interpolation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1741">interpolation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1742">renaming variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1743">renaming attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1744">renaming dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1745">attributes, editing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1746">attributes, modifying</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1747">attributes, overwriting</indexterm></cindex>
<para>In order to compare the results between <acronym><acronymword>MODIS</acronymword></acronym> and
<acronym><acronymword>CMIP5</acronymword></acronym> models, one usually regrids one or both datasets so
that the spatial resolutions match.
@@ -17144,8 +17191,8 @@ Key steps include:
</section>
<node name="Add-Coordinates-to-MODIS-Data" spaces=" "><nodename>Add Coordinates to MODIS Data</nodename><nodenext spaces=" ">Permute MODIS Coordinates</nodenext><nodeprev spaces=" ">Regrid MODIS Data</nodeprev><nodeup spaces=" ">CMIP5 Example</nodeup></node>
<section spaces=" "><sectiontitle>Add Coordinates to <acronym><acronymword>MODIS</acronymword></acronym> Data</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1743">MODIS</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1744">coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1748">MODIS</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1749">coordinates</indexterm></cindex>
<para><strong>Main Script</strong>
</para><example endspaces=" ">
<verbatiminclude file="xmp/add_crd.sh" spaces=" ">xmp/add_crd.sh</verbatiminclude>
@@ -17158,7 +17205,7 @@ Key steps include:
</section>
<node name="Permute-MODIS-Coordinates" spaces=" "><nodename>Permute MODIS Coordinates</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Add Coordinates to MODIS Data</nodeprev><nodeup spaces=" ">CMIP5 Example</nodeup></node>
<section spaces=" "><sectiontitle>Permute <acronym><acronymword>MODIS</acronymword></acronym> Coordinates</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1745">coordinates, modifying</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1750">coordinates, modifying</indexterm></cindex>
<!-- c NB: 20140130: @textdegree is in TeXInfo 4.12 but Mac OS X 10.8 ships with 4.8 -->
<para><acronym><acronymword>MODIS</acronymword></acronym> orders latitude data from 90°N to
-90°N, and longitude from -180°E to
@@ -17205,7 +17252,7 @@ Here is an example showing:
</chapter>
<node name="Parallel" spaces=" "><nodename>Parallel</nodename><nodenext spaces=" ">CCSM Example</nodenext><nodeprev spaces=" ">CMIP5 Example</nodeprev><nodeup spaces=" ">Top</nodeup></node>
<chapter spaces=" "><sectiontitle>Parallel</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1746"><command>parallel</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1751"><command>parallel</command></indexterm></cindex>
<para>This section will describe scripting strategies, including the use of
<acronym><acronymword>GNU</acronymword></acronym> Parallel, to <acronym><acronymword>NCO</acronymword></acronym>.
</para><example endspaces=" ">
@@ -17218,7 +17265,7 @@ Here is an example showing:
</chapter>
<node name="CCSM-Example" spaces=" "><nodename>CCSM Example</nodename><nodenext spaces=" ">mybibnode</nodenext><nodeprev spaces=" ">Parallel</nodeprev><nodeup spaces=" ">Top</nodeup></node>
<chapter spaces=" "><sectiontitle>CCSM Example</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1747">CCSM</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1752">CCSM</indexterm></cindex>
<para>This chapter illustrates how to use <acronym><acronymword>NCO</acronymword></acronym> to
process and analyze the results of a <acronym><acronymword>CCSM</acronymword></acronym> climate simulation.
diff --git a/doc/opendap.sh b/doc/opendap.sh
index 29f6ccb..3483be9 100755
--- a/doc/opendap.sh
+++ b/doc/opendap.sh
@@ -1,6 +1,6 @@
#!/bin/sh
-# $Header: /cvsroot/nco/nco/doc/opendap.sh,v 1.16 2013/09/23 21:43:38 zender Exp $
+# $Header: /cvsroot/nco/nco/doc/opendap.sh,v 1.17 2014/03/04 22:44:15 zender Exp $
# Purpose: Install OPeNDAP prior to building NCO as DAP-enabled clients
@@ -33,6 +33,7 @@
# ncks -M -p http://dust.ess.uci.edu/cgi-bin/dods/nph-dods/dodsdata in.nc # DAP (borken server)
# ncks -M -p http://thredds-test.ucar.edu/thredds/dodsC/testdods in.nc # DAP
# ncks -M -p http://thredds-test.ucar.edu/thredds/dodsC/testdods in_4.nc # DAP
+# ncks -M -p http://thredds.ucar.edu/thredds/catalog/grib/NCEP/GFS/Global_2p5deg/files/GFS_Global_2p5deg_20140304_0000 # DAP
# ncra -O -C -D 3 -p http://thredds-test.ucar.edu/thredds/dodsC/testdods in.nc in.nc ~/foo.nc
# ncwa -O -C -D 3 -a lat,lon,time -d lon,-10.,10. -d lat,-10.,10. -l /tmp -p http://www.cdc.noaa.gov/cgi-bin/nph-nc/Datasets/ncep.reanalysis.dailyavgs/surface pres.sfc.1969.nc ~/foo.nc
# ncks -D 3 http://eclipse.ncdc.noaa.gov:9090/thredds/dodsC/isccp-d1/2001/ISCCP.D1.1.GLOBAL.2001.01.01.0000.GPC -d lat,1,2 -d lon,1,2 ~/test.nc
diff --git a/doc/xmp/mcc_grp.sh b/doc/xmp/mcc_grp.sh
index 959a599..a1d7664 100644
--- a/doc/xmp/mcc_grp.sh
+++ b/doc/xmp/mcc_grp.sh
@@ -13,11 +13,11 @@
drc='../data/grp/'
# Constants
-pfx='sn_LImon_all-mdl_all-xpt_all-nsm_200001-20051'
+pfx='sn_LImon_all-mdl_all-xpt_all-nsm_200001-200512'
# Greenland
ncwa -O -w gw -d lat,60.0,75.0 -d lon,300.0,340.0 -a lat,lon \
- ${drc}${pfx}.nc ${drc}${pfx}_grl
+ ${drc}${pfx}.nc ${drc}${pfx}_grl.nc
# Anomaly from annual average of each year
for yyyy in {2000..2005}; do
diff --git a/man/Makefile.in b/man/Makefile.in
index 0b4265a..87d9f26 100644
--- a/man/Makefile.in
+++ b/man/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/man/Makefile.in,v 1.110 2014/01/30 07:10:11 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/man/Makefile.in,v 1.112 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
am__is_gnu_make = test -n '$(MAKEFILE_LIST)' && test -n '$(MAKELEVEL)'
am__make_running_with_option = \
diff --git a/qt/ncap2/ncap2.pro b/qt/ncap2/ncap2.pro
index f83537b..36939a5 100644
--- a/qt/ncap2/ncap2.pro
+++ b/qt/ncap2/ncap2.pro
@@ -21,9 +21,11 @@ CONFIG( debug, debug|release ) {
# library dependencies
unix {
- INCLUDEPATH += /usr/local/include
- INCLUDEPATH += /usr/local
- LIBS += -L/usr/lib/ -lnetcdf -lhdf5_hl -lhdf5
+ #INCLUDEPATH += /usr/local/include
+ #INCLUDEPATH += /usr/local
+ INCLUDEPATH += /home/pvicente/install/netcdf-c-4.3.1.1/include
+ LIBS += -L/home/pvicente/install/netcdf-c-4.3.1.1/lib -lnetcdf
+ LIBS += -lhdf5_hl -lhdf5 -lgsl -lgslcblas -lm
LIBS += -L/usr/lib/x86_64-linux-gnu/ -L/usr/lib/i386-linux-gnu/ -lz -ludunits2 -lexpat
LIBS += -lantlr
diff --git a/src/Makefile.in b/src/Makefile.in
index 75254ec..e70d5b7 100644
--- a/src/Makefile.in
+++ b/src/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/src/Makefile.in,v 1.108 2014/01/30 07:10:11 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/Makefile.in,v 1.110 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
am__is_gnu_make = test -n '$(MAKEFILE_LIST)' && test -n '$(MAKELEVEL)'
am__make_running_with_option = \
diff --git a/src/nco++/Makefile.in b/src/nco++/Makefile.in
index 52f7d51..2d35c92 100644
--- a/src/nco++/Makefile.in
+++ b/src/nco++/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/src/nco++/Makefile.in,v 1.96 2014/01/30 07:10:11 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/nco++/Makefile.in,v 1.98 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
# Purpose: Template builds for nco++ directory
# Process this file with automake to produce Makefile.in
diff --git a/src/nco++/fmc_all_cls.cc b/src/nco++/fmc_all_cls.cc
index 7450c0b..242fc53 100644
--- a/src/nco++/fmc_all_cls.cc
+++ b/src/nco++/fmc_all_cls.cc
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco++/fmc_all_cls.cc,v 1.65 2014/02/17 23:12:39 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/fmc_all_cls.cc,v 1.67 2014/03/25 14:21:26 hmb Exp $ */
/* Purpose: netCDF arithmetic processor class methods: families of functions/methods */
@@ -705,12 +705,13 @@ var_sct * utl_cls::is_fnd(bool &is_mtd, std::vector<RefAST> &args_vtr, fmc_cls &
int iret=0;
switch(lcl_typ){
case VVAR:
- if(prs_arg->ncap_var_init_chk(va_nm)) iret=1;
- break;
+ if(prs_arg->ncap_var_init_chk(va_nm))
+ iret=1;
+ break;
case VATT:
if( prs_arg->var_vtr.find(va_nm) !=NULL)
iret=1;
- else if( (var1=ncap_att_init(va_nm,prs_arg))!=NULL) ;
+ else if( (var1=ncap_att_init(va_nm,prs_arg))!=NULL)
iret=1;
break;
@@ -2698,390 +2699,6 @@ double bil_cls::clc_lin_ipl(double x1,double x2, double x, double Q0,double Q1){
}
-//misc Functions /******************************************/
-// These fuctions are used to create and apply masks to 2D grid variables
-// mask_out=imask_make(var_in,lat,lon)
-//
-// var_in is a 2D var. mask_out is a 0/1 mask of grid points.
-// value is set to 1 if point in var_in is missing_value but has a neigbour with a non-missing value;
-//
-// var_out=imask_fill(var_in.mask_out,lat,lon)
-//
-// Points in var_in are filled if they are missing AND are specified in mask_out.
-// The fill value is an average from the nearest neigbours. nb if a neighbour has just been filled
-// in then this value is NOT used in the calculation of the average
-// Typically mask_out and var_in should be the same shape.
-// Howver its possible to specify multiple mask in mask_out - in this case each mask is iterativly applied to var_in
-// so the shape would be like mask_out(mask_size,lat,lon)
-//
-//
-//
- misc_cls::misc_cls(bool flg_dbg){
- //Populate only on first constructor call
- if(fmc_vtr.empty()){
- fmc_vtr.push_back( fmc_cls("imask",this,(int)PMISC1));
- fmc_vtr.push_back( fmc_cls("imask_make",this,(int)PMISC2));
- fmc_vtr.push_back( fmc_cls("imask_fill",this,(int)PMISC3));
- }
- }
-
-
-
-
- var_sct *misc_cls::fnd(RefAST expr, RefAST fargs,fmc_cls &fmc_obj, ncoTree &walker){
- const std::string fnc_nm("misc_cls::fnd");
- int idx;
- int fdx=fmc_obj.fdx(); //index
- int nbr_args;
- int in_nbr_args;
- prs_cls* prs_arg=walker.prs_arg;
- var_sct *var_arr[4];
- var_sct *var_out;
- RefAST tr;
- nc_type in_typ;
- std::string susg;
- std::string serr;
- std::string sfnm =fmc_obj.fnm(); //method name
- std::vector<RefAST> vtr_args;
- NcapVector<dmn_sct*> dmn_vtr;
-
-
- if(expr)
- vtr_args.push_back(expr);
-
- if(tr=fargs->getFirstChild()) {
- do
- vtr_args.push_back(tr);
- while(tr=tr->getNextSibling());
- }
-
-
- nbr_args=vtr_args.size();
-
- switch(fdx){
-
- case PMISC1:
- in_nbr_args=nbr_args;
- susg="usage: var_out="+sfnm+"(Data_2D, X_in, Y_in)";
- break;
-
- case PMISC2:
- in_nbr_args=nbr_args;
- susg="usage: var_out="+sfnm+"(data_2D, mask,X_in?, Y_in?)";
- break;
-
-
- case PMISC3:
- in_nbr_args=nbr_args;
- susg="usage: var_out="+sfnm+"(data_2D,mask, X_in, Y_in)";
- break;
-
-
- } // end switch
-
-
- if(in_nbr_args <3 ){
- serr="function requires at least two arguments. You have only supplied "+nbr2sng(in_nbr_args)+ " arguments\n";
- err_prn(sfnm,serr+susg);
- }
-
-
-
- // process input args
- for(idx=0 ; idx<in_nbr_args; idx++)
- var_arr[idx]=walker.out(vtr_args[idx]);
-
-
- // initial scan
- if(prs_arg->ntl_scn){
- for(idx=1 ; idx<in_nbr_args ; idx++)
- nco_var_free(var_arr[idx]);
-
- return var_arr[0];
- }
-
- // save inital type
- in_typ=var_arr[0]->type;
- // convert all args to type DOUBLE
- for(idx=0;idx<in_nbr_args;idx++)
- var_arr[idx]=nco_var_cnf_typ(NC_DOUBLE,var_arr[idx]);
-
-
-
- if(fdx==PMISC1){
- // recall input arguments in order
- // 0 - input data
- // 1 - input X co-ordinate var
- // 2 - input Y co-ordinate var
- long cnt=0l;
- long ldx;
- long idx;
- long jdx;
- long v_sz;
- long iidx;
- long jjdx;
- long lldx;
- long x_sz;
- long y_sz;
- double *dpi;
- double *dpo;
- double mss_dbl=9.999e20;;
-
- var_out=nco_var_dpl(var_arr[0]);
- (void)cast_void_nctype(NC_DOUBLE,&var_out->val);
-
- for(idx=0;idx<in_nbr_args;idx++)
- (void)cast_void_nctype(NC_DOUBLE,&var_arr[idx]->val);
-
- // grab missing value;
- if( var_arr[0]->has_mss_val ){
- cast_void_nctype(NC_DOUBLE,&var_arr[0]->mss_val);
- mss_dbl=*var_arr[0]->mss_val.dp;
- cast_nctype_void(NC_DOUBLE,&var_arr[0]->mss_val);
- }
-
- dpi=var_arr[0]->val.dp;
- dpo=var_out->val.dp;
- v_sz=var_arr[0]->sz;
- x_sz=var_arr[1]->sz;
- y_sz=var_arr[2]->sz;
-
-
-
- // set all values to zero
- memset((void*)dpo,0, sizeof(double) *v_sz);
-
- for(idx=2;idx<x_sz-2; idx++)
- for(jdx=2;jdx<y_sz-2;jdx++ ){
- ldx=idx*y_sz+jdx;
- // set output to default missing vale;
- dpo[ldx]=mss_dbl;
- // mask either 1 or mss_dbl
- if( dpi[ldx] !=1.0 ){
- for(iidx=idx-2; iidx<idx+3;iidx++){
- for(jjdx=jdx-2; jjdx<jdx+3;jjdx++){
- lldx=iidx*y_sz+jjdx;
- if(dpi[lldx]==1.0){
- dpo[ldx]=1.0;
- cnt++;
- goto outer;
- }
- }
- }
- }
- outer: ;
- }
-
- printf("misc_cls number of spots processed=%ld\n" ,cnt);
-
- } // end fdx
-
- if(fdx==PMISC2){
- // recall input arguments in order
- // 0 - input var -2D INPUT GRID
- // 1 - input X co-ordinate var
- // 2 - input Y co-ordinate var
- long ldx;
- long v_sz;
- long x_sz;
- long y_sz;
- long mcnt=0l; // num missing values count
- long vmcnt=0l; // num missing processed;
- double mss_dbl=9.999e20;
- double *dpi; // input pointer
- double *dpo; //output pointer
- double *dpm; // mask pointer;
- // save in type;
- ostringstream os;
-
- // var_out is the output mask - same shape as input var
- var_out=nco_var_dpl(var_arr[0]);
- (void)cast_void_nctype(NC_DOUBLE,&var_out->val);
-
- // cast all vars
- for(idx=0;idx<in_nbr_args;idx++)
- (void)cast_void_nctype(NC_DOUBLE,&var_arr[idx]->val);
-
- v_sz=var_arr[0]->sz;
- x_sz=var_arr[1]->sz;
- y_sz=var_arr[2]->sz;
-
-
- dpo=var_out->val.dp;
- dpi=var_arr[0]->val.dp;
- dpm=var_arr[1]->val.dp;
-
- // grab missing value;
- if( var_arr[0]->has_mss_val ){
- cast_void_nctype(NC_DOUBLE,&var_arr[0]->mss_val);
- mss_dbl=*var_arr[0]->mss_val.dp;
- cast_nctype_void(NC_DOUBLE,&var_arr[0]->mss_val);
- }
-
- for(ldx=0; ldx<v_sz ; ldx++){
- // set otuput to default -0.0
- dpo[ldx]=0.0;
-
- if(dpi[ldx]==mss_dbl ){
- int cnt=0;
- int jdx;
- long iX=ldx/y_sz;
- long iY= ldx -iX*y_sz;
- double sum=0.0;
- double Q[4]={mss_dbl,mss_dbl,mss_dbl,mss_dbl};
- mcnt++;
-
-
- if(iY >0 ) Q[0]=dpi[ldx-1];
- if(iY+1<y_sz) Q[1]=dpi[ldx+1];
- if(iX>0 ) Q[2]=dpi[ldx-y_sz];
- if(iX+1 < x_sz) Q[3]=dpi[ldx+y_sz];
-
- for(jdx=0 ; jdx<4 ;jdx++)
- if(Q[jdx] !=mss_dbl) {
- sum+=Q[jdx];
- cnt++;
- }
-
- if(cnt){
- dpo[ldx]=1.0;
- vmcnt++;
- }
-
- } // end if
-
- } // end for
-
- if(nco_dbg_lvl_get() >= 2){
- os<< sfnm<<": num missing="<<mcnt<<+" num valid="<<vmcnt;
- dbg_prn(fnc_nm,os.str());
- }
-
- } // end fdx
-
-
- if(fdx==PMISC3){
- // recall input arguments in order
- // 0 - input var -2D INPUT GRID
- // 1 - input mask 2D GRID (VARMASK these are the places we want to fill a value)
- // nb this mask may contain multiple masks. So size of mask is a multiple of the
- // the input size grid i.e mask size = n * v_sz, When its a multiple we apply each mask
- // i an iteration
- // 2 - input X co-ordinate var
- // 3 - input Y co-ordinate var
- long ldx;
- long mdx;
- long v_sz;
- long m_sz;
- long x_sz;
- long y_sz;
- size_t m_offset=0ll;
- double mss_dbl=9.999e20;
- double *dpi; // input pointer
- double *dpo; //output pointer
- double *dpm; // mask pointer;
-
- // save in type;
-
-
-
- var_out=nco_var_dpl(var_arr[0]);
- (void)cast_void_nctype(NC_DOUBLE,&var_out->val);
-
- // cast all arguments
- for(idx=0;idx<in_nbr_args;idx++)
- (void)cast_void_nctype(NC_DOUBLE,&var_arr[idx]->val);
-
- v_sz=var_arr[0]->sz;
- m_sz=var_arr[1]->sz;
- x_sz=var_arr[2]->sz;
- y_sz=var_arr[3]->sz;
-
-
- assert(v_sz==x_sz*y_sz);
- // check mask size
- assert(m_sz % v_sz ==0l);
-
- dpo=var_out->val.dp;
- dpi=var_arr[0]->val.dp;
-
-
- // grab missing value;
- if( var_arr[0]->has_mss_val ){
- cast_void_nctype(NC_DOUBLE,&var_arr[0]->mss_val);
- mss_dbl=*var_arr[0]->mss_val.dp;
- cast_nctype_void(NC_DOUBLE,&var_arr[0]->mss_val);
- }
-
- for(mdx=0;mdx < m_sz/v_sz ; mdx++){
- long mcnt=0l;
- long vmcnt=0l;
- ostringstream os;
- dpm=var_arr[1]->val.dp+mdx*v_sz;
-
- // copy new values into input pointer !!
- // dont want dpi and dpo the same
- if(mdx >0)
- memcpy(dpi,dpo, v_sz* sizeof(double));
-
- for(ldx=0; ldx<v_sz ; ldx++){
- //check mask
- // if(dpm[ldx]==1.0 && dpi[ldx]==mss_dbl){
- // if( dpi[ldx]==mss_dbl) dpo[ldx]=0.0;
- // if(dpm[ldx]==1.0 && dpi[ldx]==mss_dbl){
- if(dpi[ldx]==mss_dbl && dpm[ldx]==1.0){
- int cnt=0;
- int jdx;
- long iX=ldx/y_sz;
- long iY= ldx -iX*y_sz;
- double sum=0.0;
- double Q[4]={mss_dbl,mss_dbl,mss_dbl,mss_dbl};
- mcnt++;
-
- if(iY >0 ) Q[0]=dpi[ldx-1];
- if(iY+1<x_sz) Q[1]=dpi[ldx+1];
- if(iX>0 ) Q[2]=dpi[ldx-y_sz];
- if(iX+1 < x_sz) Q[3]=dpi[ldx+y_sz];
-
- for(jdx=0 ; jdx<4 ;jdx++){
- if(Q[jdx] !=mss_dbl) {
- sum+=Q[jdx];
- cnt++;
- }
- }
- if(cnt){
- dpo[ldx]=sum/cnt;
- vmcnt++;
- }
-
- } // end if
-
- } // end for ldx
-
- if(nco_dbg_lvl_get() >= 2){
- os<< sfnm<<" mask num="<<mdx<<" : num missing="<<mcnt<<+" num processed="<<vmcnt;
- dbg_prn(fnc_nm,os.str());
- }
-
- } // end for mdx
- }
-
- // cast everything back to void,and free up
- for(idx=0;idx<in_nbr_args;idx++){
- (void)cast_nctype_void(NC_DOUBLE,&var_arr[idx]->val);
- nco_var_free(var_arr[idx]);
- }
-
- (void)cast_nctype_void(NC_DOUBLE,&var_out->val);
- // change back to input type
- var_out=nco_var_cnf_typ(in_typ,var_out);
-
-
- return var_out;
-
-
- }// end
-
/*****************************************************************************************************************/
/* ncap2 functions and methods */
diff --git a/src/nco++/fmc_all_cls.hh b/src/nco++/fmc_all_cls.hh
index 4db7743..4840fa0 100644
--- a/src/nco++/fmc_all_cls.hh
+++ b/src/nco++/fmc_all_cls.hh
@@ -212,15 +212,4 @@ public:
var_sct *fnd(RefAST expr, RefAST fargs,fmc_cls &fmc_obj, ncoTree &walker);
};
-//Miscellaneous Function /****************************************/
-class misc_cls: public vtl_cls {
-private:
- enum {PMISC1, PMISC2, PMISC3 };
- bool _flg_dbg;
-public:
- misc_cls(bool flg_dbg);
- var_sct *fnd(RefAST expr, RefAST fargs,fmc_cls &fmc_obj, ncoTree &walker);
-
-};
-
#endif // FMC_ALL_CLS_HH
diff --git a/src/nco++/ncap2.cc b/src/nco++/ncap2.cc
index 13565d3..d2ea09a 100644
--- a/src/nco++/ncap2.cc
+++ b/src/nco++/ncap2.cc
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco++/ncap2.cc,v 1.188 2014/02/14 05:22:17 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncap2.cc,v 1.189 2014/03/25 14:19:36 hmb Exp $ */
/* ncap2 -- netCDF arithmetic processor */
@@ -145,8 +145,8 @@ main(int argc,char **argv)
char *spt_arg[NCAP_SPT_NBR_MAX]; /* fxm: Arbitrary size, should be dynamic */
char *spt_arg_cat=NULL_CEWI; /* [sng] User-specified script */
- const char * const CVS_Id="$Id: ncap2.cc,v 1.188 2014/02/14 05:22:17 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.188 $";
+ const char * const CVS_Id="$Id: ncap2.cc,v 1.189 2014/03/25 14:19:36 hmb Exp $";
+ const char * const CVS_Revision="$Revision: 1.189 $";
const char * const att_nm_tmp="eulaVlliF_"; /* For netCDF4 name hack */
const char * const opt_sht_lst="3467ACcD:FfhL:l:n:Oo:p:Rrs:S:t:vx-:"; /* [sng] Single letter command line options */
@@ -522,8 +522,7 @@ main(int argc,char **argv)
// Co-ordinates functions
cod_cls cod_obj(true);
- // misc functions
- misc_cls misc_obj(true);
+
// Populate vector
(void)pop_fmc_vtr(fmc_vtr,&cnv_obj);
@@ -540,7 +539,6 @@ main(int argc,char **argv)
(void)pop_fmc_vtr(fmc_vtr,&arr_obj);
(void)pop_fmc_vtr(fmc_vtr,&bil_obj);
(void)pop_fmc_vtr(fmc_vtr,&cod_obj);
- (void)pop_fmc_vtr(fmc_vtr,&misc_obj);
#ifdef ENABLE_GSL
#ifdef ENABLE_NCO_GSL
diff --git a/src/nco++/ncoEnumTokenTypes.hpp b/src/nco++/ncoEnumTokenTypes.hpp
index 55f31a5..a003430 100644
--- a/src/nco++/ncoEnumTokenTypes.hpp
+++ b/src/nco++/ncoEnumTokenTypes.hpp
@@ -1,7 +1,7 @@
#ifndef INC_ncoEnumTokenTypes_hpp_
#define INC_ncoEnumTokenTypes_hpp_
-/* $ANTLR 2.7.7 (20100319): "ncoGrammer.g" -> "ncoEnumTokenTypes.hpp"$ */
+/* $ANTLR 2.7.7 (2006-11-01): "ncoGrammer.g" -> "ncoEnumTokenTypes.hpp"$ */
#ifndef CUSTOM_API
# define CUSTOM_API
diff --git a/src/nco++/ncoLexer.cpp b/src/nco++/ncoLexer.cpp
index 585f930..733ac94 100644
--- a/src/nco++/ncoLexer.cpp
+++ b/src/nco++/ncoLexer.cpp
@@ -1,4 +1,4 @@
-/* $ANTLR 2.7.7 (20100319): "ncoGrammer.g" -> "ncoLexer.cpp"$ */
+/* $ANTLR 2.7.7 (2006-11-01): "ncoGrammer.g" -> "ncoLexer.cpp"$ */
#include "ncoLexer.hpp"
#include <antlr/CharBuffer.hpp>
#include <antlr/TokenStreamException.hpp>
diff --git a/src/nco++/ncoLexer.hpp b/src/nco++/ncoLexer.hpp
index 2aeca22..29c89cd 100644
--- a/src/nco++/ncoLexer.hpp
+++ b/src/nco++/ncoLexer.hpp
@@ -2,7 +2,7 @@
#define INC_ncoLexer_hpp_
#include <antlr/config.hpp>
-/* $ANTLR 2.7.7 (20100319): "ncoGrammer.g" -> "ncoLexer.hpp"$ */
+/* $ANTLR 2.7.7 (2006-11-01): "ncoGrammer.g" -> "ncoLexer.hpp"$ */
#include <antlr/CommonToken.hpp>
#include <antlr/InputBuffer.hpp>
#include <antlr/BitSet.hpp>
@@ -10,7 +10,7 @@
#include <antlr/CharScanner.hpp>
#line 1 "ncoGrammer.g"
-/* $Header: /cvsroot/nco/nco/src/nco++/ncoLexer.hpp,v 1.128 2014/02/19 17:22:12 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncoLexer.hpp,v 1.129 2014/02/26 01:14:14 zender Exp $ */
/* Purpose: ANTLR Grammar and support files for ncap2 */
diff --git a/src/nco++/ncoParser.cpp b/src/nco++/ncoParser.cpp
index 69f2f7b..976adc0 100644
--- a/src/nco++/ncoParser.cpp
+++ b/src/nco++/ncoParser.cpp
@@ -1,4 +1,4 @@
-/* $ANTLR 2.7.7 (20100319): "ncoGrammer.g" -> "ncoParser.cpp"$ */
+/* $ANTLR 2.7.7 (2006-11-01): "ncoGrammer.g" -> "ncoParser.cpp"$ */
#include "ncoParser.hpp"
#include <antlr/NoViableAltException.hpp>
#include <antlr/SemanticException.hpp>
diff --git a/src/nco++/ncoParser.hpp b/src/nco++/ncoParser.hpp
index 4d0e99a..7b883eb 100644
--- a/src/nco++/ncoParser.hpp
+++ b/src/nco++/ncoParser.hpp
@@ -2,7 +2,7 @@
#define INC_ncoParser_hpp_
#include <antlr/config.hpp>
-/* $ANTLR 2.7.7 (20100319): "ncoGrammer.g" -> "ncoParser.hpp"$ */
+/* $ANTLR 2.7.7 (2006-11-01): "ncoGrammer.g" -> "ncoParser.hpp"$ */
#include <antlr/TokenStream.hpp>
#include <antlr/TokenBuffer.hpp>
#include "ncoParserTokenTypes.hpp"
@@ -10,7 +10,7 @@
#line 1 "ncoGrammer.g"
-/* $Header: /cvsroot/nco/nco/src/nco++/ncoParser.hpp,v 1.125 2014/02/19 17:22:12 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncoParser.hpp,v 1.126 2014/02/26 01:14:14 zender Exp $ */
/* Purpose: ANTLR Grammar and support files for ncap2 */
diff --git a/src/nco++/ncoParserTokenTypes.hpp b/src/nco++/ncoParserTokenTypes.hpp
index 3ef0220..5d82af6 100644
--- a/src/nco++/ncoParserTokenTypes.hpp
+++ b/src/nco++/ncoParserTokenTypes.hpp
@@ -1,7 +1,7 @@
#ifndef INC_ncoParserTokenTypes_hpp_
#define INC_ncoParserTokenTypes_hpp_
-/* $ANTLR 2.7.7 (20100319): "ncoGrammer.g" -> "ncoParserTokenTypes.hpp"$ */
+/* $ANTLR 2.7.7 (2006-11-01): "ncoGrammer.g" -> "ncoParserTokenTypes.hpp"$ */
#ifndef CUSTOM_API
# define CUSTOM_API
diff --git a/src/nco++/ncoTree.cpp b/src/nco++/ncoTree.cpp
index 057ce71..1c1621c 100644
--- a/src/nco++/ncoTree.cpp
+++ b/src/nco++/ncoTree.cpp
@@ -1,4 +1,4 @@
-/* $ANTLR 2.7.7 (20100319): "ncoGrammer.g" -> "ncoTree.cpp"$ */
+/* $ANTLR 2.7.7 (2006-11-01): "ncoGrammer.g" -> "ncoTree.cpp"$ */
#include "ncoTree.hpp"
#include <antlr/Token.hpp>
#include <antlr/AST.hpp>
diff --git a/src/nco++/ncoTree.hpp b/src/nco++/ncoTree.hpp
index f95447b..e6fbb8f 100644
--- a/src/nco++/ncoTree.hpp
+++ b/src/nco++/ncoTree.hpp
@@ -3,12 +3,12 @@
#include <antlr/config.hpp>
#include "ncoParserTokenTypes.hpp"
-/* $ANTLR 2.7.7 (20100319): "ncoGrammer.g" -> "ncoTree.hpp"$ */
+/* $ANTLR 2.7.7 (2006-11-01): "ncoGrammer.g" -> "ncoTree.hpp"$ */
#include <antlr/TreeParser.hpp>
#line 1 "ncoGrammer.g"
-/* $Header: /cvsroot/nco/nco/src/nco++/ncoTree.hpp,v 1.148 2014/02/19 17:22:12 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncoTree.hpp,v 1.149 2014/02/26 01:14:15 zender Exp $ */
/* Purpose: ANTLR Grammar and support files for ncap2 */
diff --git a/src/nco/Makefile.in b/src/nco/Makefile.in
index 65e84b9..92f7074 100644
--- a/src/nco/Makefile.in
+++ b/src/nco/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/src/nco/Makefile.in,v 1.151 2014/01/30 07:10:11 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/nco/Makefile.in,v 1.153 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
diff --git a/src/nco/ncap.h b/src/nco/ncap.h
index 0c9288a..05d6509 100644
--- a/src/nco/ncap.h
+++ b/src/nco/ncap.h
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncap.h,v 1.98 2013/12/31 05:14:01 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncap.h,v 1.99 2014/03/05 22:02:43 pvicente Exp $ */
/* Purpose: netCDF arithmetic processor definitions and function prototypes for ncap.c, ncap_utl.c, ncap_lex.l, and ncap_yacc.y */
@@ -65,11 +65,7 @@ typedef union nod_typ_tag{ /* Nie02 nodeTypeTag */
opr_nod_sct opr; /* [sct] Operator structure */
} nodeType;
-/* Name list structure (for subscript lists) */
-typedef struct{ /* nm_lst_sct */
- nm_id_sct *lst; /* [sct] List element */
- int nbr; /* [nbr] Number of structures in list */
-} nm_lst_sct;
+
/* Parse structure
prs_sct is easy to confuse with yylval since both are passed to lexer
diff --git a/src/nco/ncatted.c b/src/nco/ncatted.c
index 7beea3a..bdd4df7 100644
--- a/src/nco/ncatted.c
+++ b/src/nco/ncatted.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncatted.c,v 1.185 2014/02/06 21:07:52 pvicente Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncatted.c,v 1.186 2014/03/27 19:19:28 pvicente Exp $ */
/* ncatted -- netCDF attribute editor */
@@ -158,8 +158,8 @@ main(int argc,char **argv)
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncatted.c,v 1.185 2014/02/06 21:07:52 pvicente Exp $";
- const char * const CVS_Revision="$Revision: 1.185 $";
+ const char * const CVS_Id="$Id: ncatted.c,v 1.186 2014/03/27 19:19:28 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.186 $";
const char * const opt_sht_lst="Aa:D:hl:Oo:p:Rr-:";
#if defined(__cplusplus) || defined(PGI_CC)
@@ -371,7 +371,7 @@ main(int argc,char **argv)
trv_tbl_init(&trv_tbl);
/* Construct GTT (Group Traversal Table) */
- (void)nco_bld_trv_tbl(nc_id,trv_pth,(int)0,NULL,(int)0,NULL,False,False,NULL,(int)0,NULL,(int) 0,False,False,False,True,&flg_dne,trv_tbl);
+ (void)nco_bld_trv_tbl(nc_id,trv_pth,(int)0,NULL,(int)0,NULL,False,False,NULL,(int)0,NULL,(int) 0,False,False,False,True,nco_pck_plc_nil,&flg_dne,trv_tbl);
/* Timestamp end of metadata setup and disk layout */
rcd+=nco_ddra((char *)NULL,(char *)NULL,&ddra_info);
@@ -390,7 +390,7 @@ main(int argc,char **argv)
var_lst_in=nco_lst_prs_2D(aed_lst[idx_aed].var_nm,",",&var_lst_in_nbr);
trv_tbl_init(&trv_tbl_rx);
/* Construct GTT (Group Traversal Table) */
- (void)nco_bld_trv_tbl(nc_id,trv_pth,(int)0,NULL,(int)0,NULL,False,False,NULL,(int)0,var_lst_in,var_lst_in_nbr,False,False,False,False,&flg_dne,trv_tbl_rx);
+ (void)nco_bld_trv_tbl(nc_id,trv_pth,(int)0,NULL,(int)0,NULL,False,False,NULL,(int)0,var_lst_in,var_lst_in_nbr,False,False,False,False,nco_pck_plc_nil,&flg_dne,trv_tbl_rx);
/* Edit same attribute for all variables ... */
(void)nco_aed_prc_var_xtr(nc_id,aed_lst[idx_aed],trv_tbl_rx);
trv_tbl_free(trv_tbl_rx);
diff --git a/src/nco/ncbo.c b/src/nco/ncbo.c
index eba2898..58d7497 100644
--- a/src/nco/ncbo.c
+++ b/src/nco/ncbo.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncbo.c,v 1.287 2014/02/14 05:22:16 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncbo.c,v 1.297 2014/03/27 19:19:29 pvicente Exp $ */
/* ncbo -- netCDF binary operator */
@@ -132,8 +132,8 @@ main(int argc,char **argv)
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncbo.c,v 1.287 2014/02/14 05:22:16 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.287 $";
+ const char * const CVS_Id="$Id: ncbo.c,v 1.297 2014/03/27 19:19:29 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.297 $";
const char * const opt_sht_lst="3467ACcD:d:FG:g:hL:l:Oo:p:rRt:v:X:xzy:-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -191,7 +191,7 @@ main(int argc,char **argv)
int nbr_var_fl_1; /* [nbr] Number of atomic-type variables in file */
int nbr_var_fl_2; /* [nbr] Number of atomic-type variables in file */
int nbr_gpe_nm; /* [nbr] Number of GPE entries */
- int nbr_cmn_nm; /* [nbr] Number of common entries */
+ int nbr_cmn_nm=0; /* [nbr] Number of common entries */
int nco_op_typ=nco_op_nil; /* [enm] Operation type */
int opt;
int out_id;
@@ -536,8 +536,8 @@ main(int argc,char **argv)
in_id_2=in_id_2_arr[0];
/* Construct GTT, Group Traversal Table (groups,variables,dimensions, limits) */
- (void)nco_bld_trv_tbl(in_id_1,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,var_lst_in_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne1,trv_tbl_1);
- (void)nco_bld_trv_tbl(in_id_2,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,var_lst_in_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne2,trv_tbl_2);
+ (void)nco_bld_trv_tbl(in_id_1,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,var_lst_in_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne1,trv_tbl_1);
+ (void)nco_bld_trv_tbl(in_id_2,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,var_lst_in_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne2,trv_tbl_2);
/* Merge DNE lists before checking */
flg_dne=(nco_dmn_dne_t *)nco_malloc(2*lmt_nbr*sizeof(nco_dmn_dne_t));
@@ -575,14 +575,11 @@ main(int argc,char **argv)
if(fl_out_fmt != NC_FORMAT_NETCDF4) (void)fprintf(stderr,"%s: WARNING Group Path Edit (GPE) requires netCDF4 output format in most cases (except flattening) but user explicitly requested output format = %s. This command will fail if the output file requires netCDF4 features like groups or netCDF4 atomic types (e.g., NC_STRING, NC_UBYTE...).\n",nco_prg_nm_get(),nco_fmt_sng(fl_out_fmt));
} /* !gpe */
- /* Match 2 tables (find common objects) and export common objects */
- (void)trv_tbl_mch(trv_tbl_1,trv_tbl_2,&cmn_lst,&nbr_cmn_nm);
-
/* Is this a CCM/CCSM/CF-format history tape? */
CNV_CCM_CCSM_CF=nco_cnv_ccm_ccsm_cf_inq(in_id_1);
-
- /* Process common objects (DEFINE mode, True as flg_dfn parameter) */
- (void)nco_prc_cmn_nm(in_id_1,in_id_2,out_id,&cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,cmn_lst,nbr_cmn_nm,(nco_bool)True);
+
+ /* Group broadcating (DEFINE mode, True as flg_dfn parameter) */
+ (void)nco_grp_brd(in_id_1,in_id_2,out_id,&cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,(nco_bool)True);
/* Copy global attributes from file 1 */
(void)nco_att_cpy(in_id_1,out_id,NC_GLOBAL,NC_GLOBAL,(nco_bool)True);
@@ -601,8 +598,8 @@ main(int argc,char **argv)
if(nco_dbg_lvl >= nco_dbg_scl) (void)fprintf(stderr,"%s: INFO Padding header with %lu extra bytes\n",nco_prg_nm_get(),(unsigned long)hdr_pad);
} /* hdr_pad */
- /* Process common objects (WRITE mode, False as flg_dfn parameter) */
- (void)nco_prc_cmn_nm(in_id_1,in_id_2,out_id,&cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,cmn_lst,nbr_cmn_nm,(nco_bool)False);
+ /* Group broadcating (WRITE mode, False as flg_dfn parameter) */
+ (void)nco_grp_brd(in_id_1,in_id_2,out_id,&cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,(nco_bool)False);
/* Close input netCDF files */
for(thr_idx=0;thr_idx<thr_nbr;thr_idx++) nco_close(in_id_1_arr[thr_idx]);
@@ -654,7 +651,6 @@ main(int argc,char **argv)
flg_dne1=(nco_dmn_dne_t *)nco_free(flg_dne1);
for(idx=0;idx<lmt_nbr;idx++) flg_dne2[idx].dim_nm=(char *)nco_free(flg_dne2[idx].dim_nm);
flg_dne2=(nco_dmn_dne_t *)nco_free(flg_dne2);
- for(idx=0;idx<lmt_nbr;idx++) flg_dne[idx].dim_nm=(char *)nco_free(flg_dne[idx].dim_nm);
flg_dne=(nco_dmn_dne_t *)nco_free(flg_dne);
} /* !flg_cln */
diff --git a/src/nco/ncecat.c b/src/nco/ncecat.c
index 9c077a1..5e98854 100644
--- a/src/nco/ncecat.c
+++ b/src/nco/ncecat.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncecat.c,v 1.362 2014/02/11 16:17:23 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncecat.c,v 1.363 2014/03/27 19:19:29 pvicente Exp $ */
/* ncecat -- netCDF ensemble concatenator */
@@ -124,8 +124,8 @@ main(int argc,char **argv)
char grp_out_sfx[NCO_GRP_OUT_SFX_LNG+1L];
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncecat.c,v 1.362 2014/02/11 16:17:23 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.362 $";
+ const char * const CVS_Id="$Id: ncecat.c,v 1.363 2014/03/27 19:19:29 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.363 $";
const char * const opt_sht_lst="3467ACcD:d:Fg:G:HhL:l:Mn:Oo:p:rRt:u:v:X:x-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -537,7 +537,7 @@ main(int argc,char **argv)
(void)nco_inq_format(in_id,&fl_in_fmt);
/* Construct GTT, Group Traversal Table (groups,variables,dimensions, limits) */
- (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne,trv_tbl);
+ (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne,trv_tbl);
/* Check if all input -d dimensions were found */
(void)nco_chk_dmn(lmt_nbr,flg_dne);
@@ -746,7 +746,7 @@ main(int argc,char **argv)
trv_tbl_init(&trv_tbl_gpr);
/* Construct GTT, Group Traversal Table (groups,variables,dimensions, limits) */
- (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr_rgn,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne,trv_tbl_gpr);
+ (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr_rgn,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne,trv_tbl_gpr);
/* Get number of variables, dimensions, and global attributes in file, file format */
(void)trv_tbl_inq((int *)NULL,(int *)NULL,(int *)NULL,&nbr_dmn_fl,(int *)NULL,(int *)NULL,(int *)NULL,(int *)NULL,&nbr_var_fl,trv_tbl_gpr);
diff --git a/src/nco/ncflint.c b/src/nco/ncflint.c
index f655399..46edf15 100644
--- a/src/nco/ncflint.c
+++ b/src/nco/ncflint.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncflint.c,v 1.287 2014/02/11 16:17:23 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncflint.c,v 1.288 2014/03/27 19:19:29 pvicente Exp $ */
/* ncflint -- netCDF file interpolator */
@@ -116,8 +116,8 @@ main(int argc,char **argv)
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncflint.c,v 1.287 2014/02/11 16:17:23 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.287 $";
+ const char * const CVS_Id="$Id: ncflint.c,v 1.288 2014/03/27 19:19:29 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.288 $";
const char * const opt_sht_lst="3467ACcD:d:Fg:G:hi:L:l:Oo:p:rRt:v:X:xw:-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -559,7 +559,7 @@ main(int argc,char **argv)
trv_tbl_init(&trv_tbl);
/* Construct GTT, Group Traversal Table (groups,variables,dimensions, limits) */
- (void)nco_bld_trv_tbl(in_id_1,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne,trv_tbl);
+ (void)nco_bld_trv_tbl(in_id_1,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne,trv_tbl);
/* Check if all input -d dimensions were found */
(void)nco_chk_dmn(lmt_nbr,flg_dne);
diff --git a/src/nco/ncks.c b/src/nco/ncks.c
index d8df587..465f6c3 100644
--- a/src/nco/ncks.c
+++ b/src/nco/ncks.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncks.c,v 1.710 2014/02/17 23:12:37 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncks.c,v 1.711 2014/03/27 19:19:29 pvicente Exp $ */
/* ncks -- netCDF Kitchen Sink */
@@ -165,8 +165,8 @@ main(int argc,char **argv)
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncks.c,v 1.710 2014/02/17 23:12:37 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.710 $";
+ const char * const CVS_Id="$Id: ncks.c,v 1.711 2014/03/27 19:19:29 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.711 $";
const char * const opt_sht_lst="34567aABb:CcD:d:FG:g:HhL:l:MmOo:Pp:qQrRs:uv:X:xz-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -681,7 +681,7 @@ main(int argc,char **argv)
rcd+=nco_fl_open(fl_in,md_open,&bfr_sz_hnt,&in_id);
/* Construct GTT (Group Traversal Table), check -v and -g input names and create extraction list*/
- (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne,trv_tbl);
+ (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne,trv_tbl);
/* Check if all input -d dimensions were found */
(void)nco_chk_dmn(lmt_nbr,flg_dne);
diff --git a/src/nco/nco.h b/src/nco/nco.h
index 68d7ac6..d40a072 100644
--- a/src/nco/nco.h
+++ b/src/nco/nco.h
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco.h,v 1.489 2014/02/18 06:38:36 pvicente Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco.h,v 1.506 2014/03/26 18:55:58 pvicente Exp $ */
/* Purpose: netCDF Operator (NCO) definitions */
@@ -802,7 +802,7 @@ extern "C" {
char *dmn_nm; /* [sng] Dimension name */
long dmn_sz_org; /* [nbr] Original size of dimension */
long dmn_cnt; /* [nbr] Hyperslabbed size of dimension */
- nco_bool BASIC_DMN; /* [flg] Limit is same as dimension in input file */
+ nco_bool NON_HYP_DMN; /* [flg] Limit is same as dimension in input file */
nco_bool WRP; /* [flg] Limit is wrapped (true if wrapping, lmt_dmn_nbr==2) */
nco_bool MSA_USR_RDR; /* [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
int lmt_dmn_nbr; /* [nbr] Number of lmt arguments */
@@ -947,6 +947,7 @@ extern "C" {
/* Dimension structure */
typedef struct dmn_sct_tag{ /* dmn_sct */
char *nm; /* [sng] Dimension name */
+ char *nm_fll; /* [sng] Dimension full name */
char fmt[5]; /* [sng] Hint for printf()-style formatting */
int cid; /* [id] Variable ID of associated coordinate, if any */
int id; /* [id] Dimension ID */
@@ -971,16 +972,18 @@ extern "C" {
int var_nbr; /* [nbr] Number of variable for this group (size of above array) */
} nsm_grp_sct;
+
/* Ensemble (ncge) */
typedef struct{
char *grp_nm_fll_prn; /* [sng] Parent group full name (key for ensemble) (e.g., /cesm) */
nsm_grp_sct *mbr; /* [sng] List of ensemble group member structs (size is mbr_nbr) */
- char **var_mbr_fll; /* [sng] List of variable ensemble members (e.g., /cesm/cesm_01/tas) */
- char **grp_mbr_fll; /* [sng] List of group ensemble members (e.g., /cesm/cesm_01) */
- int mbr_nbr; /* [nbr] Number of members (groups) of ensemble (i.e., number in this ensemble in this file) */
- int mbr_var_nbr; /* [nbr] Number of variable members of ensemble */
- int mbr_srt; /* [nbr] Member offsets (multi files, keep track of new added members) */
- int mbr_end; /* [nbr] Member offsets (multi files, keep track of new added members) */
+ int mbr_nbr; /* [nbr] Number of members (groups) of ensemble (i.e., number in this ensemble in this file) */
+ char **tpl_mbr_nm; /* [sng] List of variable that act as templates (first, store relative name) (e.g., /cesm/cesm_01/tas) */
+ int tpl_nbr; /* [nbr] Number of variables that are templates in group */
+ char **skp_nm_fll; /* [sng] Skip list (fixed variables to define at ensemble parent group, store full name) (e.g., /cesm/cesm_01/time) */
+ int skp_nbr; /* [nbr] Number of skip list variables */
+ int mbr_srt; /* [nbr] Member offsets, start (multi files, keep track of new added members) */
+ int mbr_end; /* [nbr] Member offsets, end (multi files, keep track of new added members) */
} nsm_sct;
@@ -990,16 +993,15 @@ extern "C" {
} nm_sct;
/* Name list structure */
- typedef struct{ /* nm_tbl_sct */
+ typedef struct{
nm_sct *lst; /* [sct] List of nm_sct (char * currently) */
int nbr; /* [nbr] Number of items in "lst" array */
- } nm_tbl_sct;
+ } nm_lst_sct;
/* GTT (Group Traversal Table) structure contains two lists
1) lst: All objects (variables and groups) in file tree (HDF5 model)
2) lst_dmn: All unique dimensions (in groups) in file tree (netCDF addition to HDF5) */
typedef struct{
- /* Members used by all operators */
trv_sct *lst; /* [sct] Array of trv_sct */
unsigned int nbr; /* [nbr] Number of trv_sct elements */
dmn_trv_sct *lst_dmn; /* [sct] Array of dmn_trv_sct */
@@ -1010,7 +1012,6 @@ extern "C" {
int nsm_nbr; /* [nbr] (ncge) Number of ensembles (i.e., number in first file) */
nsm_sct *nsm; /* [lst] (ncge) List of ensembles (size is nsm_nbr) */
char *nsm_sfx; /* [sng] (ncge) Ensemble suffix (e.g., /cesm + _avg). Store here instead of passing as function parameters (ncge only) */
- nm_tbl_sct *nsm_skp; /* [lst] (ncge) Skip list (fixed variables to define at ensemble parent group) */
} trv_tbl_sct;
/* GPE duplicate name check structure */
@@ -1097,7 +1098,7 @@ extern "C" {
char *nm_fll; /* [sng] Full dimension name */
nco_bool is_rec_dmn; /* [flg] Is a record dimension/coordinate? */
size_t sz; /* [nbr] Size of dimension/coordinate */
- nco_bool BASIC_DMN; /* [flg] Limit is same as dimension in input file */
+ nco_bool NON_HYP_DMN; /* [flg] Limit is same as dimension in input file */
size_t dmn_cnt; /* [nbr] Hyperslabbed size of dimension */
int id; /* [id] Dimension ID */
} dmn_cmn_sct;
diff --git a/src/nco/nco_cnk.c b/src/nco/nco_cnk.c
index 031d24e..1096cec 100644
--- a/src/nco/nco_cnk.c
+++ b/src/nco/nco_cnk.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_cnk.c,v 1.119 2014/02/19 21:58:56 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_cnk.c,v 1.121 2014/03/21 03:11:18 pvicente Exp $ */
/* Purpose: NCO utilities for chunking */
@@ -664,13 +664,13 @@ nco_cnk_sz_set /* [fnc] Set chunksize parameters */
} /* !nco_cnk_map_rd1 */
/* Record dimension size in output file is zero until first write
Obtain record dimension size from lmt_all structure */
- if(lmt_all_lst[lmt_idx_rec]->BASIC_DMN){
+ if(lmt_all_lst[lmt_idx_rec]->NON_HYP_DMN){
/* When not hyperslabbed, use input record dimension size ... */
cnk_sz[dmn_idx]=lmt_all_lst[lmt_idx_rec]->dmn_sz_org;
- }else{ /* !BASIC_DMN */
+ }else{ /* !NON_HYP_DMN */
/* ... and when hyperslabbed, use user-specified count */
cnk_sz[dmn_idx]=lmt_all_lst[lmt_idx_rec]->dmn_cnt;
- } /* !BASIC_DMN */
+ } /* !NON_HYP_DMN */
}else{ /* !record dimension */
/* Set non-record dimensions to default, possibly over-ride later */
cnk_sz[dmn_idx]=dmn_sz;
@@ -682,13 +682,13 @@ nco_cnk_sz_set /* [fnc] Set chunksize parameters */
/* Propagate scalar chunksize, if specified */
if(cnk_sz_dfl > 0UL){
if(dmn_id[dmn_idx] == rcd_dmn_id){
- if(lmt_all_lst[lmt_idx_rec]->BASIC_DMN){
+ if(lmt_all_lst[lmt_idx_rec]->NON_HYP_DMN){
/* When not hyperslabbed, use input record dimension size ... */
cnk_sz[dmn_idx]=(cnk_sz_dfl <= (size_t)lmt_all_lst[lmt_idx_rec]->dmn_sz_org) ? cnk_sz_dfl : (size_t)lmt_all_lst[lmt_idx_rec]->dmn_sz_org;
- }else{ /* !BASIC_DMN */
+ }else{ /* !NON_HYP_DMN */
/* ... and when hyperslabbed, use user-specified count */
cnk_sz[dmn_idx]=(cnk_sz_dfl <= (size_t)lmt_all_lst[lmt_idx_rec]->dmn_cnt) ? cnk_sz_dfl : (size_t)lmt_all_lst[lmt_idx_rec]->dmn_cnt;
- } /* !BASIC_DMN */
+ } /* !NON_HYP_DMN */
}else{ /* !rcd_dmn_id */
/* Non-record sizes default to cnk_sz_dfl or to dimension size */
cnk_sz[dmn_idx]=(cnk_sz_dfl <= (size_t)dmn_sz) ? cnk_sz_dfl : (size_t)dmn_sz;
@@ -703,15 +703,15 @@ cnk_xpl_override: /* end goto */
if(!strcmp(cnk_dmn[cnk_idx]->nm,dmn_nm)){
cnk_sz[dmn_idx]=cnk_dmn[cnk_idx]->sz;
if(dmn_id[dmn_idx] == rcd_dmn_id){
- if(lmt_all_lst[lmt_idx_rec]->BASIC_DMN){
+ if(lmt_all_lst[lmt_idx_rec]->NON_HYP_DMN){
if(cnk_sz[dmn_idx] > (size_t)lmt_all_lst[lmt_idx_rec]->dmn_sz_org){
(void)fprintf(stderr,"%s: WARNING %s allowing user-specified record dimension chunksize = %lu for %s to exceed record dimension size in input file = %lu. May fail if output file is not concatenated from multiple inputs.\n",nco_prg_nm_get(),fnc_nm,(unsigned long)cnk_dmn[cnk_idx]->sz,dmn_nm,lmt_all_lst[lmt_idx_rec]->dmn_sz_org);
} /* endif too big */
- }else{ /* !BASIC_DMN */
+ }else{ /* !NON_HYP_DMN */
if(cnk_sz[dmn_idx] > (size_t)lmt_all_lst[lmt_idx_rec]->dmn_cnt){
(void)fprintf(stderr,"%s: WARNING %s allowing user-specified record dimension chunksize = %lu for %s to exceed user-specified record dimension hyperslab size in input file = %lu. May fail if output file is not concatenated from multiple inputs.\n",nco_prg_nm_get(),fnc_nm,(unsigned long)cnk_dmn[cnk_idx]->sz,dmn_nm,lmt_all_lst[lmt_idx_rec]->dmn_cnt);
} /* endif too big */
- } /* !BASIC_DMN */
+ } /* !NON_HYP_DMN */
}else{ /* !rcd_dmn_id */
if(cnk_sz[dmn_idx] > (size_t)dmn_sz){
/* dmn_sz of record dimension may (will) be zero in output file
@@ -964,13 +964,13 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
} /* !nco_cnk_map_rd1 */
/* Record dimension size in output file is zero until first write
Obtain record dimension size from lmt_all structure (for nco_cnk_sz_set()) */
- if(dmn_cmn[dmn_idx].BASIC_DMN){
+ if(dmn_cmn[dmn_idx].NON_HYP_DMN){
/* When not hyperslabbed, use input record dimension size ... */
cnk_sz[dmn_idx]=dmn_cmn[dmn_idx].sz;
- }else{ /* !BASIC_DMN */
+ }else{ /* !NON_HYP_DMN */
/* ... and when hyperslabbed, use user-specified count */
cnk_sz[dmn_idx]=dmn_cmn[dmn_idx].dmn_cnt;
- } /* !BASIC_DMN */
+ } /* !NON_HYP_DMN */
}else{ /* !record dimension */
/* Set non-record dimensions to default, possibly override later */
cnk_sz[dmn_idx]=dmn_cmn[dmn_idx].sz;
@@ -1029,7 +1029,7 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
for(dmn_idx=0;dmn_idx<=dmn_nbr-1;dmn_idx++){
/* Store shape for future use */
/* 20140131: fxm this gets wrong value for input record dimension size unless hyperslabbed. Why? */
- if(dmn_cmn[dmn_idx].is_rec_dmn) var_shp[dmn_idx]= (dmn_cmn[dmn_idx].BASIC_DMN) ? dmn_cmn[dmn_idx].dmn_cnt : dmn_cmn[dmn_idx].sz; else var_shp[dmn_idx]= (dmn_cmn[dmn_idx].BASIC_DMN) ? dmn_cmn[dmn_idx].sz : dmn_cmn[dmn_idx].dmn_cnt;
+ if(dmn_cmn[dmn_idx].is_rec_dmn) var_shp[dmn_idx]= (dmn_cmn[dmn_idx].NON_HYP_DMN) ? dmn_cmn[dmn_idx].dmn_cnt : dmn_cmn[dmn_idx].sz; else var_shp[dmn_idx]= (dmn_cmn[dmn_idx].NON_HYP_DMN) ? dmn_cmn[dmn_idx].sz : dmn_cmn[dmn_idx].dmn_cnt;
assert(var_shp[dmn_idx] > 0L);
/* Determine hyperslab size */
dmn_sz_prd*=var_shp[dmn_idx];
@@ -1066,13 +1066,13 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++){
/* Is this a record dimension? */
if(dmn_cmn[dmn_idx].is_rec_dmn){
- if(dmn_cmn[dmn_idx].BASIC_DMN){
+ if(dmn_cmn[dmn_idx].NON_HYP_DMN){
/* When not hyperslabbed, use input record dimension size ... */
cnk_sz[dmn_idx]=(cnk_sz_dfl <= (size_t)dmn_cmn[dmn_idx].sz) ? cnk_sz_dfl : (size_t)dmn_cmn[dmn_idx].sz;
- }else{ /* !BASIC_DMN */
+ }else{ /* !NON_HYP_DMN */
/* ... and when hyperslabbed, use user-specified count */
cnk_sz[dmn_idx]=(cnk_sz_dfl <= (size_t)dmn_cmn[dmn_idx].dmn_cnt) ? cnk_sz_dfl : (size_t)dmn_cmn[dmn_idx].dmn_cnt;
- } /* !BASIC_DMN */
+ } /* !NON_HYP_DMN */
}else{ /* !rec_dmn_id */
/* Non-record sizes default to cnk_sz_dfl or to dimension size */
// cnk_sz[dmn_idx]=(cnk_sz_dfl <= (size_t)dmn_cmn[dmn_idx].sz) ? cnk_sz_dfl : (size_t)dmn_cmn[dmn_idx].sz;
@@ -1104,15 +1104,16 @@ cnk_xpl_override: /* end goto */
if(dmn_cmn[dmn_idx].is_rec_dmn){
/* dmn_sz of record dimension can/will be zero in output file
Allow (though warn) when cnk_sz > dmn_sz in such cases */
- if(dmn_cmn[dmn_idx].BASIC_DMN){
- if(cnk_sz[dmn_idx] > (size_t)dmn_cmn[dmn_idx].sz){
- (void)fprintf(stderr,"%s: WARNING %s allowing user-specified record dimension %s chunksize %lu which exceeds current record dimension size in output file = %lu. May fail if output file is not concatenated from multiple inputs.\n",nco_prg_nm_get(),fnc_nm,dmn_cmn[dmn_idx].nm,(unsigned long)cnk_dmn[cnk_idx]->sz,(unsigned long)dmn_cmn[dmn_idx].sz);
+ if(dmn_cmn[dmn_idx].NON_HYP_DMN){
+ if(dmn_cmn[dmn_idx].sz > 0 && /* Warn only after records have been written */
+ cnk_sz[dmn_idx] > (size_t)dmn_cmn[dmn_idx].sz){
+ (void)fprintf(stderr,"%s: WARNING %s allowing user-specified record dimension %s chunksize %lu which exceeds current output file record dimension size = %lu. May fail if output file is not concatenated from multiple inputs.\n",nco_prg_nm_get(),fnc_nm,dmn_cmn[dmn_idx].nm,(unsigned long)cnk_dmn[cnk_idx]->sz,(unsigned long)dmn_cmn[dmn_idx].sz);
} /* endif too big */
- }else{ /* !BASIC_DMN */
+ }else{ /* !NON_HYP_DMN */
if(cnk_sz[dmn_idx] > (size_t)dmn_cmn[dmn_idx].dmn_cnt){
(void)fprintf(stderr,"%s: WARNING %s allowing user-specified record dimension %s chunksize = %lu which exceeds user-specified record dimension input hyperslab size = %lu. May fail if output file is not concatenated from multiple inputs.\n",nco_prg_nm_get(),fnc_nm,dmn_cmn[dmn_idx].nm,(unsigned long)cnk_dmn[cnk_idx]->sz,(unsigned long)dmn_cmn[dmn_idx].dmn_cnt);
} /* endif too big */
- } /* !BASIC_DMN */
+ } /* !NON_HYP_DMN */
}else{ /* !rcd_dmn_id */
if(cnk_sz[dmn_idx] > (size_t)dmn_cmn[dmn_idx].sz){
/* Unlike record dimensions, non-record dimensions must have cnk_sz <= dmn_sz */
diff --git a/src/nco/nco_cnv_csm.c b/src/nco/nco_cnv_csm.c
index 3f2d99d..c4234e7 100644
--- a/src/nco/nco_cnv_csm.c
+++ b/src/nco/nco_cnv_csm.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_cnv_csm.c,v 1.111 2014/02/19 04:27:43 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_cnv_csm.c,v 1.113 2014/03/26 18:55:58 pvicente Exp $ */
/* Purpose: CCM/CCSM/CF conventions */
@@ -54,7 +54,7 @@ nco_cnv_ccm_ccsm_cf_inq /* O [fnc] Check if file obeys CCM/CCSM/CF conventions *
(void)fprintf(stderr,"%s: CONVENTION File \"%s\" attribute is \"%s\"\n",nco_prg_nm_get(),cnv_sng,att_val);
if(cnv_sng == cnv_sng_LC) (void)fprintf(stderr,"%s: WARNING: This file uses a non-standard attribute (\"%s\") to indicate the netCDF convention. The correct attribute is \"%s\".\n",nco_prg_nm_get(),cnv_sng_LC,cnv_sng_UC);
/* Only warn in arithmetic operators where conventions change behavior */
- if(nco_dbg_lvl_get() >= nco_dbg_fl && nco_is_rth_opr(nco_prg_id_get())) (void)fprintf(stderr,"%s: INFO NCO has a unified (though incomplete) treatment of many related (official and unoffical) conventions including the older CCM and CCSM and newer CF conventions. To adhere to these conventions, NCO implements variable-specific exceptions in certain operators, e.g., ncbo will not subtract variables named \"date\" or \"gw\", and many operators will always leave coordinate variables un [...]
+ if(nco_dbg_lvl_get() >= nco_dbg_fl && nco_dbg_lvl_get() != nco_dbg_dev && nco_is_rth_opr(nco_prg_id_get())) (void)fprintf(stderr,"%s: INFO NCO has a unified (though incomplete) treatment of many related (official and unoffical) conventions including the older CCM and CCSM and newer CF conventions. To adhere to these conventions, NCO implements variable-specific exceptions in certain operators, e.g., ncbo will not subtract variables named \"date\" or \"gw\", and many operators will [...]
} /* endif dbg */
att_val=(char *)nco_free(att_val);
} /* endif */
@@ -292,7 +292,7 @@ nco_cnv_cf_cll_mth_add /* [fnc] Add cell_methods attributes */
/* Allocate space for maximum number of matching dimensions */
dmn_mch=(int *)nco_calloc(dmn_nbr_rdc,sizeof(int));
-
+
/* Process all variables */
for(var_idx=0;var_idx<var_nbr;var_idx++){
@@ -320,15 +320,16 @@ nco_cnv_cf_cll_mth_add /* [fnc] Add cell_methods attributes */
/* Format: blank-separated phrases of form "dmn1[, dmn2[...]]: op_typ" */
for(dmn_idx_var=0;dmn_idx_var<var_trv->nbr_dmn;dmn_idx_var++){
for(dmn_idx_rdc=0;dmn_idx_rdc<dmn_nbr_rdc;dmn_idx_rdc++){
- /* 20140216 fxm: broken? should compare full names not short names? */
- if(!strcmp(var_trv->var_dmn[dmn_idx_var].dmn_nm,dmn_rdc[dmn_idx_rdc]->nm)){
- /* Add length of each matching dimension to accumulating attribute size */
+ assert(dmn_rdc[dmn_idx_rdc]->nm_fll);
+ /* Compare full names */
+ if(!strcmp(var_trv->var_dmn[dmn_idx_var].dmn_nm_fll,dmn_rdc[dmn_idx_rdc]->nm_fll)){
+ /* Add length of each matching dimension to accumulating attribute size */
aed.sz+=strlen(dmn_rdc[dmn_idx_rdc]->nm);
dmn_mch[dmn_nbr_mch++]=dmn_idx_rdc;
} /* !match */
} /* dmn_idx_rdc */
} /* dmn_idx_var */
-
+
assert(dmn_nbr_mch != 0);
/* Preserve rule to always return averages (never extrema or other statistics) of coordinates */
@@ -351,7 +352,7 @@ nco_cnv_cf_cll_mth_add /* [fnc] Add cell_methods attributes */
if(nco_dbg_lvl_get() >= nco_dbg_var) (void)fprintf(stdout,"%s: DEBUG %s reports variable %s cell_method not implemented for operation %d\n",nco_prg_nm_get(),fnc_nm,var_trv->nm_fll,nco_op_typ);
continue;
} /* End switch */
-
+
/* Initialize to size of ": " plus length of operation string */
aed.sz+=2L+strlen(att_op_sng);
/* Add room for commas and spaces, i.e., "dmn1, dmn2, dmn3" */
diff --git a/src/nco/nco_ctl.c b/src/nco/nco_ctl.c
index 65a4241..5f0681f 100644
--- a/src/nco/nco_ctl.c
+++ b/src/nco/nco_ctl.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_ctl.c,v 1.463 2014/02/17 23:17:21 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_ctl.c,v 1.466 2014/04/02 05:40:24 zender Exp $ */
/* Purpose: Program flow control functions */
@@ -799,7 +799,7 @@ nco_nmn_get(void) /* [fnc] Return mnemonic that describes current NCO version */
{
/* Purpose: Return mnemonic describing current NCO version
Always Include terminal \n so mnemonic does not dangle */
- return "Dreams about Laura at Co-op, Shari in restaurant, John at conference\n";
+ return "ESDSWG. DC. Bombay. Gut. Dislodge. Did we really say those words? Fantasies.\n";
} /* end nco_nmn_get() */
char * /* O [sng] nm_in stripped of any path (i.e., program name stub) */
@@ -958,7 +958,7 @@ nco_usg_prn(void)
if(strstr(opt_sng,"[-4]")) (void)fprintf(stdout,"-4, --4, --netcdf4\t\tOutput file in netCDF4 (HDF5) storage format\n");
#endif /* !ENABLE_NETCDF4 */
if(strstr(opt_sng,"[-5]")) (void)fprintf(stdout,"-5, --5, \t\tPrint alphabetically by group then variable\n");
- if(strstr(opt_sng,"[-6]")) (void)fprintf(stdout,"-6, --64, --fl_fmt=64bit\tOutput file in netCDF3 64-bit offset storage format\n");
+ if(strstr(opt_sng,"[-6]")) (void)fprintf(stdout,"-6, --6, --64, --fl_fmt=64bit\tOutput file in netCDF3 64-bit offset storage format\n");
if(strstr(opt_sng,"[-7]")) (void)fprintf(stdout,"-7, --7, --fl_fmt=netcdf4_classic\tOutput file in netCDF4 CLASSIC format (3+4=7)\n");
if(strstr(opt_sng,"[-A]")) (void)fprintf(stdout,"-A, --apn, --append\tAppend to existing output file, if any\n");
if(strstr(opt_sng,"[-a")){
diff --git a/src/nco/nco_grp_trv.c b/src/nco/nco_grp_trv.c
index 9f913a8..08a023a 100644
--- a/src/nco/nco_grp_trv.c
+++ b/src/nco/nco_grp_trv.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_trv.c,v 1.274 2014/02/18 06:38:36 pvicente Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_trv.c,v 1.289 2014/03/25 22:14:11 pvicente Exp $ */
/* Purpose: netCDF4 traversal storage */
@@ -35,8 +35,6 @@ trv_tbl_init /* [fnc] GTT initialize */
tb->nsm=NULL;
tb->nsm_sfx=NULL;
- tb->nsm_skp=NULL;
-
*tbl=tb;
} /* trv_tbl_init() */
@@ -144,12 +142,12 @@ trv_tbl_free /* [fnc] GTT free memory */
for(int idx_nsm=0;idx_nsm<tbl->nsm_nbr;idx_nsm++){
tbl->nsm[idx_nsm].grp_nm_fll_prn=(char *)nco_free(tbl->nsm[idx_nsm].grp_nm_fll_prn);
- for(int idx_var_mbr=0;idx_var_mbr<tbl->nsm[idx_nsm].mbr_var_nbr;idx_var_mbr++){
- tbl->nsm[idx_nsm].var_mbr_fll[idx_var_mbr]=(char *)nco_free(tbl->nsm[idx_nsm].var_mbr_fll[idx_var_mbr]);
+ for(int idx=0;idx<tbl->nsm[idx_nsm].tpl_nbr;idx++){
+ tbl->nsm[idx_nsm].tpl_mbr_nm[idx]=(char *)nco_free(tbl->nsm[idx_nsm].tpl_mbr_nm[idx]);
}
- for(int idx_var_mbr=0;idx_var_mbr<tbl->nsm[idx_nsm].mbr_nbr;idx_var_mbr++){
- tbl->nsm[idx_nsm].grp_mbr_fll[idx_var_mbr]=(char *)nco_free(tbl->nsm[idx_nsm].grp_mbr_fll[idx_var_mbr]);
+ for(int idx=0;idx<tbl->nsm[idx_nsm].skp_nbr;idx++){
+ tbl->nsm[idx_nsm].skp_nm_fll[idx]=(char *)nco_free(tbl->nsm[idx_nsm].skp_nm_fll[idx]);
}
tbl->nsm[idx_nsm].mbr=(nsm_grp_sct*)nco_free(tbl->nsm[idx_nsm].mbr);
@@ -157,12 +155,6 @@ trv_tbl_free /* [fnc] GTT free memory */
tbl->nsm_sfx=(char *)nco_free(tbl->nsm_sfx);
- if(tbl->nsm_skp){
- for(int idx=0;idx<tbl->nsm_skp->nbr;idx++){
- tbl->nsm_skp->lst[idx].nm=(char *)nco_free(tbl->nsm_skp->lst[idx].nm);
- }
- }
-
tbl=(trv_tbl_sct *)nco_free(tbl);
} /* end trv_tbl_free() */
@@ -200,8 +192,8 @@ trv_tbl_inq /* [fnc] Find and return global totals of d
var_ntm_lcl=0;
var_tmc_lcl=0;
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct trv=trv_tbl->lst[idx_tbl];
if(trv.nco_typ == nco_obj_typ_var) att_var_lcl+=trv.nbr_att;
if(trv.nco_typ == nco_obj_typ_nonatomic_var) var_ntm_lcl++;
if(trv.nco_typ == nco_obj_typ_grp){
@@ -210,10 +202,10 @@ trv_tbl_inq /* [fnc] Find and return global totals of d
if(grp_dpt_lcl < trv.grp_dpt) grp_dpt_lcl=trv.grp_dpt;
if(!strcmp(trv.nm_fll,"/")) att_glb_lcl=trv.nbr_att; else att_grp_lcl+=trv.nbr_att;
} /* end nco_obj_typ_grp */
- } /* end uidx */
+ } /* end idx_tbl */
- for(unsigned uidx=0;uidx<trv_tbl->nbr_dmn;uidx++)
- if(trv_tbl->lst_dmn[uidx].is_rec_dmn) dmn_rec_lcl++;
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr_dmn;idx_tbl++)
+ if(trv_tbl->lst_dmn[idx_tbl].is_rec_dmn) dmn_rec_lcl++;
if(att_glb_all) *att_glb_all=att_glb_lcl;
if(att_grp_all) *att_grp_all=att_grp_lcl;
@@ -259,11 +251,11 @@ void
trv_tbl_prn /* [fnc] Print table with -z */
(const trv_tbl_sct * const trv_tbl) /* I [sct] Traversal table */
{
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct trv=trv_tbl->lst[idx_tbl];
if(trv.nco_typ == nco_obj_typ_grp) (void)fprintf(stdout,"grp: "); else (void)fprintf(stdout,"var: ");
- (void)fprintf(stdout,"%s\n",trv_tbl->lst[uidx].nm_fll);
- } /* end uidx */
+ (void)fprintf(stdout,"%s\n",trv_tbl->lst[idx_tbl].nm_fll);
+ } /* end idx_tbl */
} /* end trv_tbl_prn() */
nco_bool /* O [flg] Item found or not */
@@ -271,8 +263,8 @@ trv_tbl_fnd_var_nm_fll /* [fnc] Check if "var_nm_fll" is in table
(const char * const var_nm_fll, /* I [sng] Variable name to find */
const trv_tbl_sct * const trv_tbl) /* I [sct] Traversal table */
{
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++)
- if(trv_tbl->lst[uidx].nco_typ == nco_obj_typ_var && !strcmp(var_nm_fll,trv_tbl->lst[uidx].nm_fll))
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++)
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && !strcmp(var_nm_fll,trv_tbl->lst[idx_tbl].nm_fll))
return True;
return False;
@@ -290,8 +282,8 @@ trv_tbl_var_nm_fll /* [fnc] Return variable object from full
HASH_FIND_STR(trv_tbl->hsh,var_nm_fll,trv_obj);
if(trv_obj && trv_obj->nco_typ == nco_obj_typ_var) return trv_obj; else return NULL;
#else /* !NCO_HSH_TRV_OBJ */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++)
- if(trv_tbl->lst[uidx].nco_typ == nco_obj_typ_var && !strcmp(var_nm_fll,trv_tbl->lst[uidx].nm_fll)) return &trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++)
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && !strcmp(var_nm_fll,trv_tbl->lst[idx_tbl].nm_fll)) return &trv_tbl->lst[idx_tbl];
return NULL;
#endif /* !NCO_HSH_TRV_OBJ */
@@ -305,10 +297,10 @@ trv_tbl_grp_nm_fll /* [fnc] Return group object from full nam
{
/* Purpose: Return group object with given full name */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- if(trv_tbl->lst[uidx].nco_typ == nco_obj_typ_grp &&
- strcmp(grp_nm_fll,trv_tbl->lst[uidx].nm_fll) == 0){
- return &trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_grp &&
+ strcmp(grp_nm_fll,trv_tbl->lst[idx_tbl].nm_fll) == 0){
+ return &trv_tbl->lst[idx_tbl];
}
}
@@ -327,22 +319,37 @@ trv_tbl_mrk_xtr /* [fnc] Mark extraction flag in table for
HASH_FIND_STR(trv_tbl->hsh,var_nm_fll,trv_obj);
if(trv_obj) trv_obj->flg_xtr=flg_xtr;
#else /* !NCO_HSH_TRV_OBJ */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++)
- if(!strcmp(var_nm_fll,trv_tbl->lst[uidx].nm_fll)) trv_tbl->lst[uidx].flg_xtr=flg_xtr;
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++)
+ if(!strcmp(var_nm_fll,trv_tbl->lst[idx_tbl].nm_fll)) trv_tbl->lst[idx_tbl].flg_xtr=flg_xtr;
#endif /* !NCO_HSH_TRV_OBJ */
return;
} /* end trv_tbl_mrk_xtr() */
void
+trv_tbl_mrk_grp_xtr /* [fnc] Mark extraction flag in table for "grp_nm_fll" */
+(const char * const grp_nm_fll, /* I [sng] Group name to find */
+ const nco_bool flg_xtr, /* I [flg] Flag (True or False) */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
+{
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ if(strcmp(grp_nm_fll,trv_tbl->lst[idx_tbl].nm_fll) == 0){
+ trv_tbl->lst[idx_tbl].flg_xtr=flg_xtr;
+ }
+ }
+
+ return;
+} /* end trv_tbl_mrk_grp_xtr() */
+
+void
trv_tbl_mrk_prc_fix /* [fnc] Mark fixed/processed flag in table for "var_nm_fll" */
(const char * const var_nm_fll, /* I [sng] Variable name to find */
prc_typ_enm typ_prc, /* I [enm] Processing type */
trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
{
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- if(!strcmp(var_nm_fll,trv_tbl->lst[uidx].nm_fll)){
- trv_tbl->lst[uidx].enm_prc_typ=typ_prc;
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ if(!strcmp(var_nm_fll,trv_tbl->lst[idx_tbl].nm_fll)){
+ trv_tbl->lst[idx_tbl].enm_prc_typ=typ_prc;
return;
}
}
@@ -359,14 +366,14 @@ trv_tbl_prn_xtr /* [fnc] Print extraction flag of travers
int nbr_flg=0;
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++)
- if(trv_tbl->lst[uidx].flg_xtr) nbr_flg++;
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++)
+ if(trv_tbl->lst[idx_tbl].flg_xtr) nbr_flg++;
(void)fprintf(stdout,"%s: INFO %s reports <%d> objects with extraction flag (flg_xtr) set:\n",nco_prg_nm_get(),fnc_nm,nbr_flg);
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- if(trv_tbl->lst[uidx].flg_xtr) (void)fprintf(stdout,"[%d] %s\n",idx++,trv_tbl->lst[uidx].nm_fll);
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ if(trv_tbl->lst[idx_tbl].flg_xtr) (void)fprintf(stdout,"[%d] %s\n",idx++,trv_tbl->lst[idx_tbl].nm_fll);
}
} /* end trv_tbl_prn_xtr() */
@@ -548,8 +555,8 @@ trv_tbl_inq_dpt /* [fnc] Return number of depth 1 groups
int nbr_grp_dpt=0; /* [nbr] Number of depth 1 groups (root = 0) */
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++)
- if(trv_tbl->lst[uidx].nco_typ == nco_obj_typ_grp && trv_tbl->lst[uidx].grp_dpt == 1)
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++)
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_grp && trv_tbl->lst[idx_tbl].grp_dpt == 1)
nbr_grp_dpt++;
return nbr_grp_dpt;
@@ -808,11 +815,11 @@ trv_tbl_mrk_nsm_mbr /* [fnc] Mark ensemble member flag in tab
const char * const grp_nm_fll_prn, /* I [sng] Parent group full name (key for ensemble) */
trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
{
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- if(trv_tbl->lst[uidx].nco_typ == nco_obj_typ_var && strcmp(var_nm_fll,trv_tbl->lst[uidx].nm_fll) == 0){
- trv_tbl->lst[uidx].flg_nsm_mbr=True;
- trv_tbl->lst[uidx].nsm_nm=strdup(grp_nm_fll_prn);
- if (flg_nsm_tpl) trv_tbl->lst[uidx].flg_nsm_tpl=True;
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && strcmp(var_nm_fll,trv_tbl->lst[idx_tbl].nm_fll) == 0){
+ trv_tbl->lst[idx_tbl].flg_nsm_mbr=True;
+ trv_tbl->lst[idx_tbl].nsm_nm=strdup(grp_nm_fll_prn);
+ if (flg_nsm_tpl) trv_tbl->lst[idx_tbl].flg_nsm_tpl=True;
}
}
@@ -915,3 +922,44 @@ nco_strrstr /* [fnc] Searches a substring starting fr
}
return lst;
} /* nco_strrstr() */
+
+
+trv_sct * /* O [sct] Table object */
+trv_tbl_var_nm /* [fnc] Return variable object (relative name) */
+(const char * const var_nm, /* I [sng] Variable name to find */
+ const trv_tbl_sct * const trv_tbl) /* I [sct] Traversal table */
+{
+ /* Purpose: Return variable object with given relative name (returns 1st name found ) */
+
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++)
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && (strcmp(var_nm,trv_tbl->lst[idx_tbl].nm) == 0)){
+ return &trv_tbl->lst[idx_tbl];
+ }
+
+ return NULL;
+
+} /* trv_tbl_var_nm() */
+
+
+trv_sct * /* O [sct] Table object */
+trv_tbl_nsm_nm /* [fnc] Return variable object */
+(const char * const var_nm, /* I [sng] Variable name (relative) to find */
+ const char * const grp_nm_fll_prn, /* I [sng] Ensemble parent group */
+ const trv_tbl_sct * const trv_tbl) /* I [sct] Traversal table */
+{
+ /* Purpose: Return variable object that matches criteria of ensemble parent group and variable relative name */
+
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
+ if(var_trv.nco_typ == nco_obj_typ_var && strcmp(var_nm,var_trv.nm) == 0){
+
+ if (strcmp(grp_nm_fll_prn,var_trv.grp_nm_fll_prn) == 0){
+ return &trv_tbl->lst[idx_tbl];
+ }
+
+ }
+ }
+
+ return NULL;
+
+} /* trv_tbl_nsm_nm() */
\ No newline at end of file
diff --git a/src/nco/nco_grp_trv.h b/src/nco/nco_grp_trv.h
index f30f428..1a9aa28 100644
--- a/src/nco/nco_grp_trv.h
+++ b/src/nco/nco_grp_trv.h
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_trv.h,v 1.113 2014/02/15 20:21:08 pvicente Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_trv.h,v 1.116 2014/03/05 01:07:14 pvicente Exp $ */
/* Purpose: netCDF4 traversal storage */
@@ -81,6 +81,12 @@ trv_tbl_mrk_xtr /* [fnc] Mark extraction flag in table fo
trv_tbl_sct * const trv_tbl); /* I/O [sct] Traversal table */
void
+trv_tbl_mrk_grp_xtr /* [fnc] Mark extraction flag in table for "grp_nm_fll" */
+(const char * const grp_nm_fll, /* I [sng] Group name to find */
+ const nco_bool flg_xtr, /* I [flg] Flag (True or False) */
+ trv_tbl_sct * const trv_tbl); /* I/O [sct] Traversal table */
+
+void
trv_tbl_mrk_prc_fix /* [fnc] Mark fixed/processed flag in table for "var_nm_fll" */
(const char * const var_nm_fll, /* I [sng] Variable name to find */
prc_typ_enm typ_prc, /* I [enm] Processing type */
@@ -182,5 +188,15 @@ nco_strrstr /* [fnc] Searches a substring starting fr
(const char *str, /* [fnc] String */
const char *str_fnd); /* [fnc] String to find */
+trv_sct * /* O [sct] Table object */
+trv_tbl_var_nm /* [fnc] Return variable object (relative name) */
+(const char * const var_nm, /* I [sng] Variable name to find */
+ const trv_tbl_sct * const trv_tbl); /* I [sct] Traversal table */
+
+trv_sct * /* O [sct] Table object */
+trv_tbl_nsm_nm /* [fnc] Return variable object */
+(const char * const var_nm, /* I [sng] Variable name (relative) to find */
+ const char * const grp_nm_fll_prn, /* I [sng] Ensemble parent group */
+ const trv_tbl_sct * const trv_tbl); /* I [sct] Traversal table */
#endif /* NCO_GRP_TRV_H */
diff --git a/src/nco/nco_grp_utl.c b/src/nco/nco_grp_utl.c
index 2b21340..092d1f4 100644
--- a/src/nco/nco_grp_utl.c
+++ b/src/nco/nco_grp_utl.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_utl.c,v 1.1263 2014/02/19 23:12:21 pvicente Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_utl.c,v 1.1369 2014/03/31 22:14:39 pvicente Exp $ */
/* Purpose: Group utilities */
@@ -439,8 +439,8 @@ nco_prn_att_trv /* [fnc] Traverse tree to print all group and global attributes
int nbr_dmn; /* [nbr] Number of dimensions */
int nbr_var; /* [nbr] Number of variables */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct trv=trv_tbl->lst[idx_tbl];
if(trv.nco_typ == nco_obj_typ_grp && trv.flg_xtr){
/* Obtain group ID from netCDF API using full group name */
(void)nco_inq_grp_full_ncid(nc_id,trv.nm_fll,&grp_id);
@@ -454,7 +454,7 @@ nco_prn_att_trv /* [fnc] Traverse tree to print all group and global attributes
(void)nco_prn_att(grp_id,prn_flg,NC_GLOBAL);
} /* nbr_att */
} /* end nco_obj_typ_grp */
- } /* end uidx */
+ } /* end idx_tbl */
} /* end nco_prn_att_trv() */
int /* O [nbr] Number of matches to current rx */
@@ -472,6 +472,8 @@ nco_trv_rx_search /* [fnc] Search for pattern matches in traversal table */
#ifndef NCO_HAVE_REGEX_FUNCTIONALITY
(void)fprintf(stdout,"%s: ERROR: Sorry, wildcarding (extended regular expression matches to variables) was not built into this NCO executable, so unable to compile regular expression \"%s\".\nHINT: Make sure libregex.a is on path and re-build NCO.\n",nco_prg_nm_get(),rx_sng);
nco_exit(EXIT_FAILURE);
+ /* Avoid compiler warning of unused variables by using obj_typ and trv_tbl */
+ if (trv_tbl->lst) trv_tbl->lst[0].nco_typ = obj_typ;
#else /* NCO_HAVE_REGEX_FUNCTIONALITY */
char *sng2mch; /* [sng] String to match to regular expression */
const char sls_chr='/'; /* [chr] Slash character */
@@ -544,6 +546,93 @@ nco_trv_rx_search /* [fnc] Search for pattern matches in traversal table */
return mch_nbr;
} /* end nco_trv_rx_search() */
+nco_bool
+nco_pth_mth /* [fnc] Name component in full path matches user string */
+(char * const nm_fll, /* I [sng] Full name (path) */
+ char * const nm, /* I [sng] Name (relative) */
+ char * const usr_sng) /* [sng] User-supplied object name */
+{
+ const char sls_chr='/'; /* [chr] Slash character */
+
+ char *sbs_end; /* [sng] Location of user-string match end in object path */
+ char *sbs_srt; /* [sng] Location of user-string match start in object path */
+ char *sbs_srt_nxt; /* [sng] String to search next for match */
+ char *var_mch_srt; /* [sng] Location of variable short name in user-string */
+
+ nco_bool flg_pth_end_bnd; /* [flg] String ends at path component boundary */
+ nco_bool flg_pth_srt_bnd; /* [flg] String begins at path component boundary */
+ nco_bool flg_var_cnd; /* [flg] Match meets addition condition(s) for variable */
+
+ size_t usr_sng_lng; /* [nbr] Length of user-supplied string */
+ size_t nm_fll_lng; /* [sng] Length of full name */
+ size_t nm_lng; /* [sng] Length of relative name */
+
+ /* Initialize (combined return) flags */
+ flg_pth_srt_bnd=flg_pth_end_bnd=flg_var_cnd=False;
+
+ /* Get lenghts */
+ nm_fll_lng=strlen(nm_fll);
+ nm_lng=strlen(nm);
+ usr_sng_lng=strlen(usr_sng);
+
+ /* Look for partial match, not necessarily on path boundaries */
+ /* 20130829: Variables and group names may be proper subsets of ancestor group names
+ e.g., variable named g9 in group named g90 is /g90/g9
+ e.g., group named g1 in group named g10 is g10/g1
+ Search algorithm must test same full name multiple times in such cases
+ For variables, only final match (closest to end full name) need be fully tested */
+ sbs_srt=NULL;
+ sbs_srt_nxt=nm_fll;
+ while((sbs_srt_nxt=strstr(sbs_srt_nxt,usr_sng))){
+ /* Object name contains usr_sng at least once */
+ /* Complete path-check below will begin at this substring ... */
+ sbs_srt=sbs_srt_nxt;
+
+ /* ...and also here for variables unless match is found in next iteration after advancing substring... */
+ if(sbs_srt_nxt+usr_sng_lng <= nm_fll+nm_fll_lng) sbs_srt_nxt+=usr_sng_lng; else break;
+ } /* end while */
+
+ /* Does object name contain usr_sng? */
+ if(sbs_srt){
+ /* Ensure match spans (begins and ends on) whole path-component boundaries
+ Full path-check starts at current substring */
+
+ /* Does match begin at path component boundary ... directly on a slash? */
+ if(*sbs_srt == sls_chr) flg_pth_srt_bnd=True;
+
+ /* ...or one after a component boundary? */
+ if((sbs_srt > nm_fll) && (*(sbs_srt-1L) == sls_chr)) flg_pth_srt_bnd=True;
+
+ /* Does match end at path component boundary ... directly on a slash? */
+ sbs_end=sbs_srt+usr_sng_lng-1L;
+
+ if(*sbs_end == sls_chr) flg_pth_end_bnd=True;
+
+ /* ...or one before a component boundary? */
+ if(sbs_end <= nm_fll+nm_fll_lng-1L)
+ if((*(sbs_end+1L) == sls_chr) || (*(sbs_end+1L) == '\0'))
+ flg_pth_end_bnd=True;
+
+ /* Additional condition is user-supplied string must end with short form of name */
+
+ if(nm_lng <= usr_sng_lng){
+ var_mch_srt=usr_sng+usr_sng_lng-nm_lng;
+ if(!strcmp(var_mch_srt,nm)) flg_var_cnd=True;
+ } /* endif */
+
+ }
+
+ /* Set return value */
+
+ /* Must meet necessary flags */
+ if(flg_pth_srt_bnd && flg_pth_end_bnd && flg_var_cnd){
+ return True;
+ }
+
+ return False;
+
+} /* nco_pth_mth() */
+
nco_bool /* O [flg] All names are in file */
nco_xtr_mk /* [fnc] Check -v and -g input names and create extraction list */
(char ** grp_lst_in, /* I [sng] User-specified list of groups */
@@ -686,27 +775,27 @@ nco_xtr_mk /* [fnc] Check -v and -g input names and c
flg_ncr_mch_crr=True;
/* Look for partial match, not necessarily on path boundaries */
- /* 20130829: Variables and group names may be proper subsets of ancestor group names
- e.g., variable named g9 in group named g90 is /g90/g9
- e.g., group named g1 in group named g10 is g10/g1
- Search algorithm must test same full name multiple times in such cases
- For variables, only final match (closest to end full name) need be fully tested */
- sbs_srt=NULL;
- sbs_srt_nxt=trv_obj.nm_fll;
+ /* 20130829: Variables and group names may be proper subsets of ancestor group names
+ e.g., variable named g9 in group named g90 is /g90/g9
+ e.g., group named g1 in group named g10 is g10/g1
+ Search algorithm must test same full name multiple times in such cases
+ For variables, only final match (closest to end full name) need be fully tested */
+ sbs_srt=NULL;
+ sbs_srt_nxt=trv_obj.nm_fll;
while((sbs_srt_nxt=strstr(sbs_srt_nxt,usr_sng))){
- /* Object name contains usr_sng at least once */
- /* Complete path-check below will begin at this substring ... */
- sbs_srt=sbs_srt_nxt;
- /* ...for groups always at first occurence of substring... */
- if(obj_typ == nco_obj_typ_grp) break;
- /* ...and also here for variables unless match is found in next iteration after advancing substring... */
- if(sbs_srt_nxt+usr_sng_lng <= trv_obj.nm_fll+trv_obj.nm_fll_lng) sbs_srt_nxt+=usr_sng_lng; else break;
- } /* end while */
-
- /* Does object name contain usr_sng? */
+ /* Object name contains usr_sng at least once */
+ /* Complete path-check below will begin at this substring ... */
+ sbs_srt=sbs_srt_nxt;
+ /* ...for groups always at first occurence of substring... */
+ if(obj_typ == nco_obj_typ_grp) break;
+ /* ...and also here for variables unless match is found in next iteration after advancing substring... */
+ if(sbs_srt_nxt+usr_sng_lng <= trv_obj.nm_fll+trv_obj.nm_fll_lng) sbs_srt_nxt+=usr_sng_lng; else break;
+ } /* end while */
+
+ /* Does object name contain usr_sng? */
if(sbs_srt){
- /* Ensure match spans (begins and ends on) whole path-component boundaries
- Full path-check starts at current substring */
+ /* Ensure match spans (begins and ends on) whole path-component boundaries
+ Full path-check starts at current substring */
/* Does match begin at path component boundary ... directly on a slash? */
if(*sbs_srt == sls_chr) flg_pth_srt_bnd=True;
@@ -748,7 +837,7 @@ nco_xtr_mk /* [fnc] Check -v and -g input names and c
/* Was matched variable specified as full path (i.e., beginning with slash?) */
if(*usr_sng == sls_chr) trv_tbl->lst[tbl_idx].flg_vfp=True;
} /* end flags */
- }else{ /* !nco_obj_typ_var */
+ }else if (obj_typ == nco_obj_typ_grp){ /* !nco_obj_typ_var */
/* Groups must meet necessary flags for groups */
if(flg_pth_srt_bnd && flg_pth_end_bnd && flg_ncr_mch_crr && flg_rcr_mch_crr){
trv_tbl->lst[tbl_idx].flg_mch=True;
@@ -760,11 +849,11 @@ nco_xtr_mk /* [fnc] Check -v and -g input names and c
if(trv_tbl->lst[tbl_idx].flg_mch) flg_usr_mch_obj=True;
if(nco_dbg_lvl_get() == nco_dbg_old){
- /* Redundant call to nco_flg_set_grp_var_ass() here in debugging mode only to set flags for following print statements
- Essential call to nco_flg_set_grp_var_ass() occurs after itr loop
- Most debugging info is available in debugging section at routine end
- However, group boundary/anchoring/recursion info is only available here */
- if(trv_tbl->lst[tbl_idx].flg_mch) nco_flg_set_grp_var_ass(trv_obj.grp_nm_fll,obj_typ,trv_tbl);
+ /* Redundant call to nco_flg_set_grp_var_ass() here in debugging mode only to set flags for following print statements
+ Essential call to nco_flg_set_grp_var_ass() occurs after itr loop
+ Most debugging info is available in debugging section at routine end
+ However, group boundary/anchoring/recursion info is only available here */
+ if(trv_tbl->lst[tbl_idx].flg_mch) nco_flg_set_grp_var_ass(trv_obj.grp_nm_fll,obj_typ,trv_tbl);
(void)fprintf(stderr,"%s: INFO %s reports %s %s matches filepath %s. Begins on boundary? %s. Ends on boundary? %s. Extract? %s.",nco_prg_nm_get(),fnc_nm,(obj_typ == nco_obj_typ_grp) ? "group" : "variable",usr_sng,trv_obj.nm_fll,(flg_pth_srt_bnd) ? "Yes" : "No",(flg_pth_end_bnd) ? "Yes" : "No",(trv_tbl->lst[tbl_idx].flg_mch) ? "Yes" : "No");
if(obj_typ == nco_obj_typ_grp) (void)fprintf(stderr," Anchored? %s.",(flg_ncr_mch_grp) ? "Yes" : "No");
if(obj_typ == nco_obj_typ_grp) (void)fprintf(stderr," Recursive? %s.",(trv_tbl->lst[tbl_idx].flg_rcr) ? "Yes" : "No");
@@ -826,12 +915,12 @@ nco_xtr_mk /* [fnc] Check -v and -g input names and c
} /* flg_unn */
/* Does matched or default group contain only metadata?
- Flag used in nco_xtr_grp_mrk() to preserve metadata-only groups on extraction list */
+ Flag used in nco_xtr_grp_mrk() to preserve metadata-only groups on extraction list */
for(unsigned int obj_idx=0;obj_idx<trv_tbl->nbr;obj_idx++)
if(trv_tbl->lst[obj_idx].nco_typ == nco_obj_typ_grp)
if(trv_tbl->lst[obj_idx].flg_mch || trv_tbl->lst[obj_idx].flg_dfl)
- if(!trv_tbl->lst[obj_idx].nbr_var)
- trv_tbl->lst[obj_idx].flg_mtd=True;
+ if(!trv_tbl->lst[obj_idx].nbr_var)
+ trv_tbl->lst[obj_idx].flg_mtd=True;
/* Combine previous flags into initial extraction flag */
for(unsigned int obj_idx=0;obj_idx<trv_tbl->nbr;obj_idx++){
@@ -891,9 +980,9 @@ nco_xtr_xcl /* [fnc] Convert extraction list to exclus
Group extraction is reset and done from scratch (except for flg_xcl/flg_mtd) in nco_xtr_grp_mrk() */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_tbl->lst[uidx].flg_xtr=!trv_tbl->lst[uidx].flg_xtr; /* Toggle extraction flag */
- trv_tbl->lst[uidx].flg_xcl=!trv_tbl->lst[uidx].flg_xcl; /* Mark that this object was explicitly excluded */
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_tbl->lst[idx_tbl].flg_xtr=!trv_tbl->lst[idx_tbl].flg_xtr; /* Toggle extraction flag */
+ trv_tbl->lst[idx_tbl].flg_xcl=!trv_tbl->lst[idx_tbl].flg_xcl; /* Mark that this object was explicitly excluded */
} /* end for */
return;
@@ -934,8 +1023,8 @@ nco_xtr_cf_add /* [fnc] Add to extraction list variables
const char fnc_nm[]="nco_xtr_cf_add()"; /* [sng] Function name */
/* Search for and add CF-compliant bounds and coordinates to extraction list */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct trv_obj=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct trv_obj=trv_tbl->lst[idx_tbl];
/* Filter extracted variables */
if(trv_obj.nco_typ == nco_obj_typ_var && trv_obj.flg_xtr){
(void)nco_xtr_cf_prv_add(nc_id,&trv_obj,cf_nm,trv_tbl);
@@ -1084,26 +1173,26 @@ nco_trv_tbl_nm_id /* [fnc] Create extraction list of nm_id_s
nm_id_sct *xtr_lst; /* [sct] Extraction list */
int nbr_tbl=0;
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++)
- if(trv_tbl->lst[uidx].nco_typ == nco_obj_typ_var && trv_tbl->lst[uidx].flg_xtr) nbr_tbl++;
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++)
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && trv_tbl->lst[idx_tbl].flg_xtr) nbr_tbl++;
xtr_lst=(nm_id_sct *)nco_malloc(nbr_tbl*sizeof(nm_id_sct));
nbr_tbl=0;
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- if(trv_tbl->lst[uidx].nco_typ == nco_obj_typ_var && trv_tbl->lst[uidx].flg_xtr){
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && trv_tbl->lst[idx_tbl].flg_xtr){
int var_id;
int grp_id_in;
int grp_id_out;
char *grp_out_fll;
/* Get input group ID */
- (void)nco_inq_grp_full_ncid(nc_id_in,trv_tbl->lst[uidx].grp_nm_fll,&grp_id_in);
+ (void)nco_inq_grp_full_ncid(nc_id_in,trv_tbl->lst[idx_tbl].grp_nm_fll,&grp_id_in);
/* Edit group name for output */
- if(gpe) grp_out_fll=nco_gpe_evl(gpe,trv_tbl->lst[uidx].grp_nm_fll); else grp_out_fll=(char *)strdup(trv_tbl->lst[uidx].grp_nm_fll);
+ if(gpe) grp_out_fll=nco_gpe_evl(gpe,trv_tbl->lst[idx_tbl].grp_nm_fll); else grp_out_fll=(char *)strdup(trv_tbl->lst[idx_tbl].grp_nm_fll);
/* Get output group ID */
(void)nco_inq_grp_full_ncid(nc_id_out,grp_out_fll,&grp_id_out);
/* Get variable ID */
- (void)nco_inq_varid(grp_id_in,trv_tbl->lst[uidx].nm,&var_id);
+ (void)nco_inq_varid(grp_id_in,trv_tbl->lst[idx_tbl].nm,&var_id);
/* 20130213: Necessary to allow MM3->MM4 and MM4->MM3 workarounds
Store in/out group IDs as determined in nco_xtr_dfn()
@@ -1112,11 +1201,11 @@ nco_trv_tbl_nm_id /* [fnc] Create extraction list of nm_id_s
xtr_lst[nbr_tbl].grp_id_in=grp_id_in;
xtr_lst[nbr_tbl].grp_id_out=grp_id_out;
xtr_lst[nbr_tbl].id=var_id;
- xtr_lst[nbr_tbl].nm=(char *)strdup(trv_tbl->lst[uidx].nm);
+ xtr_lst[nbr_tbl].nm=(char *)strdup(trv_tbl->lst[idx_tbl].nm);
nbr_tbl++;
} /* end flg == True */
- } /* end loop over uidx */
+ } /* end loop over idx_tbl */
*xtr_nbr=nbr_tbl;
return xtr_lst;
@@ -1139,8 +1228,8 @@ nco_xtr_crd_ass_add /* [fnc] Add to extraction list all coordi
long dmn_sz; /* [nbr] Dimension size */
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
/* Filter variables to extract */
if(var_trv.nco_typ == nco_obj_typ_var && var_trv.flg_xtr){
@@ -1245,16 +1334,23 @@ nco_xtr_crd_ass_add /* [fnc] Add to extraction list all coordi
void
nco_get_prg_info(void) /* [fnc] Get program info */
{
- /* fxm: routine is a kludge for Perl in nco_bm.pl and should be eliminated at first opportunity */
- int rcd=10;
-#ifndef HAVE_NETCDF4_H
- rcd=20;
-#else /* HAVE_NETCDF4_H */
-#ifdef ENABLE_NETCDF4
- rcd=30;
-#else /* HAVE_NETCDF4_H */
+ /* Purpose: Return a numeric code depending on netCDF library version */
+
+ int rcd=3;
+ char lbr_sng[NC_MAX_NAME+1];
+
+ strcpy(lbr_sng,nc_inq_libvers());
+#if defined(ENABLE_NETCDF4) && defined(ENABLE_NETCDF4)
rcd=40;
-#endif /* ENABLE_NETCDF4 */
+ /* Used to detect buggy netCDF version 4.1; other versions are irrelavant */
+ if (lbr_sng[0] == '4' && lbr_sng[1] == '.' && lbr_sng[2] == '1' )
+ {
+ rcd=41;
+ }
+ else if (lbr_sng[0] == '4' && lbr_sng[1] == '.' && lbr_sng[2] == '3' && lbr_sng[3] == '.' && lbr_sng[4] == '1' )
+ {
+ rcd=43;
+ }
#endif /* HAVE_NETCDF4_H */
exit(rcd);
@@ -1275,8 +1371,8 @@ nco_prn_xtr_mtd /* [fnc] Print variable metadata */
const prn_fmt_sct * const prn_flg, /* I [sct] Print-format information */
const trv_tbl_sct * const trv_tbl) /* I [sct] GTT (Group Traversal Table) */
{
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
if(var_trv.flg_xtr && var_trv.nco_typ == nco_obj_typ_var){
/* Print full name of variable */
@@ -1297,7 +1393,7 @@ nco_prn_xtr_mtd /* [fnc] Print variable metadata */
/* Print variable attributes */
(void)nco_prn_att(grp_id,prn_flg,var_id);
} /* end flg_xtr */
- } /* end uidx */
+ } /* end idx_tbl */
return;
} /* end nco_prn_xtr_mtd() */
@@ -1532,8 +1628,8 @@ nco_xtr_dfn /* [fnc] Define extracted groups, variables
if(CPY_GRP_METADATA){
/* Extraction flag for groups was set in nco_xtr_grp_mrk()
This loop defines those groups in output file and copies their metadata */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct grp_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct grp_trv=trv_tbl->lst[idx_tbl];
/* If object is group ancestor of extracted variable */
if(grp_trv.nco_typ == nco_obj_typ_grp && grp_trv.flg_xtr){
@@ -1586,8 +1682,8 @@ nco_xtr_dfn /* [fnc] Define extracted groups, variables
} /* !CPY_GRP_METADATA */
/* Define variables */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
/* If object is an extracted variable... */
if(var_trv.nco_typ == nco_obj_typ_var && var_trv.flg_xtr){
@@ -1677,7 +1773,7 @@ nco_xtr_dfn /* [fnc] Define extracted groups, variables
/* Memory management after current extracted variable */
if(grp_out_fll) grp_out_fll=(char *)nco_free(grp_out_fll);
} /* end if variable and flg_xtr */
- } /* end loop over uidx */
+ } /* end loop over idx_tbl */
/* Memory management for GPE names */
for(int idx=0;idx<nbr_gpe_nm;idx++) gpe_nm[idx].var_nm_fll=(char *)nco_free(gpe_nm[idx].var_nm_fll);
@@ -1747,8 +1843,8 @@ nco_xtr_wrt /* [fnc] Write extracted data to output fi
}else{ /* !USE_MM3_WORKAROUND */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct trv=trv_tbl->lst[idx_tbl];
/* If object is an extracted variable... */
if(trv.nco_typ == nco_obj_typ_var && trv.flg_xtr){
@@ -1756,9 +1852,9 @@ nco_xtr_wrt /* [fnc] Write extracted data to output fi
int grp_id_out;
char *grp_out_fll;
/* Get input group ID */
- (void)nco_inq_grp_full_ncid(nc_id_in,trv_tbl->lst[uidx].grp_nm_fll,&grp_id_in);
+ (void)nco_inq_grp_full_ncid(nc_id_in,trv_tbl->lst[idx_tbl].grp_nm_fll,&grp_id_in);
/* Edit group name for output */
- if(gpe) grp_out_fll=nco_gpe_evl(gpe,trv_tbl->lst[uidx].grp_nm_fll); else grp_out_fll=(char *)strdup(trv_tbl->lst[uidx].grp_nm_fll);
+ if(gpe) grp_out_fll=nco_gpe_evl(gpe,trv_tbl->lst[idx_tbl].grp_nm_fll); else grp_out_fll=(char *)strdup(trv_tbl->lst[idx_tbl].grp_nm_fll);
/* Get output group ID */
(void)nco_inq_grp_full_ncid(nc_id_out,grp_out_fll,&grp_id_out);
@@ -1775,7 +1871,7 @@ nco_xtr_wrt /* [fnc] Write extracted data to output fi
} /* endif */
- } /* end loop over uidx */
+ } /* end loop over idx_tbl */
} /* !USE_MM3_WORKAROUND */
/* Print extraction list in developer mode */
@@ -2244,7 +2340,7 @@ nco_grp_itr /* [fnc] Populate traversal table by exam
trv_tbl->lst_dmn[idx].lmt_msa.dmn_sz_org=dmn_sz;
trv_tbl->lst_dmn[idx].lmt_msa.dmn_cnt=dmn_sz;
trv_tbl->lst_dmn[idx].lmt_msa.WRP=False;
- trv_tbl->lst_dmn[idx].lmt_msa.BASIC_DMN=True;
+ trv_tbl->lst_dmn[idx].lmt_msa.NON_HYP_DMN=True;
trv_tbl->lst_dmn[idx].lmt_msa.MSA_USR_RDR=False;
trv_tbl->lst_dmn[idx].lmt_msa.lmt_dmn_nbr=0;
trv_tbl->lst_dmn[idx].lmt_msa.lmt_crr=0;
@@ -2450,7 +2546,7 @@ nco_bld_crd_var_trv /* [fnc] Build GTT "crd_sct" coordinate va
trv_tbl->lst_dmn[idx_dmn].crd[crd_idx]->lmt_msa.dmn_cnt=dmn_trv.sz;
trv_tbl->lst_dmn[idx_dmn].crd[crd_idx]->lmt_msa.dmn_sz_org=dmn_trv.sz;
trv_tbl->lst_dmn[idx_dmn].crd[crd_idx]->lmt_msa.WRP=False;
- trv_tbl->lst_dmn[idx_dmn].crd[crd_idx]->lmt_msa.BASIC_DMN=True;
+ trv_tbl->lst_dmn[idx_dmn].crd[crd_idx]->lmt_msa.NON_HYP_DMN=True;
trv_tbl->lst_dmn[idx_dmn].crd[crd_idx]->lmt_msa.MSA_USR_RDR=False;
trv_tbl->lst_dmn[idx_dmn].crd[crd_idx]->lmt_msa.lmt_dmn_nbr=0;
trv_tbl->lst_dmn[idx_dmn].crd[crd_idx]->lmt_msa.lmt_crr=0;
@@ -2976,7 +3072,7 @@ nco_bld_var_dmn /* [fnc] Assign variables dimensions to ei
trv_tbl->lst[idx_var].var_dmn[idx_dmn_var].crd->dmn_id=crd->dmn_id;
trv_tbl->lst[idx_var].var_dmn[idx_dmn_var].crd->grp_dpt=crd->grp_dpt;
/* MSA */
- trv_tbl->lst[idx_var].var_dmn[idx_dmn_var].crd->lmt_msa.BASIC_DMN=crd->lmt_msa.BASIC_DMN;
+ trv_tbl->lst[idx_var].var_dmn[idx_dmn_var].crd->lmt_msa.NON_HYP_DMN=crd->lmt_msa.NON_HYP_DMN;
trv_tbl->lst[idx_var].var_dmn[idx_dmn_var].crd->lmt_msa.dmn_cnt=crd->lmt_msa.dmn_cnt;
trv_tbl->lst[idx_var].var_dmn[idx_dmn_var].crd->lmt_msa.dmn_nm=(char *)strdup(crd->lmt_msa.dmn_nm);
trv_tbl->lst[idx_var].var_dmn[idx_dmn_var].crd->lmt_msa.dmn_sz_org=crd->lmt_msa.dmn_sz_org;
@@ -3105,7 +3201,7 @@ nco_wrt_trv_tbl /* [fnc] Obtain file information from GTT (
} /* endif */
- } /* end loop over uidx */
+ } /* end loop over idx_tbl */
} /* nco_wrt_trv_tbl() */
@@ -3158,7 +3254,7 @@ void
nco_get_rec_dmn_nm /* [fnc] Return array of record names */
(const trv_sct * const var_trv, /* I [sct] Variable object */
const trv_tbl_sct * const trv_tbl, /* I [sct] GTT (Group Traversal Table) */
- nm_tbl_sct ** rec_dmn_nm) /* I/O [sct] Array of record names */
+ nm_lst_sct ** rec_dmn_nm) /* I/O [sct] Array of record names */
{
/* Return array of record names */
@@ -3172,7 +3268,7 @@ nco_get_rec_dmn_nm /* [fnc] Return array of record names */
nbr_rec=(*rec_dmn_nm)->nbr;
} else {
nbr_rec=0;
- (*rec_dmn_nm)=(nm_tbl_sct *)nco_malloc(sizeof(nm_tbl_sct));
+ (*rec_dmn_nm)=(nm_lst_sct *)nco_malloc(sizeof(nm_lst_sct));
(*rec_dmn_nm)->nbr=0;
(*rec_dmn_nm)->lst=NULL; /* Must be NULL to nco_realloc() correct handling */
}
@@ -3331,8 +3427,8 @@ nco_cpy_fix_var_trv /* [fnc] Copy fixed variables from input t
md5_sct *md5=NULL; /* [sct] MD5 configuration */
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
/* If object is a fixed variable... */
if(var_trv.nco_typ == nco_obj_typ_var && var_trv.enm_prc_typ == fix_typ){
@@ -3389,7 +3485,7 @@ nco_prc_cmn /* [fnc] Process objects (ncbo only) */
trv_sct * trv_2, /* I [sct] Table object */
trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
- nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ const nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False when write variables ) */
{
const char fnc_nm[]="nco_prc_cmn()"; /* [sng] Function name */
@@ -3424,6 +3520,8 @@ nco_prc_cmn /* [fnc] Process objects (ncbo only) */
/* Get Program ID */
nco_prg_id=nco_prg_id_get();
+ assert(nco_prg_id == ncbo);
+
/* Get output file format */
(void)nco_inq_format(nc_out_id,&fl_fmt);
@@ -3490,9 +3588,9 @@ nco_prc_cmn /* [fnc] Process objects (ncbo only) */
(void)ncap_var_cnf_dmn(&var_prc_1,&var_prc_2);
}else{
/* Still possible that variables are mismatched even if ranks are equal
- One or more dimensions could be degenerate
- Before subtraction must make sure dimension sizes match
- Or re-code ncap_var_cnf_dmn() so that it understands how to broadcast degenerate dimensions */
+ One or more dimensions could be degenerate
+ Before subtraction must make sure dimension sizes match
+ Or re-code ncap_var_cnf_dmn() so that it understands how to broadcast degenerate dimensions */
for(int idx_dmn=0;idx_dmn<var_prc_1->nbr_dim;idx_dmn++){
if(var_prc_1->dim[idx_dmn]->sz != var_prc_2->dim[idx_dmn]->sz){
(void)fprintf(stdout,"%s: ERROR Variables do not conform: variable %s has dimension %s with sizes %ld and %ld in input files one and two, respectively\n",nco_prg_nm_get(),var_prc_1->nm_fll,var_prc_1->dim[idx_dmn]->nm,var_prc_1->dim[idx_dmn]->sz,var_prc_2->dim[idx_dmn]->sz);
@@ -3512,8 +3610,8 @@ nco_prc_cmn /* [fnc] Process objects (ncbo only) */
if(flg_dfn){
char *rec_dmn_nm=NULL; /* [sng] Record dimension name */
- nm_tbl_sct *rec_dmn_nm_1=NULL; /* [sct] Record dimension names array */
- nm_tbl_sct *rec_dmn_nm_2=NULL; /* [sct] Record dimension names array */
+ nm_lst_sct *rec_dmn_nm_1=NULL; /* [sct] Record dimension names array */
+ nm_lst_sct *rec_dmn_nm_2=NULL; /* [sct] Record dimension names array */
nco_bool PCK_ATT_CPY; /* [flg] Copy attributes "scale_factor", "add_offset" */
@@ -3533,8 +3631,12 @@ nco_prc_cmn /* [fnc] Process objects (ncbo only) */
if(rec_dmn_nm_1->lst) rec_dmn_nm=(char *)strdup(rec_dmn_nm_1->lst[0].nm);
if(!rec_dmn_nm && rec_dmn_nm_2->lst) rec_dmn_nm=(char *)strdup(rec_dmn_nm_2->lst[0].nm);
- /* Define variable in output file. NB: Use file/variable of greater rank as template */
- var_out_id= (RNK_1_GTR) ? nco_cpy_var_dfn_trv(nc_id_1,nc_out_id,cnk,grp_out_fll,dfl_lvl,gpe,rec_dmn_nm,trv_1,trv_tbl_1) : nco_cpy_var_dfn_trv(nc_id_2,nc_out_id,cnk,grp_out_fll,dfl_lvl,gpe,rec_dmn_nm,trv_2,trv_tbl_2);
+ /* Define variable in output file */
+ if (RNK_1_GTR){
+ var_out_id=nco_cpy_var_dfn_trv(nc_id_1,nc_out_id,cnk,grp_out_fll,dfl_lvl,gpe,rec_dmn_nm,trv_1,trv_tbl_1);
+ }else{
+ var_out_id=nco_cpy_var_dfn_trv(nc_id_2,nc_out_id,cnk,grp_out_fll,dfl_lvl,gpe,rec_dmn_nm,trv_2,trv_tbl_2);
+ }
/* Copy variable's attributes */
if(RNK_1_GTR) (void)nco_att_cpy(grp_id_1,grp_out_id,var_id_1,var_out_id,PCK_ATT_CPY); else (void)nco_att_cpy(grp_id_2,grp_out_id,var_id_2,var_out_id,PCK_ATT_CPY);
@@ -3543,11 +3645,11 @@ nco_prc_cmn /* [fnc] Process objects (ncbo only) */
if(rec_dmn_nm) rec_dmn_nm=(char *)nco_free(rec_dmn_nm);
if(rec_dmn_nm_1){
for(int idx=0;idx<rec_dmn_nm_1->nbr;idx++) rec_dmn_nm_1->lst[idx].nm=(char *)nco_free(rec_dmn_nm_1->lst[idx].nm);
- rec_dmn_nm_1=(nm_tbl_sct *)nco_free(rec_dmn_nm_1);
+ rec_dmn_nm_1=(nm_lst_sct *)nco_free(rec_dmn_nm_1);
} /* !rec_dmn_nm_1 */
if(rec_dmn_nm_2){
for(int idx=0;idx<rec_dmn_nm_2->nbr;idx++) rec_dmn_nm_2->lst[idx].nm=(char *)nco_free(rec_dmn_nm_2->lst[idx].nm);
- rec_dmn_nm_2=(nm_tbl_sct *)nco_free(rec_dmn_nm_2);
+ rec_dmn_nm_2=(nm_lst_sct *)nco_free(rec_dmn_nm_2);
} /* !rec_dmn_nm_2 */
}else{ /* !flg_dfn */
@@ -3771,166 +3873,6 @@ nco_pck_cpy_att /* [fnc] Inquire about copying packing at
} /* nco_pck_cpy_att() */
-nco_bool /* O [flg] True for match found */
-nco_rel_mch /* [fnc] Relative match of object in table 1 to table 2 */
-(const int nc_id_1, /* I [id] netCDF input-file ID from file 1 */
- const int nc_id_2, /* I [id] netCDF input-file ID from file 2 */
- const int nc_out_id, /* I [id] netCDF output-file ID */
- const cnk_sct * const cnk, /* I [sct] Chunking structure */
- const int dfl_lvl, /* I [enm] Deflate level [0..9] */
- const gpe_sct * const gpe, /* I [sct] GPE structure */
- gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
- int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
- const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
- const int nco_op_typ, /* I [enm] Operation type (command line -y) */
- trv_sct * var_trv, /* I [sct] Table variable object (can be from table 1 or 2) */
- nco_bool flg_tbl_1, /* I [flg] Table variable object is from table1 for True, otherwise is from table 2 */
- nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
- trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
- trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
- const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False when write variables ) */
-{
- nco_bool rel_mch; /* [flg] A match was found */
-
- rel_mch=False;
-
- if(flg_tbl_1){
-
- for(unsigned uidx=0;uidx<trv_tbl_2->nbr;uidx++){
- if(trv_tbl_2->lst[uidx].nco_typ == nco_obj_typ_var && !strcmp(var_trv->nm,trv_tbl_2->lst[uidx].nm)){
- trv_sct *trv_2=&trv_tbl_2->lst[uidx];
- rel_mch=True;
- (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,var_trv,trv_2,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
- } /* A relative match was found */
- } /* Loop table 2 */
-
- }else if(!flg_tbl_1){
-
- for(unsigned uidx=0;uidx<trv_tbl_1->nbr;uidx++){
- if(trv_tbl_1->lst[uidx].nco_typ == nco_obj_typ_var && !strcmp(var_trv->nm,trv_tbl_1->lst[uidx].nm)){
- trv_sct *trv_1=&trv_tbl_1->lst[uidx];
- rel_mch=True;
- (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,trv_1,var_trv,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
- } /* A relative match was found */
- } /* Loop table 2 */
- } /* !flg_tbl_1 */
-
- return rel_mch;
-
-} /* nco_rel_mch() */
-
-void
-nco_prc_cmn_nm /* [fnc] Process common objects from a common mames list (ncbo only) */
-(const int nc_id_1, /* I [id] netCDF input-file ID */
- const int nc_id_2, /* I [id] netCDF input-file ID */
- const int nc_out_id, /* I [id] netCDF output-file ID */
- const cnk_sct * const cnk, /* I [sct] Chunking structure */
- const int dfl_lvl, /* I [enm] Deflate level [0..9] */
- const gpe_sct * const gpe, /* I [sct] GPE structure */
- gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
- int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
- const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
- const int nco_op_typ, /* I [enm] Operation type (command line -y) */
- trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
- trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
- const nco_cmn_t * const cmn_lst, /* I [sct] List of common names */
- const int nbr_cmn_nm, /* I [nbr] Number of common names entries */
- const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False when write variables ) */
-{
- /* Purpose: Process common objects from a common mames list (ncbo only) */
-
- const char fnc_nm[]="nco_prc_cmn_nm()"; /* [sng] Function name */
-
- int nbr_grp_dpt_1; /* [nbr] Number of depth 1 groups (root = 0) */
- int nbr_grp_dpt_2; /* [nbr] Number of depth 1 groups (root = 0) */
-
- nbr_grp_dpt_1=trv_tbl_inq_dpt(trv_tbl_1);
- nbr_grp_dpt_2=trv_tbl_inq_dpt(trv_tbl_2);
-
- /* Process objects in list */
- for(int idx=0;idx<nbr_cmn_nm;idx++){
-
- trv_sct *trv_1; /* [sct] Table object */
- trv_sct *trv_2; /* [sct] Table object */
-
- nco_bool has_mch; /* [flg] A relative match was found in file 1 or 2 */
-
- trv_1=trv_tbl_var_nm_fll(cmn_lst[idx].nm,trv_tbl_1);
- trv_2=trv_tbl_var_nm_fll(cmn_lst[idx].nm,trv_tbl_2);
-
- /* Object exists and is flagged for extraction in both files */
- if(trv_1 && trv_2 && cmn_lst[idx].flg_in_fl[0] && cmn_lst[idx].flg_in_fl[1] && trv_1->flg_xtr && trv_2->flg_xtr){
-
- if(nco_dbg_lvl_get() == nco_dbg_old) (void)fprintf(stdout,"%s: INFO %s reports common element to output:%s\n",nco_prg_nm_get(),fnc_nm,trv_1->nm_fll);
-
- /* Process common object */
- (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,trv_1,trv_2,trv_tbl_1,trv_tbl_2,True,flg_dfn);
-
- }else{
- /* Object exists and is flagged for extraction only in one file */
-
- /* Number of depth 1 groups in file 1 greater (typically model file) */
- if(nbr_grp_dpt_1 > nbr_grp_dpt_2){
-
- if(trv_1 && cmn_lst[idx].flg_in_fl[0] && !cmn_lst[idx].flg_in_fl[1] && trv_1->flg_xtr){
- /* Object exists and is flagged for extraction only in file 1 */
-
- if(nco_dbg_lvl_get() == nco_dbg_old) (void)fprintf(stdout,"%s: INFO %s reports element in file 1 to output:%s\n",nco_prg_nm_get(),fnc_nm,trv_1->nm_fll);
-
- /* Try relative match in file 2 */
- has_mch=nco_rel_mch(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_1,True,True,trv_tbl_1,trv_tbl_2,flg_dfn);
-
- /* Match not found in file 2, copy instead object from file 1 as fixed to output */
- if(!has_mch) (void)nco_cpy_fix(nc_id_1,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,trv_1,trv_tbl_1,flg_dfn);
-
- }else if(trv_2 && cmn_lst[idx].flg_in_fl[0] == False && cmn_lst[idx].flg_in_fl[1] && trv_2->flg_xtr){
- /* Object exists and is flagged for extraction only in file 2 */
-
- if(nco_dbg_lvl_get() == nco_dbg_old) (void)fprintf(stdout,"%s: INFO %s reports element in file 2 to output:%s\n",nco_prg_nm_get(),fnc_nm,trv_2->nm_fll);
-
- /* Try relative match in file 1 */
- has_mch=nco_rel_mch(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_2,False,True,trv_tbl_1,trv_tbl_2,flg_dfn);
-
- /* Match not found in file 2, copy instead object from file 2 as fixed to output */
- if(!has_mch) (void)nco_cpy_fix(nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,trv_2,trv_tbl_2,flg_dfn);
-
- } /* fl_2 */
-
- }else{ /* nbr_grp_dpt_1 <= nbr_grp_dpt_2) */
-
- /* Number of depth 1 groups in file 2 greater */
-
- if(trv_1 && cmn_lst[idx].flg_in_fl[0] && !cmn_lst[idx].flg_in_fl[1] && trv_1->flg_xtr){
- /* Object exists and is flagged for extraction only in file 1 */
-
- if(nco_dbg_lvl_get() == nco_dbg_old) (void)fprintf(stdout,"%s: INFO %s reports element in file 1 to output:%s\n",nco_prg_nm_get(),fnc_nm,trv_1->nm_fll);
-
- /* Try relative match in file 2 */
- has_mch=nco_rel_mch(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_1,True,False,trv_tbl_1,trv_tbl_2,flg_dfn);
-
- /* Match was not found in file 2, copy instead object from file 1 as fixed to output */
- if(!has_mch) (void)nco_cpy_fix(nc_id_1,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,trv_1,trv_tbl_1,flg_dfn);
-
- }else if(trv_2 && cmn_lst[idx].flg_in_fl[0] == False && cmn_lst[idx].flg_in_fl[1] && trv_2->flg_xtr){
- /* Object exists and is flagged for extraction only in file 2 */
-
- if(nco_dbg_lvl_get() == nco_dbg_old) (void)fprintf(stdout,"%s: INFO %s reports element in file 2 to output:%s\n",nco_prg_nm_get(),fnc_nm,trv_2->nm_fll);
-
- /* Try relative match in file 1 */
- has_mch=nco_rel_mch(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_2,False,False,trv_tbl_1,trv_tbl_2,flg_dfn);
-
- /* Match not found in file 2, copy instead object from file 2 as fixed to output */
- if(!has_mch) (void)nco_cpy_fix(nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,trv_2,trv_tbl_2,flg_dfn);
-
- } /* fl_2 */
-
- } /* nbr_grp_dpt_1 <= nbr_grp_dpt_2) */
-
- } /* Object exists only in one file and is to extract */
-
- } /* Process objects in list */
-
-} /* nco_prc_cmn_nm() */
void
nco_var_prc_fix_trv /* [fnc] Store processed and fixed variables info into GTT */
@@ -3992,10 +3934,10 @@ nco_var_typ_trv /* [fnc] Transfer variable type into GTT
typ_out=nco_get_typ(var[idx_var]);
/* Mark output type in table for "nm_fll" */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
/* Match */
- if(strcmp(var[idx_var]->nm_fll,trv_tbl->lst[uidx].nm_fll) == 0){
- trv_tbl->lst[uidx].var_typ_out=typ_out;
+ if(strcmp(var[idx_var]->nm_fll,trv_tbl->lst[idx_tbl].nm_fll) == 0){
+ trv_tbl->lst[idx_tbl].var_typ_out=typ_out;
break;
} /* Match */
} /* Mark output type in table for "nm_fll" */
@@ -4215,11 +4157,11 @@ nco_var_fll_trv /* [fnc] Allocate variable structure and f
} /* endif */
/* Get enm_prc_typ from GTT */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- if(!strcmp(var->nm_fll,trv_tbl->lst[uidx].nm_fll)){
- if(trv_tbl->lst[uidx].enm_prc_typ == prc_typ){
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ if(!strcmp(var->nm_fll,trv_tbl->lst[idx_tbl].nm_fll)){
+ if(trv_tbl->lst[idx_tbl].enm_prc_typ == prc_typ){
var->is_fix_var=0;
- }else if(trv_tbl->lst[uidx].enm_prc_typ == fix_typ){
+ }else if(trv_tbl->lst[idx_tbl].enm_prc_typ == fix_typ){
var->is_fix_var=1;
}
break;
@@ -4327,7 +4269,7 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
crd=var_trv->var_dmn[idx_dmn].crd;
dmn_cmn[idx_dmn].sz=crd->sz;
dmn_cmn[idx_dmn].is_rec_dmn=crd->is_rec_dmn;
- dmn_cmn[idx_dmn].BASIC_DMN=crd->lmt_msa.BASIC_DMN;
+ dmn_cmn[idx_dmn].NON_HYP_DMN=crd->lmt_msa.NON_HYP_DMN;
dmn_cmn[idx_dmn].dmn_cnt=crd->lmt_msa.dmn_cnt;
strcpy(dmn_cmn[idx_dmn].nm,crd->nm);
}else{
@@ -4335,7 +4277,7 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
dmn_trv=var_trv->var_dmn[idx_dmn].ncd;
dmn_cmn[idx_dmn].sz=dmn_trv->sz;
dmn_cmn[idx_dmn].is_rec_dmn=dmn_trv->is_rec_dmn;
- dmn_cmn[idx_dmn].BASIC_DMN=dmn_trv->lmt_msa.BASIC_DMN;
+ dmn_cmn[idx_dmn].NON_HYP_DMN=dmn_trv->lmt_msa.NON_HYP_DMN;
dmn_cmn[idx_dmn].dmn_cnt=dmn_trv->lmt_msa.dmn_cnt;
strcpy(dmn_cmn[idx_dmn].nm,dmn_trv->nm);
} /* This dimension has a coordinate variable */
@@ -4628,6 +4570,11 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
if(DEFINE_DIM[idx_dmn]){
/* Define dimension and obtain dimension ID */
(void)nco_def_dim(grp_dmn_out_id,dmn_nm,dmn_cnt,&dmn_id_out);
+
+ if(nco_dbg_lvl_get() == nco_dbg_old){
+ (void)fprintf(stdout,"%s: DEBUG %s Defined dimension <%s><%s>#%d\n",nco_prg_nm_get(),fnc_nm,grp_dmn_out_fll,dmn_nm,dmn_id_out);
+ }
+
/* Redefine output dimension array for this dimension */
(void)nco_dfn_dmn(dmn_nm,dmn_cnt,dmn_id_out,dmn_cmn,var_trv->nbr_dmn);
/* Assign defined ID to dimension ID array for the variable */
@@ -4734,6 +4681,14 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
(void)nco_def_var(grp_out_id,var_nm,var_typ_out,nbr_dmn_var_out,dmn_out_id,&var_out_id);
+ if(nco_dbg_lvl_get() == nco_dbg_old){
+ (void)fprintf(stdout,"%s: DEBUG %s Defined variable <%s><%s> : ",nco_prg_nm_get(),fnc_nm,grp_out_fll,var_nm);
+ for(int idx_dmn=0;idx_dmn<nbr_dmn_var;idx_dmn++){
+ (void)fprintf(stdout,"<%s>#%d : ",dmn_cmn[idx_dmn].nm_fll,dmn_out_id[idx_dmn]);
+ }
+ (void)fprintf(stdout,"\n");
+ }
+
} /* !ncwa */
/* Duplicate netCDF4 settings when possible */
@@ -4764,7 +4719,7 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
/* Define record dimension made for ncecat */
dmn_cmn[0].sz=NC_UNLIMITED;
dmn_cmn[0].is_rec_dmn=True;
- dmn_cmn[0].BASIC_DMN=True;
+ dmn_cmn[0].NON_HYP_DMN=True;
dmn_cmn[0].dmn_cnt=NC_UNLIMITED;
strcpy(dmn_cmn[0].nm,rec_dmn_nm);
/* Define full name */
@@ -4952,7 +4907,7 @@ nco_var_dmn_rdr_mtd_trv /* [fnc] Determine and set new dimensional
nco_bool REDEFINED_RECORD_DIMENSION; /* [flg] Re-defined record dimension */
nco_bool dmn_rvr_in[NC_MAX_DIMS]; /* [flg] Reverse dimension (Stored in GTT ) */
- nm_tbl_sct *rec_dmn_nm; /* [sct] Record dimension names array */
+ nm_lst_sct *rec_dmn_nm; /* [sct] Record dimension names array */
/* Get Program ID */
nco_prg_id=nco_prg_id_get();
@@ -5030,7 +4985,7 @@ nco_var_dmn_rdr_mtd_trv /* [fnc] Determine and set new dimensional
/* Memory management for record dimension names */
if(rec_dmn_nm){
for(int idx=0;idx<rec_dmn_nm->nbr;idx++) rec_dmn_nm->lst[idx].nm=(char *)nco_free(rec_dmn_nm->lst[idx].nm);
- rec_dmn_nm=(nm_tbl_sct *)nco_free(rec_dmn_nm);
+ rec_dmn_nm=(nm_lst_sct *)nco_free(rec_dmn_nm);
} /* !rec_dmn_nm */
if(rec_dmn_nm_in)rec_dmn_nm_in=(char *)nco_free(rec_dmn_nm_in);
@@ -5578,8 +5533,8 @@ nco_aed_prc_trv /* [fnc] Process single attribute edit for
if(aed_lst[idx_aed].var_nm == NULL){
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
/* Filter variables */
if(var_trv.nco_typ == nco_obj_typ_var){
/* Obtain group ID using full group name */
@@ -5598,8 +5553,8 @@ nco_aed_prc_trv /* [fnc] Process single attribute edit for
else if(strpbrk(aed_lst[idx_aed].var_nm,".*^$\\[]()<>+?|{}")){
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
/* Filter variables */
if(var_trv.nco_typ == nco_obj_typ_var ){
/* Obtain group ID using full group name */
@@ -5618,8 +5573,8 @@ nco_aed_prc_trv /* [fnc] Process single attribute edit for
}else if(!strcasecmp(aed_lst[idx_aed].var_nm,"global")){
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
/* Filter variables */
if(var_trv.nco_typ == nco_obj_typ_var && strcmp(aed_lst[idx_aed].var_nm,var_trv.nm) == 0){
/* Obtain group ID using full group name */
@@ -5637,8 +5592,8 @@ nco_aed_prc_trv /* [fnc] Process single attribute edit for
/* Variable is a normal variable ... */
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
/* Filter variables */
if(var_trv.nco_typ == nco_obj_typ_var && strcmp(aed_lst[idx_aed].var_nm,var_trv.nm) == 0){
/* Obtain group ID using full group name */
@@ -5667,8 +5622,8 @@ nco_dmn_trv_msa_tbl /* [fnc] Update all GTT dimensions with hy
int grp_id;
/* Loop table */
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- trv_sct var_trv=trv_tbl->lst[uidx];
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
/* If object is an extracted variable... */
if(var_trv.nco_typ == nco_obj_typ_var && var_trv.flg_xtr){
@@ -6059,17 +6014,8 @@ nco_dmn_avg_mk /* [fnc] Build dimensions to average(ncwa
nco_dmn_out_mk() checks this flag, and if the dimension is not to be averaged, it is added to an array of dmn_sct,
dimensions on output. */
- const char fnc_nm[]="nco_dmn_avg_mk()"; /* [sng] Function name */
- const char sls_chr='/'; /* [chr] Slash character */
-
- char *sbs_srt; /* [sng] Location of user-string match start in object path */
- char *sbs_end; /* [sng] Location of user-string match end in object path */
char *usr_sng; /* [sng] User-supplied object name */
- char *var_mch_srt; /* [sng] Location of variable short name in user-string */
- nco_bool flg_pth_end_bnd; /* [flg] String ends at path component boundary */
- nco_bool flg_pth_srt_bnd; /* [flg] String begins at path component boundary */
- nco_bool flg_var_cnd; /* [flg] Match meets addition condition(s) for dimension */
nco_bool flg_dmn_ins; /* [flg] Is dimension already inserted in output array */
int obj_nbr; /* [nbr] Number of objects in list */
@@ -6078,8 +6024,6 @@ nco_dmn_avg_mk /* [fnc] Build dimensions to average(ncwa
long dmn_cnt; /* [nbr] Hyperslabbed size of dimension */
long dmn_sz; /* [nbr] Size of dimension */
- size_t usr_sng_lng; /* [nbr] Length of user-supplied string */
-
/* Used only by ncpdq , ncwa */
assert(nco_prg_id_get() == ncpdq || nco_prg_id_get() == ncwa);
@@ -6091,7 +6035,6 @@ nco_dmn_avg_mk /* [fnc] Build dimensions to average(ncwa
for(int idx_obj=0;idx_obj<obj_nbr;idx_obj++){
usr_sng=strdup(obj_lst_in[idx_obj]);
- usr_sng_lng=strlen(usr_sng);
/* Convert pound signs (back) to commas */
nco_hash2comma(usr_sng);
@@ -6114,11 +6057,6 @@ nco_dmn_avg_mk /* [fnc] Build dimensions to average(ncwa
trv_sct trv_obj=trv_tbl->lst[idx_tbl];
- /* Initialize defaults for current candidate path to match */
- flg_pth_srt_bnd=False;
- flg_pth_end_bnd=False;
- flg_var_cnd=False;
-
/* Variable to extract */
if(trv_obj.nco_typ == nco_obj_typ_var && trv_obj.flg_xtr){
@@ -6137,103 +6075,71 @@ nco_dmn_avg_mk /* [fnc] Build dimensions to average(ncwa
/* Dimension name full */
char *dmn_nm_fll=trv_obj.var_dmn[idx_var_dmn].dmn_nm_fll;
- /* Dimension name full length */
- size_t dmn_nm_fll_lng=strlen(dmn_nm_fll);
-
/* Dimension name relative */
char *dmn_nm=trv_obj.var_dmn[idx_var_dmn].dmn_nm;
- /* Dimension name relative length */
- size_t dmn_nm_lng=strlen(dmn_nm);
-
- /* Look for partial match, not necessarily on path boundaries */
- if((sbs_srt=strstr(dmn_nm_fll,usr_sng))){
-
- /* Ensure match spans (begins and ends on) whole path-component boundaries */
-
- /* Does match begin at path component boundary ... directly on a slash? */
- if(*sbs_srt == sls_chr) flg_pth_srt_bnd=True;
-
- /* ...or one after a component boundary? */
- if((sbs_srt > dmn_nm_fll) && (*(sbs_srt-1L) == sls_chr)) flg_pth_srt_bnd=True;
-
- /* Does match end at path component boundary ... directly on a slash? */
- sbs_end=sbs_srt+usr_sng_lng-1L;
-
- if(*sbs_end == sls_chr) flg_pth_end_bnd=True;
-
- /* ...or one before a component boundary? */
- if(sbs_end <= dmn_nm_fll+dmn_nm_fll_lng-1L)
- if((*(sbs_end+1L) == sls_chr) || (*(sbs_end+1L) == '\0'))
- flg_pth_end_bnd=True;
-
- /* Additional condition is user-supplied string must end with short form of dimension name */
- if(dmn_nm_lng <= usr_sng_lng){
- var_mch_srt=usr_sng+usr_sng_lng-dmn_nm_lng;
- if(!strcmp(var_mch_srt,dmn_nm)) flg_var_cnd=True;
- } /* Additional condition */
-
- /* Must meet necessary flags */
- if(flg_pth_srt_bnd && flg_pth_end_bnd && flg_var_cnd){
-
- flg_dmn_ins=False;
-
- /* Loop constructed array of averaged output dimensions to see if already inserted */
- for(int idx_dmn_out=0;idx_dmn_out<nbr_avg_dmn;idx_dmn_out++){
-
- /* Match by ID */
- if(dmn_id == (*dmn_avg)[idx_dmn_out]->id){
- flg_dmn_ins=True;
- break;
- } /* Match by ID */
- } /* Loop constructed array of output dimensions to see if already inserted */
-
- /* If this dimension is not in output array */
- if(!flg_dmn_ins){
-
- /* Change flag to mark that dimension is to be averaged instead of to keep on output */
- trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].flg_dmn_avg=True;
-
- /* Add one more element to array */
- (*dmn_avg)=(dmn_sct **)nco_realloc((*dmn_avg),(nbr_avg_dmn+1)*sizeof(dmn_sct *));
- (*dmn_avg)[nbr_avg_dmn]=(dmn_sct *)nco_malloc(sizeof(dmn_sct));
-
- /* Get size from GTT. NOTE use index idx_var_dmn */
- if(trv_obj.var_dmn[idx_var_dmn].is_crd_var){
- dmn_cnt=trv_obj.var_dmn[idx_var_dmn].crd->lmt_msa.dmn_cnt;
- dmn_sz=trv_obj.var_dmn[idx_var_dmn].crd->sz;
- (*dmn_avg)[nbr_avg_dmn]->is_crd_dmn=True;
- }else{
- dmn_cnt=trv_obj.var_dmn[idx_var_dmn].ncd->lmt_msa.dmn_cnt;
- dmn_sz=trv_obj.var_dmn[idx_var_dmn].ncd->sz;
- (*dmn_avg)[nbr_avg_dmn]->is_crd_dmn=False;
- }
-
- (*dmn_avg)[nbr_avg_dmn]->nm=(char *)strdup(trv_obj.var_dmn[idx_var_dmn].dmn_nm);
- (*dmn_avg)[nbr_avg_dmn]->id=trv_obj.var_dmn[idx_var_dmn].dmn_id;
- (*dmn_avg)[nbr_avg_dmn]->nc_id=nc_id;
- (*dmn_avg)[nbr_avg_dmn]->xrf=NULL;
- (*dmn_avg)[nbr_avg_dmn]->val.vp=NULL;
- (*dmn_avg)[nbr_avg_dmn]->is_rec_dmn=dmn_trv->is_rec_dmn;
- (*dmn_avg)[nbr_avg_dmn]->cnt=dmn_cnt;
- (*dmn_avg)[nbr_avg_dmn]->sz=dmn_sz;
- (*dmn_avg)[nbr_avg_dmn]->srt=0L;
- (*dmn_avg)[nbr_avg_dmn]->end=dmn_cnt-1L;
- (*dmn_avg)[nbr_avg_dmn]->srd=1L;
+ /* Must meet necessary flags */
+ nco_bool pth_mth=nco_pth_mth(dmn_nm_fll,dmn_nm,usr_sng);
+ if(pth_mth){
- (*dmn_avg)[nbr_avg_dmn]->cid=-1;
- (*dmn_avg)[nbr_avg_dmn]->cnk_sz=0L;
- (*dmn_avg)[nbr_avg_dmn]->type=(nc_type)-1;
+ flg_dmn_ins=False;
- /* Broadcast flag average/keep using dimension ID; variables share dimensions */
- (void)nco_dmn_id_mk(dmn_id,flg_rdd,trv_tbl);
+ /* Loop constructed array of averaged output dimensions to see if already inserted */
+ for(int idx_dmn_out=0;idx_dmn_out<nbr_avg_dmn;idx_dmn_out++){
- /* Increment number of dimensions found */
- nbr_avg_dmn++;
+ /* Match by ID */
+ if(dmn_id == (*dmn_avg)[idx_dmn_out]->id){
+ flg_dmn_ins=True;
+ break;
+ } /* Match by ID */
+ } /* Loop constructed array of output dimensions to see if already inserted */
+
+ /* If this dimension is not in output array */
+ if(!flg_dmn_ins){
+
+ /* Change flag to mark that dimension is to be averaged instead of to keep on output */
+ trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].flg_dmn_avg=True;
+
+ /* Add one more element to array */
+ (*dmn_avg)=(dmn_sct **)nco_realloc((*dmn_avg),(nbr_avg_dmn+1)*sizeof(dmn_sct *));
+ (*dmn_avg)[nbr_avg_dmn]=(dmn_sct *)nco_malloc(sizeof(dmn_sct));
+
+ /* Get size from GTT. NOTE use index idx_var_dmn */
+ if(trv_obj.var_dmn[idx_var_dmn].is_crd_var){
+ dmn_cnt=trv_obj.var_dmn[idx_var_dmn].crd->lmt_msa.dmn_cnt;
+ dmn_sz=trv_obj.var_dmn[idx_var_dmn].crd->sz;
+ (*dmn_avg)[nbr_avg_dmn]->is_crd_dmn=True;
+ }else{
+ dmn_cnt=trv_obj.var_dmn[idx_var_dmn].ncd->lmt_msa.dmn_cnt;
+ dmn_sz=trv_obj.var_dmn[idx_var_dmn].ncd->sz;
+ (*dmn_avg)[nbr_avg_dmn]->is_crd_dmn=False;
+ }
- } /* If this dimension is not in output array */
- } /* Must meet necessary flags */
- } /* Look for partial match, not necessarily on path boundaries */
+ (*dmn_avg)[nbr_avg_dmn]->nm=(char *)strdup(trv_obj.var_dmn[idx_var_dmn].dmn_nm);
+ (*dmn_avg)[nbr_avg_dmn]->nm_fll=(char *)strdup(trv_obj.var_dmn[idx_var_dmn].dmn_nm_fll);
+ (*dmn_avg)[nbr_avg_dmn]->id=trv_obj.var_dmn[idx_var_dmn].dmn_id;
+ (*dmn_avg)[nbr_avg_dmn]->nc_id=nc_id;
+ (*dmn_avg)[nbr_avg_dmn]->xrf=NULL;
+ (*dmn_avg)[nbr_avg_dmn]->val.vp=NULL;
+ (*dmn_avg)[nbr_avg_dmn]->is_rec_dmn=dmn_trv->is_rec_dmn;
+ (*dmn_avg)[nbr_avg_dmn]->cnt=dmn_cnt;
+ (*dmn_avg)[nbr_avg_dmn]->sz=dmn_sz;
+ (*dmn_avg)[nbr_avg_dmn]->srt=0L;
+ (*dmn_avg)[nbr_avg_dmn]->end=dmn_cnt-1L;
+ (*dmn_avg)[nbr_avg_dmn]->srd=1L;
+
+ (*dmn_avg)[nbr_avg_dmn]->cid=-1;
+ (*dmn_avg)[nbr_avg_dmn]->cnk_sz=0L;
+ (*dmn_avg)[nbr_avg_dmn]->type=(nc_type)-1;
+
+ /* Broadcast flag average/keep using dimension ID; variables share dimensions */
+ (void)nco_dmn_id_mk(dmn_id,flg_rdd,trv_tbl);
+
+ /* Increment number of dimensions found */
+ nbr_avg_dmn++;
+
+ } /* If this dimension is not in output array */
+ } /* Must meet necessary flags */
} /* Loop variable dimensions */
} /* Variable to extract */
} /* Loop table */
@@ -6242,9 +6148,11 @@ nco_dmn_avg_mk /* [fnc] Build dimensions to average(ncwa
/* Export */
*nbr_dmn_avg=nbr_avg_dmn;
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: DEBUG %s dimensions to average: ",nco_prg_nm_get(),fnc_nm);
- for(int idx_dmn=0;idx_dmn<nbr_avg_dmn;idx_dmn++) (void)fprintf(stdout,"#%d<%s> : ",(*dmn_avg)[idx_dmn]->id,(*dmn_avg)[idx_dmn]->nm);
+ if(nco_dbg_lvl_get() >= nco_dbg_var){
+ (void)fprintf(stdout,"%s: INFO dimensions to average: ",nco_prg_nm_get());
+ for(int idx_dmn=0;idx_dmn<nbr_avg_dmn;idx_dmn++){
+ (void)fprintf(stdout,"<%s>",(*dmn_avg)[idx_dmn]->nm);
+ }
(void)fprintf(stdout,"\n");
} /* endif dbg */
@@ -6260,7 +6168,7 @@ nco_dmn_out_mk /* [fnc] Build dimensions array to keep o
dmn_sct ***dmn_out, /* O [sct] Array of dimensions on ouput */
int *nbr_dmn_out) /* O [nbr] Number of dimensions on output (size of above array) */
{
- /* Purpose: Create list of dimensions from list of dimension name strings (function based in nco_xtr_mk() ) */
+ /* Purpose: Create list of dimensions from list of dimension name strings */
const char fnc_nm[]="nco_dmn_out_mk()"; /* [sng] Function name */
@@ -6605,6 +6513,7 @@ nco_bld_trv_tbl /* [fnc] Construct GTT, Group Traversal Ta
const nco_bool flg_unn, /* I [flg] Select union of specified groups and variables */
const nco_bool EXCLUDE_INPUT_LIST, /* I [flg] Exclude rather than extract groups and variables specified with -v */
const nco_bool EXTRACT_ASSOCIATED_COORDINATES, /* I [flg] Extract all coordinates associated with extracted variables? */
+ const int nco_pck_plc, /* I [enm] Packing policy */
nco_dmn_dne_t **flg_dne, /* I/O [lst] Flag to check if input dimension -d "does not exist" */
trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
{
@@ -6706,7 +6615,9 @@ nco_bld_trv_tbl /* [fnc] Construct GTT, Group Traversal Ta
} /* !lmt_nbr */
/* Build ensembles */
- if(nco_prg_id_get() == ncge) (void)nco_bld_nsm(nc_id,trv_tbl);
+ if(nco_prg_id_get() == ncge) (void)nco_bld_nsm(nc_id,True,CNV_CCM_CCSM_CF,nco_pck_plc,trv_tbl);
+
+ if(nco_prg_id_get() == ncbo) (void)nco_bld_nsm(nc_id,False,CNV_CCM_CCSM_CF,nco_pck_plc,trv_tbl);
/* Check valid input (limits) */
if(lmt_nbr) (void)nco_chk_dmn_in(lmt_nbr,lmt,flg_dne,trv_tbl);
@@ -6870,7 +6781,7 @@ nco_bld_lmt /* [fnc] Assign user specified dimension l
crd_sct *crd=trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].crd;
/* Limit is same as dimension in input file? */
- trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].crd->lmt_msa.BASIC_DMN=False;
+ trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].crd->lmt_msa.NON_HYP_DMN=False;
/* Parse user-specified limits into hyperslab specifications. NOTE: Use True parameter and "crd" */
(void)nco_lmt_evl_dmn_crd(nc_id,0L,FORTRAN_IDX_CNV,crd->crd_grp_nm_fll,crd->nm,crd->sz,crd->is_rec_dmn,True,lmt[lmt_idx]);
@@ -6899,7 +6810,7 @@ nco_bld_lmt /* [fnc] Assign user specified dimension l
dmn_trv_sct *ncd=trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].ncd;
/* Limit is same as dimension in input file ? */
- trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].ncd->lmt_msa.BASIC_DMN=False;
+ trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].ncd->lmt_msa.NON_HYP_DMN=False;
/* Parse user-specified limits into hyperslab specifications. NOTE: Use False parameter and "dmn" */
(void)nco_lmt_evl_dmn_crd(nc_id,0L,FORTRAN_IDX_CNV,ncd->grp_nm_fll,ncd->nm,ncd->sz,ncd->is_rec_dmn,False,lmt[lmt_idx]);
@@ -7855,1291 +7766,2388 @@ nco_var_has_cf /* [fnc] Variable has CF-compliant informa
} /* nco_var_has_cf() */
-void
-nco_nm_skp /* [fnc] Extract list of variable names to skip for template definition */
-(const int nc_id, /* I [ID] netCDF file ID */
- const char * const grp_nm_fll, /* I [sng] Group full name where all names reside */
- const nco_cmn_t *cmn_lst, /* I [sct] List of names (relative) */
- const int nbr_cmn_nm, /* I [nbr] Number of names (size of above array) */
- nco_cmn_t **skp_lst, /* I/O [sct] List of skip names (full) */
- int * nbr_skp_nm, /* I/O [nbr] Number of skip names (size of above array) */
- const trv_tbl_sct * const trv_tbl) /* I [sct] GTT (Group Traversal Table) */
+int /* O [enm] Comparison result [<,=,>] 0 iff val_1 [<,==,>] val_2 */
+nco_cmp_aux_crd_dpt /* [fnc] Compare two aux_crd_sct's by group depth */
+(const void *val_1, /* I [sct] aux_crd_sct * to compare */
+ const void *val_2) /* I [sct] aux_crd_sct * to compare */
{
- const char fnc_nm[]="nco_nm_skp()"; /* [sng] Function name */
-
- char *var_nm_fll; /* [sng] Variable full name */
- char *var_cf; /* [sng] Variable name that has 'CF' info */
-
- int idx_skp; /* [nbr] Counter for skip list */
-
- nco_bool flg_cf; /* [flg] Variable has 'CF' info */
- nco_bool lst_ins; /* [flg] Detect duplicate names in array */
+ /* Purpose: Compare two aux_crd_sct's by group depth structure member
+ Function is suitable for argument to ANSI C qsort() routine in stdlib.h */
- trv_sct *var_trv; /* [sct] Table object */
+ const aux_crd_sct * const crd_1=(const aux_crd_sct *)val_1;
+ const aux_crd_sct * const crd_2=(const aux_crd_sct *)val_2;
- idx_skp=0;
+ if(crd_1->grp_dpt > crd_2->grp_dpt) return 1;
+ else if(crd_1->grp_dpt < crd_2->grp_dpt) return -1;
+ else return 0;
- /* Malloc possible maximum size */
- (*skp_lst)=(nco_cmn_t *)nco_malloc(nbr_cmn_nm*sizeof(nco_cmn_t));
+} /* nco_cmp_aux_crd_dpt() */
- /* Loop input (relative) names */
- for(int idx_var=0;idx_var<nbr_cmn_nm;idx_var++){
- /* Define variable full name (NB: cmn_lst->var_nm_fll is relative here) */
- var_nm_fll=nco_bld_nm_fll(grp_nm_fll,cmn_lst[idx_var].nm);
+void
+nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
+(const int nc_id, /* I [ID] netCDF file ID */
+ const int aux_nbr, /* I [nbr] Number of auxiliary coordinates */
+ char *aux_arg[], /* I [sng] Auxiliary coordinates */
+ const nco_bool FORTRAN_IDX_CNV, /* I [flg] Hyperslab indices obey Fortran convention */
+ const nco_bool MSA_USR_RDR, /* I [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
+ const nco_bool EXTRACT_ASSOCIATED_COORDINATES, /* I [flg] Extract all coordinates associated with extracted variables? */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
+{
+ const char fnc_nm[]="nco_prs_aux_crd()"; /* [sng] Function name */
- /* Obtain variable GTT object using full variable name */
- var_trv=trv_tbl_var_nm_fll(var_nm_fll,trv_tbl);
-
- /* Avoid coordinate variables */
- if (var_trv->is_crd_var == True){
- /* Utility function to detect inserted names in a name list */
- lst_ins=nco_lst_ins(var_nm_fll,*skp_lst,idx_skp);
- /* Insert in list */
- if (lst_ins == False){
- (*skp_lst)[idx_skp].nm=strdup(var_nm_fll);
- idx_skp++;
- } /* Insert in list */
- } /* Avoid coordinate variables */
-
- /* Avoid special "CF" variables ('bounds', 'coordinates') */
- var_cf=nco_var_has_cf(nc_id,var_trv,"bounds",&flg_cf);
- if (flg_cf == True){
- /* Utility function to detect inserted names in a name list */
- lst_ins=nco_lst_ins(var_nm_fll,*skp_lst,idx_skp);
- /* Insert in list */
- if (lst_ins == False){
- (*skp_lst)[idx_skp].nm=strdup(var_nm_fll);
- idx_skp++;
- } /* Insert in list */
- } /* Avoid special "CF" variables ('bounds', 'coordinates') */
-
- /* There is an associated 'CF" variable */
- if (var_cf){
- /* Second Loop input (relative) names */
- for(int idx_var_2=0;idx_var_2<nbr_cmn_nm;idx_var_2++){
- /* Match (NB: cmn_lst->var_nm_fll is relative here) */
- if(strcmp(var_cf,cmn_lst[idx_var_2].nm) == 0){
- char *var_nm_fll_2; /* [sng] Variable full name */
- var_nm_fll_2=nco_bld_nm_fll(grp_nm_fll,cmn_lst[idx_var_2].nm);
- /* Utility function to detect inserted names in a name list */
- lst_ins=nco_lst_ins(var_nm_fll_2,*skp_lst,idx_skp);
- /* Insert in list */
- if (lst_ins == False){
- (*skp_lst)[idx_skp].nm=strdup(var_nm_fll_2);
- idx_skp++;
- } /* Insert in list */
- } /* Match */
- } /* Second Loop input (relative) names */
- /* Free */
- var_cf=(char *)nco_free(var_cf);
- } /* There is an associated 'CF" variable */
-
- /* Free */
- var_nm_fll=(char *)nco_free(var_nm_fll);
+ /* Loop table */
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
- } /* Loop input (relative) names */
+ /* Filter variables to extract */
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && trv_tbl->lst[idx_tbl].flg_xtr){
- /* Re-Alloc */
- (*skp_lst)=(nco_cmn_t *)nco_realloc((*skp_lst),idx_skp*sizeof(nco_cmn_t));
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
- /* Export */
- *nbr_skp_nm=idx_skp;
+ /* Filter variables with auxiliary coordinates */
+ if(var_trv.flg_aux){
- if(nco_dbg_lvl_get() == nco_dbg_old){
- (void)fprintf(stdout,"%s: DEBUG %s list of variables to skip for template definition\n",nco_prg_nm_get(),fnc_nm);
- for(int idx_var=0;idx_var<idx_skp;idx_var++) (void)fprintf(stdout,"%s: DEBUG %s <%s>\n",nco_prg_nm_get(),fnc_nm,(*skp_lst)[idx_var].nm);
- }
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s variable <%s>\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->lst[idx_tbl].nm_fll);
+ }
-} /* nco_nm_skp() */
+ int dmn_idx_fnd=-1; /* [nbr] Index of dimension that has the coordinate */
+ int dmn_id_fnd_lat=-1; /* [id] ID of dimension that has the latitude coordinate */
+ int dmn_id_fnd_lon=-1; /* [id] ID of dimension that has the longituee coordinate */
-void
-nco_bld_nsm /* [fnc] Build ensembles */
-(const int nc_id, /* I [id] netCDF file ID */
- trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
-{
- /* Purpose: Build ensembles */
+ trv_sct *lat_trv=NULL;
+ trv_sct *lon_trv=NULL;
+
+ /* Loop dimensions, look for latitude */
+ for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
+ /* Has 'latitude' auxiliary coordinates */
+ if (var_trv.var_dmn[idx_dmn].nbr_lat_crd){
+ /* Use the coordinate with lower group depth (index 0) (These were already sorted ) */
+ lat_trv=trv_tbl_var_nm_fll(var_trv.var_dmn[idx_dmn].lat_crd[0].nm_fll,trv_tbl);
+ dmn_idx_fnd=idx_dmn;
+ dmn_id_fnd_lat=var_trv.var_dmn[idx_dmn].lat_crd[0].dmn_id;
+ break;
+ } /* Has 'latitude' auxiliary coordinates */
+ } /* Loop dimensions, look for latitude */
+
+ /* Loop dimensions, look for longitude */
+ for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
+ /* Has 'longitude' auxiliary coordinates */
+ if (var_trv.var_dmn[idx_dmn].nbr_lon_crd){
+ /* Use the coordinate with lower group depth (index 0) (These were already sorted ) */
+ lon_trv=trv_tbl_var_nm_fll(var_trv.var_dmn[idx_dmn].lon_crd[0].nm_fll,trv_tbl);
+ dmn_idx_fnd=idx_dmn;
+ dmn_id_fnd_lon=var_trv.var_dmn[idx_dmn].lon_crd[0].dmn_id;
+ break;
+ } /* Has 'longitude' auxiliary coordinates */
+ } /* Loop dimensions, look for longitude */
+
+ /* Auxiliary coordinates found */
+ if (lat_trv && lon_trv){
+
+ lmt_sct **aux=NULL_CEWI; /* Auxiliary coordinate limits */
+ int aux_lmt_nbr; /* Number of auxiliary coordinate limits */
+ nc_type crd_typ; /* [enm] netCDF type of both "latitude" and "longitude" */
+ char units[NC_MAX_NAME+1];
+
+ aux_lmt_nbr=0;
+ crd_typ=trv_tbl->lst[idx_tbl].var_dmn[dmn_idx_fnd].lat_crd[0].crd_typ;
+ strcpy(units,trv_tbl->lst[idx_tbl].var_dmn[dmn_idx_fnd].lat_crd[0].units);
+
+ aux=nco_aux_evl_trv(nc_id,aux_nbr,aux_arg,lat_trv,lon_trv,crd_typ,units,&aux_lmt_nbr);
+
+ /* Mark both 'latitude' and 'longitude' for extraction */
+ if(EXTRACT_ASSOCIATED_COORDINATES){
+ (void)trv_tbl_mrk_xtr(lat_trv->nm_fll,True,trv_tbl);
+ (void)trv_tbl_mrk_xtr(lon_trv->nm_fll,True,trv_tbl);
+ }
+
+ /* Found limits */
+ if(aux_lmt_nbr > 0 ){
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s variable <%s> (%d) limits\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->lst[idx_tbl].nm_fll,aux_lmt_nbr);
+ }
+
+ lmt_sct **lmt=aux;
+ int lmt_dmn_nbr=aux_lmt_nbr;
+
+ /* The dimension IDs of both 'latitude' and 'longitude' must refer to the same dimemsion (e.g., 'gds_crd) ) */
+ assert(dmn_id_fnd_lon == dmn_id_fnd_lat);
+
+ /* Apply limits to variable in table */
+ (void)nco_lmt_aux_tbl(nc_id,lmt,lmt_dmn_nbr,var_trv.nm_fll,dmn_id_fnd_lat,FORTRAN_IDX_CNV,MSA_USR_RDR,trv_tbl);
+
+ /* Apply limits to *all* 'latitude', 'longitude' variables that share the same ID */
+ (void)nco_lmt_std_att_lat_lon(nc_id,lmt,lmt_dmn_nbr,dmn_id_fnd_lat,FORTRAN_IDX_CNV,MSA_USR_RDR,trv_tbl);
+
+ /* Get unique dimension object from unique dimension ID (e.g., 'gds_crd) */
+ dmn_trv_sct *dmn_trv=nco_dmn_trv_sct(dmn_id_fnd_lat,trv_tbl);
+
+ /* The dimension IDs of both 'latitude' and 'longitude' must refer to the same dimemsion (e.g., 'gds_crd) ) */
+ assert(dmn_id_fnd_lon == dmn_trv->dmn_id);
+
+ /* Apply limits to the coordinate (e.g., 'gds_crd) */
+ (void)nco_lmt_aux_tbl(nc_id,lmt,lmt_dmn_nbr,dmn_trv->nm_fll,dmn_id_fnd_lat,FORTRAN_IDX_CNV,MSA_USR_RDR,trv_tbl);
+
+ } /* Found limits */
+
+ /* Free limits exported from nco_aux_evl_trv() */
+ aux=(lmt_sct **)nco_free(aux);
+
+ } /* Auxiliary coordinates found */
+ } /* Filter variables with auxiliary coordinates */
+ } /* Filter variables to extract */
+ } /* Loop table */
+
+ return;
+} /* nco_prs_aux_crd() */
+
+
+void
+nco_lmt_aux_tbl /* [fnc] Apply limits to variable in table */
+(const int nc_id, /* I [ID] netCDF file ID */
+ lmt_sct **lmt, /* I [sct] Limits */
+ const int nbr_lmt, /* I [nbr] Number of limits */
+ const char * const var_nm_fll, /* I [sng] Variable full name */
+ const int dmn_id, /* I [id] ID of dimension to apply the limits */
+ nco_bool FORTRAN_IDX_CNV, /* I [flg] Hyperslab indices obey Fortran convention */
+ nco_bool MSA_USR_RDR, /* I [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
+{
+ /* Loop table */
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ /* Match variable */
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && !strcmp(var_nm_fll,trv_tbl->lst[idx_tbl].nm_fll)){
+
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
+
+ /* Loop dimensions */
+ for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
+ /* Match index */
+ if(dmn_id == var_trv.var_dmn[idx_dmn].dmn_id){
+
+ /* Apply limits */
+ (void)nco_lmt_aux(nc_id,lmt,nbr_lmt,FORTRAN_IDX_CNV,MSA_USR_RDR,idx_tbl,idx_dmn,trv_tbl);
+
+ } /* Match index */
+ } /* Loop dimensions */
+
+ } /* Match variable */
+ } /* Loop table */
+
+ return;
+} /* nco_lmt_aux_tbl() */
+
+
+
+void
+nco_lmt_std_att_lat_lon /* [fnc] Apply limits to variable in table that contains 'standard_name' attribute "latitude" */
+(const int nc_id, /* I [ID] netCDF file ID */
+ lmt_sct **lmt, /* I [sct] Limits */
+ const int nbr_nbr, /* I [nbr] Number of limits */
+ const int dmn_id, /* I [id] ID of dimension to apply the limits */
+ nco_bool FORTRAN_IDX_CNV, /* I [flg] Hyperslab indices obey Fortran convention */
+ nco_bool MSA_USR_RDR, /* I [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
+{
+ /* Loop table */
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ /* Match variable that has 'standard_name' flag */
+ if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var &&
+ (trv_tbl->lst[idx_tbl].flg_std_att_lat || trv_tbl->lst[idx_tbl].flg_std_att_lon)){
+
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
+
+ /* Loop dimensions */
+ for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
+ /* Match index */
+ if(dmn_id == var_trv.var_dmn[idx_dmn].dmn_id){
+
+ /* Apply limits */
+ (void)nco_lmt_aux(nc_id,lmt,nbr_nbr,FORTRAN_IDX_CNV,MSA_USR_RDR,idx_tbl,idx_dmn,trv_tbl);
+
+ } /* Match index */
+ } /* Loop dimensions */
+
+ } /* Match variable */
+ } /* Loop table */
+
+ return;
+} /* nco_lmt_std_att_lat_lon() */
+
+
+
+void
+nco_lmt_aux /* [fnc] Apply auxiliary -X limits (Auxiliary function called by different functions ) */
+(const int nc_id, /* I [ID] netCDF file ID */
+ lmt_sct **lmt, /* I [sct] Limits */
+ const int nbr_nbr, /* I [nbr] Number of limits */
+ nco_bool FORTRAN_IDX_CNV, /* I [flg] Hyperslab indices obey Fortran convention */
+ nco_bool MSA_USR_RDR, /* I [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
+ const int idx_tbl, /* I [nbr] Table index */
+ const int idx_dmn, /* I [nbr] Dimension index */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
+{
+
+ /* a) case where the dimension has coordinate variables */
+ if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd){
+
+ /* For this call (-X) the *same* limits are applied to all coordinates, and other variables might apply
+ them too, so make sure they are applied only once by setting -1 in lmt_crr */
+
+ if (trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_crr == -1) return;
+
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_crr=-1;
+
+ /* Loop limits */
+ for(int idx_lmt=0;idx_lmt<nbr_nbr;idx_lmt++){
+
+ /* Increment number of dimension limits for this dimension */
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr++;
+
+ int nbr_lmt=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr;
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn=(lmt_sct **)nco_realloc(
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn,nbr_lmt*sizeof(lmt_sct *));
+
+ crd_sct *crd=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd;
+
+ /* Limit is same as dimension in input file? */
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.NON_HYP_DMN=False;
+
+ /* Parse user-specified limits into hyperslab specifications. NOTE: Use True parameter and "crd" */
+ (void)nco_lmt_evl_dmn_crd(nc_id,0L,FORTRAN_IDX_CNV,crd->crd_grp_nm_fll,crd->nm,crd->sz,crd->is_rec_dmn,True,lmt[idx_lmt]);
+
+ /* Alloc this limit */
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn[idx_lmt]=(lmt_sct *)nco_malloc(sizeof(lmt_sct));
+
+ /* Initialize this entry */
+ (void)nco_lmt_init(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn[idx_lmt]);
+
+ /* Store dimension ID */
+ lmt[idx_lmt]->id=crd->dmn_id;
+
+ /* Store this valid input; deep-copy to table */
+ (void)nco_lmt_cpy(lmt[idx_lmt],trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn[idx_lmt]);
+
+ } /* Loop limits */
+
+ /* Apply MSA for each Dimension in new cycle (that now has all its limits in place) */
+
+ /* Loop limits */
+ for(int idx_lmt=0;idx_lmt<nbr_nbr;idx_lmt++){
+
+ crd_sct *crd=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd;
+
+ /* Adapted from original MSA loop in nco_msa_lmt_all_ntl(); differences are marked GTT specific */
+
+ nco_bool flg_ovl; /* [flg] Limits overlap */
+
+ /* GTT: If this coordinate has no limits, continue */
+ if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr == 0) continue;
+
+ /* ncra/ncrcat have only one limit for record dimension so skip evaluation otherwise this messes up multi-file operation */
+ if(crd->is_rec_dmn && (nco_prg_id_get() == ncra || nco_prg_id_get() == ncrcat)) continue;
+
+ /* Split-up wrapped limits. NOTE: using deep copy version nco_msa_wrp_splt_cpy() */
+ (void)nco_msa_wrp_splt_cpy(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+
+ /* Wrapped hyperslabs are dimensions broken into the "wrong" order, e.g., from
+ -d time,8,2 broken into -d time,8,9 -d time,0,2
+ WRP flag set only when list contains dimensions split as above */
+ if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.WRP){
+
+ /* Find and store size of output dim */
+ (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+
+ continue;
+ } /* End WRP flag set */
+
+ /* Single slab---no analysis needed */
+ if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr == 1){
+
+ (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+
+ continue;
+ } /* End Single slab */
+
+ /* Does Multi-Slab Algorithm returns hyperslabs in user-specified order? */
+ if(MSA_USR_RDR){
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.MSA_USR_RDR=True;
+
+ /* Find and store size of output dimension */
+ (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+
+ continue;
+ } /* End MSA_USR_RDR */
+
+ /* Sort limits */
+ (void)nco_msa_qsort_srt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+
+ /* Check for overlap */
+ flg_ovl=nco_msa_ovl(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+
+ /* Find and store size of output dimension */
+ (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+
+ if(nco_dbg_lvl_get() >= nco_dbg_fl){
+ if(flg_ovl) (void)fprintf(stdout,"%s: coordinate \"%s\" has overlapping hyperslabs\n",nco_prg_nm_get(),crd->nm); else (void)fprintf(stdout,"%s: coordinate \"%s\" has distinct hyperslabs\n",nco_prg_nm_get(),crd->nm);
+ } /* endif */
+
+ } /* Loop limits */
+ } /* a) case where the dimension has coordinate variables */
+
+ return;
+} /* nco_lmt_aux() */
+
+
+void
+nco_bld_crd_aux /* [fnc] Build auxiliary coordinates information into table */
+(const int nc_id, /* I [ID] netCDF file ID */
+ trv_tbl_sct *trv_tbl) /* I [sct] GTT (Group Traversal Table) */
+{
+ const char fnc_nm[]="nco_bld_crd_aux()"; /* [sng] Function name */
+
+ /* Look for 'standard_name' 'latitude' and 'longitude' attributes */
+
+ char *var_nm_fll=NULL;
+
+ int dmn_id; /* [id] Dimension ID of dimension of 'latitude' and 'longitude' coordinate variables, e.g., lat_gds(gds_crd) */
+
+ nc_type crd_typ;
+
+ /* Loop table */
+ for(unsigned idx_var=0;idx_var<trv_tbl->nbr;idx_var++){
+ /* Filter variables */
+ trv_sct var_trv=trv_tbl->lst[idx_var];
+
+ nco_bool has_lat;
+ nco_bool has_lon;
+
+ /* Filter variables. */
+ if(var_trv.nco_typ == nco_obj_typ_var){
+
+ char units_lat[NC_MAX_NAME+1];
+ char units_lon[NC_MAX_NAME+1];
+
+ has_lat=nco_find_lat_lon_trv(nc_id,&var_trv,"latitude",&var_nm_fll,&dmn_id,&crd_typ,units_lat);
+
+ if (has_lat){
+
+ /* Variable contains 'standard_name' attribute "latitude" */
+ trv_tbl->lst[idx_var].flg_std_att_lat=True;
+
+ /* Loop table */
+ for(unsigned idx_crd=0;idx_crd<trv_tbl->nbr;idx_crd++){
+ /* Filter */
+ if(trv_tbl->lst[idx_crd].nco_typ == nco_obj_typ_var &&
+ trv_tbl->lst[idx_crd].nbr_dmn >=2 &&
+ trv_tbl->lst[idx_crd].is_crd_var == False){
+ /* Loop dimensions */
+ for(int idx_dmn=0;idx_dmn<trv_tbl->lst[idx_crd].nbr_dmn;idx_dmn++){
+ /* Match dimension */
+ if (trv_tbl->lst[idx_crd].var_dmn[idx_dmn].dmn_id == dmn_id){
+ /* Check if possible 'latitude' (var_trv) is in scope */
+ if (nco_var_scp(&trv_tbl->lst[idx_crd],&var_trv,trv_tbl)){
+
+ trv_tbl->lst[idx_crd].flg_aux=True;
+
+ /* Insert item into list */
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].nbr_lat_crd++;
+ int nbr_lat_crd=trv_tbl->lst[idx_crd].var_dmn[idx_dmn].nbr_lat_crd;
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd=(aux_crd_sct *)nco_realloc(
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd,nbr_lat_crd*sizeof(aux_crd_sct));
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].nm_fll=strdup(var_nm_fll);
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].dmn_id=dmn_id;
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].grp_dpt=var_trv.grp_dpt;
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].crd_typ=crd_typ;
+ strcpy(trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].units,units_lat);
+
+ } /* Is in scope */
+ } /* Match dimension */
+ } /* Loop dimensions */
+ } /* Filter */
+ } /* Loop table */
+
+ } /* has_lat */
+
+ has_lon=nco_find_lat_lon_trv(nc_id,&var_trv,"longitude",&var_nm_fll,&dmn_id,&crd_typ,units_lon);
+
+ if (has_lon){
+
+ /* Variable contains 'standard_name' attribute "longitude" */
+ trv_tbl->lst[idx_var].flg_std_att_lon=True;
+
+ /* Loop table */
+ for(unsigned idx_crd=0;idx_crd<trv_tbl->nbr;idx_crd++){
+ /* Filter */
+ if(trv_tbl->lst[idx_crd].nco_typ == nco_obj_typ_var &&
+ trv_tbl->lst[idx_crd].nbr_dmn >=2 &&
+ trv_tbl->lst[idx_crd].is_crd_var == False){
+ /* Loop dimensions */
+ for(int idx_dmn=0;idx_dmn<trv_tbl->lst[idx_crd].nbr_dmn;idx_dmn++){
+ /* Match dimension */
+ if (trv_tbl->lst[idx_crd].var_dmn[idx_dmn].dmn_id == dmn_id){
+ /* Check if possible 'longitude' (var_trv) is in scope */
+ if (nco_var_scp(&trv_tbl->lst[idx_crd],&var_trv,trv_tbl)){
+
+ trv_tbl->lst[idx_crd].flg_aux=True;
+
+ /* Insert item into list */
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].nbr_lon_crd++;
+ int nbr_lon_crd=trv_tbl->lst[idx_crd].var_dmn[idx_dmn].nbr_lon_crd;
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd=(aux_crd_sct *)nco_realloc(
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd,nbr_lon_crd*sizeof(aux_crd_sct));
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].nm_fll=strdup(var_nm_fll);
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].dmn_id=dmn_id;
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].grp_dpt=var_trv.grp_dpt;
+ trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].crd_typ=crd_typ;
+ strcpy(trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].units,units_lat);
+
+ } /* Is in scope */
+ } /* Match dimension */
+ } /* Loop dimensions */
+ } /* Filter */
+ } /* Loop table */
+
+ } /* has_lon */
+ } /* Filter variables to extract */
+ } /* Loop table */
+
+ /* Sort the array of 'latitude' and 'longitude' coordinate variables by group depth and choose the most in scope variables */
+
+ /* Loop table */
+ for(unsigned idx_var=0;idx_var<trv_tbl->nbr;idx_var++){
+
+ /* Filter variables with auxiliary coordinates */
+ if(trv_tbl->lst[idx_var].flg_aux){
+
+ assert(trv_tbl->lst[idx_var].nco_typ == nco_obj_typ_var);
+
+ /* Loop dimensions */
+ for(int idx_dmn=0;idx_dmn<trv_tbl->lst[idx_var].nbr_dmn;idx_dmn++){
+
+ /* Has 'latitude' auxiliary coordinates */
+ if (trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lat_crd){
+
+ int nbr_lat_crd=trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lat_crd;
+
+ /* Sort them by group depth */
+ qsort(trv_tbl->lst[idx_var].var_dmn[idx_dmn].lat_crd,(size_t)nbr_lat_crd,sizeof(trv_tbl->lst[idx_var].var_dmn[idx_dmn].lat_crd[0]),nco_cmp_aux_crd_dpt);
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s variable with auxiliary coordinates <%s>:<%s>\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->lst[idx_var].nm_fll,trv_tbl->lst[idx_var].var_dmn[idx_dmn].dmn_nm_fll);
+ for(int idx_crd=0;idx_crd<nbr_lat_crd;idx_crd++){
+ (void)fprintf(stdout,"%s: DEBUG %s <%s> dpt=%d\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->lst[idx_var].var_dmn[idx_dmn].lat_crd[idx_crd].nm_fll,
+ trv_tbl->lst[idx_var].var_dmn[idx_dmn].lat_crd[idx_crd].grp_dpt);
+ }
+ }
+
+ } /* Has 'latitude' auxiliary coordinates */
+
+ /* Has 'longitude' auxiliary coordinates */
+ if (trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lon_crd){
+
+ int nbr_lon_crd=trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lon_crd;
+
+ /* Sort them by group depth */
+ qsort(trv_tbl->lst[idx_var].var_dmn[idx_dmn].lon_crd,(size_t)nbr_lon_crd,sizeof(trv_tbl->lst[idx_var].var_dmn[idx_dmn].lon_crd[0]),nco_cmp_aux_crd_dpt);
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s variable with auxiliary coordinates <%s>:<%s>\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->lst[idx_var].nm_fll,trv_tbl->lst[idx_var].var_dmn[idx_dmn].dmn_nm_fll);
+ for(int idx_crd=0;idx_crd<nbr_lon_crd;idx_crd++){
+ (void)fprintf(stdout,"%s: DEBUG %s <%s> dpt=%d\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->lst[idx_var].var_dmn[idx_dmn].lon_crd[idx_crd].nm_fll,
+ trv_tbl->lst[idx_var].var_dmn[idx_dmn].lon_crd[idx_crd].grp_dpt);
+ }
+ }
+
+ } /* Has 'longitude' auxiliary coordinates */
+ } /* Loop dimensions */
+ } /* Filter variables with auxiliary coordinates */
+ } /* Loop table */
+
+ return;
+} /* nco_bld_crd_aux() */
+
+nco_bool /* O [flg] True if variable 1 is in scope of variable 2 */
+nco_var_scp /* [fnc] Is variable 1 is in scope of variable 2 */
+(const trv_sct * const var_trv_1, /* I [sct] Variable 1 */
+ const trv_sct * const var_trv_2, /* I [sct] Variable 2 (use case , find 'latitude in scope )*/
+ const trv_tbl_sct * const trv_tbl) /* I [sct] Traversal table */
+{
+
+ /* Same group */
+ if (strcmp(var_trv_1->grp_nm_fll,var_trv_2->grp_nm_fll) == 0){
+ return True;
+ }
+
+ /* Different groups: traverse down the higher and look for a group match name */
+ if(var_trv_2->grp_dpt > var_trv_1->grp_dpt){
+
+ char *grp_nm_fll_prn_2=var_trv_2->grp_nm_fll_prn; /* [sct] Parent group */
+ trv_sct *grp_prn_2;
+
+ grp_prn_2=trv_tbl_grp_nm_fll(grp_nm_fll_prn_2,trv_tbl);
+
+ /* Look for same group name in hierarchy */
+ while (grp_nm_fll_prn_2){
+
+ /* Same group in hierarchy */
+ if (strcmp(grp_prn_2->grp_nm,var_trv_1->grp_nm) == 0){
+ return True;
+ } /* Same group in hierarchy */
+
+ /* Exit loop when root reached */
+ if (grp_prn_2->grp_dpt == 0){
+ break;
+ }
+
+ grp_nm_fll_prn_2=grp_prn_2->grp_nm_fll_prn;
+ grp_prn_2=trv_tbl_grp_nm_fll(grp_nm_fll_prn_2,trv_tbl);
+ } /* Look for same group name in hierarchy */
+
+ }
+
+ return False;
+} /* nco_var_scp() */
+
+int *
+nco_dmn_malloc /* [fnc] Inquire about number of dimensions in group and return dynamic array of dimension IDs */
+(const int nc_id, /* I [ID] netCDF file ID */
+ const char * const grp_nm_fll, /* I [sng] Group full name */
+ int *dmn_nbr) /* I/O [nbr] Number of dimensions in group */
+
+{
+ const int flg_prn=0; /* [flg] Retrieve all dimensions in parent groups */
+
+ int *dmn_ids; /* [nbr] Dimensions IDs array */
+ int grp_id; /* [ID] Group ID */
+ int nbr_dmn; /* [nbr] Number of dimensions */
+
+ /* Obtain group ID from netCDF API using full group name */
+ (void)nco_inq_grp_full_ncid(nc_id,grp_nm_fll,&grp_id);
+
+ /* Obtain number of dimensions for group */
+ (void)nco_inq(grp_id,&nbr_dmn,(int *)NULL,(int *)NULL,(int *)NULL);
+
+ /* Alloc array */
+ dmn_ids=(int *)nco_malloc(nbr_dmn*sizeof(int));
+
+ /* Obtain dimensions IDs for group */
+ (void)nco_inq_dimids(grp_id,&nbr_dmn,dmn_ids,flg_prn);
+
+ /* Export number of dimensions */
+ *dmn_nbr=nbr_dmn;
+
+ return dmn_ids;
+}
+
+void
+nco_prn_var /* [fnc] Print variable (debug only) */
+(const int nc_id, /* I [ID] netCDF file ID (Input or output file) */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
+{
+ const char fnc_nm[]="nco_prn_var()"; /* [sng] Function name */
+
+ int grp_id;
+ int var_id;
+ nc_type var_typ;
+ int nbr_dmn;
+
+ /* Loop table */
+ for(unsigned int idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+
+ trv_sct var_trv=trv_tbl->lst[idx_tbl];
+
+ /* Is variable */
+ if(var_trv.nco_typ == nco_obj_typ_var){
+
+ (void)nco_inq_grp_full_ncid(nc_id,var_trv.grp_nm_fll,&grp_id);
+ (void)nco_inq_varid(grp_id,var_trv.nm,&var_id);
+ (void)nco_inq_var(grp_id,var_id,(char *)NULL,&var_typ,&nbr_dmn,(int *)NULL,(int *)NULL);
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s variable <%s> Type: %d\n",nco_prg_nm_get(),fnc_nm,var_trv.nm_fll,var_typ);
+
+ } /* Is variable */
+ } /* Loop table */
+} /* nco_prn_var() */
+
+void
+nco_dmn_lmt /* [fnc] Convert a lmt_sct array to dmn_sct (name only) */
+(lmt_sct **lmt, /* I [lst] lmt_sct array */
+ const int nbr_lmt, /* I [nbr] Size of lmt_sct array */
+ dmn_sct ***dmn) /* O [sct] dmn_sct array */
+{
+ for(int idx=0;idx<nbr_lmt;idx++){
+ (*dmn)[idx]=(dmn_sct *)nco_malloc(sizeof(dmn_sct));
+ (*dmn)[idx]->nm=(char *)strdup(lmt[idx]->nm);
+ (*dmn)[idx]->nm_fll=(char *)strdup(lmt[idx]->nm_fll);
+ (*dmn)[idx]->id=-1;
+ (*dmn)[idx]->nc_id=-1;
+ (*dmn)[idx]->xrf=NULL;
+ (*dmn)[idx]->val.vp=NULL;
+ (*dmn)[idx]->is_rec_dmn=lmt[idx]->is_rec_dmn;
+ (*dmn)[idx]->cnt=-1;
+ (*dmn)[idx]->sz=-1;
+ (*dmn)[idx]->srt=-1;
+ (*dmn)[idx]->end=-1;
+ (*dmn)[idx]->srd=-1;
+ (*dmn)[idx]->cid=-1;
+ (*dmn)[idx]->cnk_sz=-1;
+ (*dmn)[idx]->type=(nc_type)-1;
+ }
+
+ return;
+
+} /* end nco_dmn_lmt() */
+
+
+void
+nco_prn_nsm /* [fnc] Print ensembles */
+(const trv_tbl_sct * const trv_tbl) /* I [sct] Traversal table */
+{
+ (void)fprintf(stdout,"%s: list of ensembles\n",nco_prg_nm_get());
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+ (void)fprintf(stdout,"%s: <%s>\n",nco_prg_nm_get(),trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ }
+
+ (void)fprintf(stdout,"%s: list of fixed templates\n",nco_prg_nm_get());
+ for(int idx_skp=0;idx_skp<trv_tbl->nsm->skp_nbr;idx_skp++){
+ (void)fprintf(stdout,"%s: <template> %d <%s>\n",nco_prg_nm_get(),idx_skp,trv_tbl->nsm->skp_nm_fll[idx_skp]);
+ }
+
+
+ (void)fprintf(stdout,"%s: list of templates\n",nco_prg_nm_get());
+ int idx_tpl=0;
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ if(trv_tbl->lst[idx_tbl].flg_nsm_tpl){
+ (void)fprintf(stdout,"%s: <template> %d <%s>\n",nco_prg_nm_get(),idx_tpl,trv_tbl->lst[idx_tbl].nm_fll);
+ idx_tpl++;
+ }
+ }
+
+ (void)fprintf(stdout,"%s: list of ensemble members\n",nco_prg_nm_get());
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+ (void)fprintf(stdout,"%s: <ensemble %d> <%s>\n",nco_prg_nm_get(),idx_nsm,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ for(int idx_mbr=0;idx_mbr<trv_tbl->nsm[idx_nsm].mbr_nbr;idx_mbr++){
+ (void)fprintf(stdout,"%s: \t <member %d> <%s>\n",nco_prg_nm_get(),idx_mbr,trv_tbl->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll);
+ for(int idx_var=0;idx_var<trv_tbl->nsm[idx_nsm].mbr[idx_mbr].var_nbr;idx_var++){
+ (void)fprintf(stdout,"%s: \t <variable %d> <%s>\n",nco_prg_nm_get(),idx_var,trv_tbl->nsm[idx_nsm].mbr[idx_mbr].var_nm_fll[idx_var]);
+ }
+ }
+ }
+
+} /* nco_prn_nsm() */
+
+
+
+void
+nco_bld_nsm /* [fnc] Build ensembles */
+(const int nc_id, /* I [id] netCDF file ID */
+ const nco_bool flg_fix_xtr, /* I [flg] Mark fized variables as extracted */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_pck_plc, /* I [enm] Packing policy */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
+{
+ /* Purpose: Build ensembles */
const char fnc_nm[]="nco_bld_nsm()"; /* [sng] Function name */
- char **nm_lst_1; /* [sng] List of names */
- char **nm_lst_2; /* [sng] List of names */
+ char **nm_lst_1; /* [sng] List of names */
+ char **nm_lst_2; /* [sng] List of names */
+
+ int nm_lst_1_nbr; /* [nbr] Number of items in list */
+ int nm_lst_2_nbr; /* [nbr] Number of items in list */
+ int nbr_cmn_nm; /* [nbr] Number of common entries */
+ int nbr_nm; /* [nbr] Number of total entries */
+
+ int nco_prg_id=nco_prg_id_get(); /* [enm] Program key */
+
+ nco_bool flg_nsm_tpl; /* [flg] Variable is template */
+
+ nco_cmn_t *cmn_lst=NULL; /* [sct] A list of common names */
+
+ /* Insert ensembles (parent group name is key), template variables aand fixed template variables */
+
+ /* Loop table */
+ for(unsigned idx_tbl_1=0;idx_tbl_1<trv_tbl->nbr;idx_tbl_1++){
+ trv_sct trv_1=trv_tbl->lst[idx_tbl_1];
+ /* Group (not root, with variables) */
+ if(trv_1.nco_typ == nco_obj_typ_grp && trv_1.grp_dpt > 0 && trv_1.nbr_var > 0){
+ /* Export list of variable names for group */
+ (void)nco_grp_var_lst(nc_id,trv_1.grp_nm_fll,&nm_lst_1,&nm_lst_1_nbr);
+
+ /* Loop table */
+ for(unsigned idx_tbl_2=0;idx_tbl_2<trv_tbl->nbr;idx_tbl_2++){
+ trv_sct trv_2=trv_tbl->lst[idx_tbl_2];
+
+ /* Same depth, same number of variables, same parent group, lower group depth */
+ if(trv_1.nco_typ == nco_obj_typ_grp &&
+ trv_2.nco_typ == nco_obj_typ_grp &&
+ trv_1.grp_dpt == trv_2.grp_dpt &&
+ trv_1.nbr_var == trv_2.nbr_var &&
+ trv_1.grp_dpt > 1 &&
+ strcmp(trv_1.grp_nm_fll,trv_2.grp_nm_fll) != 0 &&
+ strcmp(trv_1.grp_nm_fll_prn,trv_2.grp_nm_fll_prn) == 0){
+
+ /* Assume not yet inserted in array */
+ nco_bool flg_ins=False;
+ /* Loop constructed array to see if already inserted */
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+ /* Match */
+ if(strcmp(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,trv_2.grp_nm_fll_prn) == 0){
+ /* Mark as inserted in array */
+ flg_ins=True;
+ break;
+ } /* Match */
+ } /* Loop constructed array to see if already inserted */
+
+ /* Export list of variable names for group */
+ (void)nco_grp_var_lst(nc_id,trv_2.grp_nm_fll,&nm_lst_2,&nm_lst_2_nbr);
+ /* Match 2 lists of variable names and export common names */
+ (void)nco_nm_mch(nm_lst_1,nm_lst_1_nbr,nm_lst_2,nm_lst_2_nbr,&cmn_lst,&nbr_nm,&nbr_cmn_nm);
+ /* Found common names */
+ if (nbr_cmn_nm && nm_lst_1_nbr == nm_lst_2_nbr && nm_lst_1_nbr == nbr_cmn_nm && !flg_ins){
+
+ trv_tbl->nsm_nbr++;
+ trv_tbl->nsm=(nsm_sct *)nco_realloc(trv_tbl->nsm,trv_tbl->nsm_nbr*sizeof(nsm_sct));
+
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].grp_nm_fll_prn=(char *)strdup(trv_2.grp_nm_fll_prn);
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr_nbr=0;
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr=NULL;
+
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_mbr_nm=NULL;
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_nbr=0;
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].skp_nm_fll=NULL;
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].skp_nbr=0;
+
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr_srt=0;
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr_end=0;
+
+ /* Group (NB: outer loop) is ensemble parent group */
+ trv_tbl->lst[idx_tbl_1].flg_nsm_prn=True;
+
+ if(nco_dbg_lvl_get() == nco_dbg_old){
+ (void)fprintf(stdout,"%s: DEBUG %s inserted ensemble for <%s>\n",nco_prg_nm_get(),fnc_nm,trv_2.grp_nm_fll_prn);
+ }
+
+ /* Loop common names, insert template and fixed template variables */
+ for(int idx_nm=0;idx_nm<nbr_cmn_nm;idx_nm++){
+
+ /* Define variable full name (use trv_1) */
+ char *var_nm_fll=nco_bld_nm_fll(trv_1.grp_nm_fll,cmn_lst[idx_nm].nm);
+
+ /* Get GTT object */
+ trv_sct *var_trv=trv_tbl_var_nm_fll(var_nm_fll,trv_tbl);
+
+ nco_bool var_is_fix=False; /* [fnc] Variable should be treated as a fixed variable */
+
+ if(CNV_CCM_CCSM_CF){
+ var_is_fix=nco_var_is_fix(var_trv->nm,nco_prg_id,nco_pck_plc);
+ }
+
+ /* Define as either fixed template or template */
+ if (var_trv->is_crd_var || var_trv->is_rec_var || var_is_fix){
+
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].skp_nbr++;
+ int skp_nbr=trv_tbl->nsm[trv_tbl->nsm_nbr-1].skp_nbr;
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].skp_nm_fll=(char **)nco_realloc(trv_tbl->nsm[trv_tbl->nsm_nbr-1].skp_nm_fll,skp_nbr*sizeof(char *));
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].skp_nm_fll[skp_nbr-1]=(char *)strdup(var_trv->nm_fll);
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev)
+ (void)fprintf(stdout,"%s: DEBUG %s inserted fixed template <%s>\n",nco_prg_nm_get(),
+ fnc_nm,trv_tbl->nsm[trv_tbl->nsm_nbr-1].skp_nm_fll[skp_nbr-1]);
+
+ } else {
+
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_nbr++;
+ int tpl_nbr=trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_nbr;
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_mbr_nm=(char **)nco_realloc(trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_mbr_nm,tpl_nbr*sizeof(char *));
+ trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_mbr_nm[tpl_nbr-1]=(char *)strdup(var_trv->nm);
+
+ if(nco_dbg_lvl_get() == nco_dbg_old)
+ (void)fprintf(stdout,"%s: DEBUG %s inserted template <%s>\n",nco_prg_nm_get(),
+ fnc_nm,trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_mbr_nm[tpl_nbr-1]=(char *)strdup(var_trv->nm));
+
+ } /* Define as either fixed template or template */
+ } /* Loop common names, insert template and fixed template variables */
+ } /* Found common names */
+
+ /* Free list 2 */
+ for(int idx_nm=0;idx_nm<nm_lst_2_nbr;idx_nm++) nm_lst_2[idx_nm]=(char *)nco_free(nm_lst_2[idx_nm]);
+ nm_lst_2=(char **)nco_free(nm_lst_2);
+
+ } /* Same depth, same number of variables */
+ } /* Loop table */
+
+ /* Free list 1 */
+ for(int idx_nm=0;idx_nm<nm_lst_1_nbr;idx_nm++) nm_lst_1[idx_nm]=(char *)nco_free(nm_lst_1[idx_nm]);
+ nm_lst_1=(char **)nco_free(nm_lst_1);
+
+ } /* Group (not root) */
+ } /* Loop table */
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s list of ensembles\n",nco_prg_nm_get(),fnc_nm);
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+ (void)fprintf(stdout,"%s: DEBUG %s <%s>\n",nco_prg_nm_get(),fnc_nm,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ }
+ }
+
+ if(trv_tbl->nsm_nbr == 0) return;
+
+ /* Insert names in ensembles */
+
+ /* Loop ensembles */
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+
+ /* Loop table */
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ trv_sct trv=trv_tbl->lst[idx_tbl];
+
+ /* Match group parent name with ensemble name */
+ if(trv.nco_typ == nco_obj_typ_grp &&
+ trv.grp_dpt > 1 &&
+ trv.nbr_var > 0 &&
+ strcmp(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,trv.grp_nm_fll_prn) == 0){
+
+ int mbr_nbr=trv_tbl->nsm[idx_nsm].mbr_nbr;
+ trv_tbl->nsm[idx_nsm].mbr_nbr++;
+ trv_tbl->nsm[idx_nsm].mbr=(nsm_grp_sct *)nco_realloc(trv_tbl->nsm[idx_nsm].mbr,(mbr_nbr+1)*sizeof(nsm_grp_sct));
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].mbr_nm_fll=(char *)strdup(trv.grp_nm_fll);
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nbr=0;
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll=NULL;
+
+ /* Define offsets */
+ trv_tbl->nsm[idx_nsm].mbr_srt=0;
+ trv_tbl->nsm[idx_nsm].mbr_end=trv_tbl->nsm[idx_nsm].mbr_nbr;
+
+ int tpl_nbr=trv_tbl->nsm[idx_nsm].tpl_nbr;
+
+ /* Insert members by builing name from group and template */
+ for(int idx_tpl=0;idx_tpl<tpl_nbr;idx_tpl++){
+
+ /* Define variable full name */
+ char *var_nm_fll=nco_bld_nm_fll(trv.nm_fll,trv_tbl->nsm[idx_nsm].tpl_mbr_nm[idx_tpl]);
+
+ /* Inquire if variable exists */
+ trv_sct *var_trv=trv_tbl_var_nm_fll(var_nm_fll,trv_tbl);
+
+ if (!var_trv){
+ (void)fprintf(stderr,"%s: ERROR expected member ensemble <%s> does not exist\n",nco_prg_nm_get(),var_nm_fll);
+ nco_exit(EXIT_FAILURE);
+ }
+
+ /* Mark variables as ensemble members */
+
+ /* If not the first group member, then it's not a template */
+ if(mbr_nbr == 0) flg_nsm_tpl=True; else flg_nsm_tpl=False;
+
+ /* Mark ensemble member flag in table for "var_nm_fll" */
+ (void)trv_tbl_mrk_nsm_mbr(var_nm_fll,flg_nsm_tpl,trv.grp_nm_fll_prn,trv_tbl);
+
+ /* Insert variable in table ensemble struct */
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nbr++;
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll=(char **)nco_realloc(trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll,trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nbr*sizeof(char *));
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll[idx_tpl]=(char *)strdup(var_nm_fll);
+
+ if(nco_dbg_lvl_get() == nco_dbg_old){
+ (void)fprintf(stdout,"%s: DEBUG %s inserted ensemble variable <%s>\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll[idx_tpl]);
+ }
+
+ /* Free */
+ var_nm_fll=(char *)nco_free(var_nm_fll);
+
+ } /* Insert members by building name from group and template */
+
+ /* Mark fixed templates as non extracted */
+ if (flg_fix_xtr == True){
+
+ /* List of fixed templates */
+ for(int idx_skp=0;idx_skp<trv_tbl->nsm[idx_nsm].skp_nbr;idx_skp++){
+
+ /* Get variable */
+ trv_sct *var_trv=trv_tbl_var_nm_fll(trv_tbl->nsm[idx_nsm].skp_nm_fll[idx_skp],trv_tbl);
+
+ /* Define variable full name (using group name and relative name of fixed template) */
+ char *skp_nm_fll=nco_bld_nm_fll(trv.nm_fll,var_trv->nm);
+
+ /* Mark the skip names as non extracted variables */
+ (void)trv_tbl_mrk_xtr(skp_nm_fll,False,trv_tbl);
+
+ /*And its group too... */
+ (void)trv_tbl_mrk_grp_xtr(trv.nm_fll,False,trv_tbl);
+
+ /* Free */
+ skp_nm_fll=(char *)nco_free(skp_nm_fll);
+
+ } /* List of fixed templates */
+
+ } /* Mark fixed templates as non extracted */
+
+ } /* Match */
+ } /* Loop table */
+ } /* Loop ensembles */
+
+
+ if(nco_dbg_lvl_get() >= nco_dbg_fl){
+ nco_prn_nsm(trv_tbl);
+ }
+
+} /* nco_bld_nsm() */
+
+void
+nco_nsm_dfn_wrt /* [fnc] Define OR write ensemble fixed variables */
+(const int nc_id, /* I [ID] netCDF input file ID */
+ const int nc_out_id, /* I [ID] netCDF output file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ const nco_bool flg_def, /* I [flg] Define OR write */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
+{
+ char *grp_out_fll; /* [sng] Group name */
+
+ int grp_id_in; /* [ID] Group ID */
+ int grp_id_out; /* [ID] Group ID */
+
+ /* Ensembles */
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+
+ /* Get output group */
+
+ if(trv_tbl->nsm_sfx){
+ /* Define new name by appending suffix (e.g., /cesm + _avg) */
+ char *nm_fll_sfx=nco_bld_nsm_sfx(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,trv_tbl);
+ /* Use then delete new name */
+ if(gpe) grp_out_fll=nco_gpe_evl(gpe,nm_fll_sfx); else grp_out_fll=(char *)strdup(nm_fll_sfx);
+ nm_fll_sfx=(char *)nco_free(nm_fll_sfx);
+ }else{ /* Non suffix case */
+ if(gpe) grp_out_fll=nco_gpe_evl(gpe,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn); else grp_out_fll=(char *)strdup(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ } /* !trv_tbl->nsm_sfx */
+
+
+ /* List of fixed templates */
+ for(int idx_skp=0;idx_skp<trv_tbl->nsm[idx_nsm].skp_nbr;idx_skp++){
+
+ /* Get variable */
+ trv_sct *var_trv=trv_tbl_var_nm_fll(trv_tbl->nsm[idx_nsm].skp_nm_fll[idx_skp],trv_tbl);
+
+ /* Define variable */
+ if (flg_def == True) (void)nco_cpy_var_dfn_trv(nc_id,nc_out_id,cnk,grp_out_fll,dfl_lvl,gpe,NULL,var_trv,trv_tbl);
+
+ /* Obtain group IDs using full group name */
+ (void)nco_inq_grp_full_ncid(nc_id,var_trv->grp_nm_fll,&grp_id_in);
+ (void)nco_inq_grp_full_ncid(nc_out_id,grp_out_fll,&grp_id_out);
+
+ /* Copy variable data */
+ if (flg_def == False) (void)nco_cpy_var_val_mlt_lmt_trv(grp_id_in,grp_id_out,(FILE *)NULL,NULL,var_trv);
+
+ if(nco_dbg_lvl_get() >= nco_dbg_vrb && nco_dbg_lvl_get() != nco_dbg_dev){
+ (void)fprintf(stdout,"%s: INFO creating fixed variables <%s> in ensemble parent group <%s>\n",nco_prg_nm_get(),
+ trv_tbl->nsm[idx_nsm].skp_nm_fll[idx_skp],grp_out_fll);
+ }
+
+ } /* List of fixed templates */
+
+ /* Memory management after current extracted group */
+ if(grp_out_fll) grp_out_fll=(char *)nco_free(grp_out_fll);
+
+ } /* Ensembles */
+
+} /* nco_nsm_dfn_wrt() */
+
+void
+nco_nsm_ncr /* [fnc] Increase ensembles (more than 1 file cases) */
+(const int nc_id, /* I [id] netCDF file ID ( new file ) */
+ trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
+{
+ const char fnc_nm[]="nco_nsm_ncr()"; /* [sng] Function name */
+
+ char **nm_lst_1; /* [sng] List of names */
+ char *grp_nm_fll; /* I [sng] Full group name */
+ char *grp_nm; /* I [sng] Group name */
+
+ int nm_lst_1_nbr; /* [nbr] Number of items in list */
+ int grp_id; /* [id] Group ID */
+ int nbr_grp; /* [nbr] Number of sub-groups */
+ int *grp_ids; /* [id] Sub-group IDs array */
+ int mbr_srt; /* [nbr] Offset */
+ int rcd=NC_NOERR; /* [rcd] Return code */
+ int dmn_id_var_2[NC_MAX_DIMS]; /* [ID] Dimensions IDs array for variable */
+ int nbr_dmn_var_2; /* [nbr] Number of dimensions for variable */
+
+ size_t grp_nm_lng; /* [nbr] Group name length */
+
+ /* Loop over ensembles in table */
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+
+ /* Update offsets */
+ mbr_srt=trv_tbl->nsm[idx_nsm].mbr_end;
+ trv_tbl->nsm[idx_nsm].mbr_srt=mbr_srt;
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s <ensemble %d> <%s>\n",nco_prg_nm_get(),fnc_nm,idx_nsm,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ }
+
+ /* Obtain group ID of current ensemble using full group name */
+ rcd+=nco_inq_grp_full_ncid_flg(nc_id,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,&grp_id);
+
+ /* Group must exist (file # call > 1 ), if not exit */
+ if(rcd != NC_NOERR){
+ (void)fprintf(stdout,"%s: ERROR ensemble <%s> does not exist\n",nco_prg_nm_get(),trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ (void)fprintf(stdout,"%s: List of ensembles is\n",nco_prg_nm_get());
+ for(int idx=0;idx<trv_tbl->nsm_nbr;idx++){
+ (void)fprintf(stdout,"%s: <%s>\n",nco_prg_nm_get(),trv_tbl->nsm[idx].grp_nm_fll_prn);
+ nco_exit(EXIT_FAILURE);
+ }
+ }
+
+ /* Get number of sub-groups */
+ (void)nco_inq_grps(grp_id,&nbr_grp,(int *)NULL);
+ grp_ids=(int *)nco_malloc(nbr_grp*sizeof(int));
+ (void)nco_inq_grps(grp_id,(int *)NULL,grp_ids);
+
+ /* Loop sub-groups */
+ for(int idx_grp=0;idx_grp<nbr_grp;idx_grp++){
+
+ /* Get group name length */
+ (void)nco_inq_grpname_len(grp_ids[idx_grp],&grp_nm_lng);
+ grp_nm=(char *)nco_malloc(grp_nm_lng+1L);
+
+ /* Get group name */
+ (void)nco_inq_grpname(grp_ids[idx_grp],grp_nm);
+
+ /* Construct full name */
+ grp_nm_fll=(char *)nco_malloc(grp_nm_lng+strlen(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn)+2L);
+ strcpy(grp_nm_fll,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ strcat(grp_nm_fll,"/");
+ strcat(grp_nm_fll,grp_nm);
+
+ /* Export list of variable names for group */
+ (void)nco_grp_var_lst(nc_id,grp_nm_fll,&nm_lst_1,&nm_lst_1_nbr);
+
+ int tpl_nbr=trv_tbl->nsm[idx_nsm].tpl_nbr;
+
+ int mbr_nbr=trv_tbl->nsm[idx_nsm].mbr_nbr;
+ trv_tbl->nsm[idx_nsm].mbr_nbr++;
+ trv_tbl->nsm[idx_nsm].mbr=(nsm_grp_sct *)nco_realloc(trv_tbl->nsm[idx_nsm].mbr,(mbr_nbr+1)*sizeof(nsm_grp_sct));
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].mbr_nm_fll=(char *)strdup(grp_nm_fll);
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nbr=0;
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll=NULL;
+
+ /* Update offsets */
+ trv_tbl->nsm[idx_nsm].mbr_end=trv_tbl->nsm[idx_nsm].mbr_nbr;
+
+ /* Insert members by builing name from group and template */
+ for(int idx_tpl=0;idx_tpl<tpl_nbr;idx_tpl++){
+
+ /* Loop variables in group */
+ for(int idx_var=0;idx_var<nm_lst_1_nbr;idx_var++){
+
+ /* Match relative name of template variable and variable found in new file */
+ if(strcmp(nm_lst_1[idx_var],trv_tbl->nsm[idx_nsm].tpl_mbr_nm[idx_tpl]) == 0){
+
+ /* Build new variable name */
+ char *var_nm_fll=nco_bld_nm_fll(grp_nm_fll,nm_lst_1[idx_var]);
+
+ /* Check variables from 2nd file (no table, using API) */
+
+ /* Get number of dimensions */
+ (void)nco_inq_var(grp_ids[idx_grp],idx_var,trv_tbl->nsm[idx_nsm].tpl_mbr_nm[idx_tpl],NULL,&nbr_dmn_var_2,(int *)NULL,(int *)NULL);
+
+ /* Get dimension IDs for variable */
+ (void)nco_inq_vardimid(grp_ids[idx_grp],idx_var,dmn_id_var_2);
+
+ /* Insert variable in table ensemble struct */
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nbr++;
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll=(char **)nco_realloc(trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll,trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nbr*sizeof(char *));
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll[idx_tpl]=(char *)strdup(var_nm_fll);
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s inserted ensemble variable <%s>\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->nsm[idx_nsm].mbr[mbr_nbr].var_nm_fll[idx_tpl]);
+ }
+
+
+ var_nm_fll=(char *)nco_free(var_nm_fll);
+
+ break;
+
+ } /* Match relative name */
+
+ } /* Loop variables in group */
+ } /* Insert members by builing name from group and template */
+
+ /* Free list */
+ for(int idx_nm=0;idx_nm<nm_lst_1_nbr;idx_nm++) nm_lst_1[idx_nm]=(char *)nco_free(nm_lst_1[idx_nm]);
+ nm_lst_1=(char **)nco_free(nm_lst_1);
+ grp_nm_fll=(char *)nco_free(grp_nm_fll);
+
+ } /* Loop sub-groups */
+
+ /* Clean up memory */
+ grp_ids=(int *)nco_free(grp_ids);
+
+ } /* Loop over ensembles in table */
+
+ if(nco_dbg_lvl_get() >= nco_dbg_fl){
+ (void)fprintf(stdout,"%s: New list of ensembles\n",nco_prg_nm_get());
+ nco_prn_nsm(trv_tbl);
+ }
+
+} /* nco_nsm_ncr() */
+
- int nm_lst_1_nbr; /* [nbr] Number of items in list */
- int nm_lst_2_nbr; /* [nbr] Number of items in list */
- int nbr_cmn_nm; /* [nbr] Number of common entries */
- int nbr_nm; /* [nbr] Number of total entries */
- int nbr_skp_nm; /* [nbr] Number of names to avoid for template definition (array skp_lst) */
- int nsm_nbr=0; /* [nbr] Ensemble counter */
- nco_bool flg_nsm_tpl; /* [flg] Variable is template */
- nco_bool flg_ini_skp=False;
+nco_bool /* O [flg] True for match found */
+nco_prc_rel_mch /* [fnc] Relative match of object in table 1 to table 2 */
+(const int nc_id_1, /* I [id] netCDF input-file ID from file 1 */
+ const int nc_id_2, /* I [id] netCDF input-file ID from file 2 */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_sct * var_trv, /* I [sct] Table variable object (can be from table 1 or 2) */
+ const nco_bool flg_tbl_1, /* I [flg] Table variable object is from table1 for True, otherwise is from table 2 */
+ const nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False when write variables ) */
+{
+ nco_bool rel_mch; /* [flg] A match was found */
- nco_cmn_t *cmn_lst=NULL; /* [sct] A list of common names */
- nco_cmn_t *skp_lst=NULL; /* [sct] A list of skip ('skp') names (NB: using same sct as common names, with different meaning) */
+ rel_mch=False;
- /* Insert ensembles (parent group name is key) */
+ if(flg_tbl_1){
- /* Loop table */
- for(unsigned idx_tbl_1=0;idx_tbl_1<trv_tbl->nbr;idx_tbl_1++){
- trv_sct trv_1=trv_tbl->lst[idx_tbl_1];
- /* Group (not root, with variables) */
- if(trv_1.nco_typ == nco_obj_typ_grp && trv_1.grp_dpt > 0 && trv_1.nbr_var > 0){
- /* Export list of variable names for group */
- (void)nco_grp_var_lst(nc_id,trv_1.grp_nm_fll,&nm_lst_1,&nm_lst_1_nbr);
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl_2->nbr;idx_tbl++){
+ if(trv_tbl_2->lst[idx_tbl].nco_typ == nco_obj_typ_var && !strcmp(var_trv->nm,trv_tbl_2->lst[idx_tbl].nm)){
+ trv_sct *trv_2=&trv_tbl_2->lst[idx_tbl];
+ rel_mch=True;
+
+ if(nco_dbg_lvl_get() >= nco_dbg_var){
+ (void)fprintf(stdout,"%s: INFO processing <%s> (file 1) and <%s> (file 2)\n",nco_prg_nm_get(),
+ var_trv->nm_fll,trv_2->nm_fll);
+ }
- if(nco_dbg_lvl_get() == nco_dbg_old) (void)fprintf(stdout,"%s: DEBUG %s looking for ensembles for <%s>\n",nco_prg_nm_get(),fnc_nm,trv_1.nm_fll);
+ (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,var_trv,trv_2,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
+ } /* A relative match was found */
+ } /* Loop table */
- /* Loop table */
- for(unsigned idx_tbl_2=0;idx_tbl_2<trv_tbl->nbr;idx_tbl_2++){
- trv_sct trv_2=trv_tbl->lst[idx_tbl_2];
+ }else if(!flg_tbl_1){
- /* Same depth, same number of variables, same parent group */
- if(trv_1.nco_typ == nco_obj_typ_grp &&
- trv_1.grp_dpt == trv_2.grp_dpt &&
- trv_1.nbr_var == trv_2.nbr_var &&
- strcmp(trv_1.grp_nm_fll_prn,trv_2.grp_nm_fll_prn) == 0){
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl_1->nbr;idx_tbl++){
+ if(trv_tbl_1->lst[idx_tbl].nco_typ == nco_obj_typ_var && !strcmp(var_trv->nm,trv_tbl_1->lst[idx_tbl].nm)){
+ trv_sct *trv_1=&trv_tbl_1->lst[idx_tbl];
+ rel_mch=True;
- /* Assume not yet inserted in array */
- nco_bool flg_ins=False;
- /* Loop constructed array to see if already inserted */
- for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
- /* Match */
- if(strcmp(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,trv_2.grp_nm_fll_prn) == 0){
- /* Mark as inserted in array */
- flg_ins=True;
- break;
- } /* Match */
- } /* Loop constructed array to see if already inserted */
+ if(nco_dbg_lvl_get() >= nco_dbg_var){
+ (void)fprintf(stdout,"%s: INFO processing <%s> (file 1) and <%s> (file 2)\n",nco_prg_nm_get(),
+ trv_1->nm_fll,var_trv->nm_fll);
+ }
- /* Export list of variable names for group */
- (void)nco_grp_var_lst(nc_id,trv_2.grp_nm_fll,&nm_lst_2,&nm_lst_2_nbr);
- /* Match 2 lists of variable names and export common names */
- (void)nco_nm_mch(nm_lst_1,nm_lst_1_nbr,nm_lst_2,nm_lst_2_nbr,&cmn_lst,&nbr_nm,&nbr_cmn_nm);
- /* Found common names */
- if (nbr_cmn_nm && nm_lst_1_nbr == nm_lst_2_nbr && nm_lst_1_nbr == nbr_cmn_nm && !flg_ins){
- trv_tbl->nsm_nbr++;
- trv_tbl->nsm=(nsm_sct *)nco_realloc(trv_tbl->nsm,trv_tbl->nsm_nbr*sizeof(nsm_sct));
- trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr_nbr=0;
- trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr=NULL;
- trv_tbl->nsm[trv_tbl->nsm_nbr-1].grp_nm_fll_prn=(char *)strdup(trv_2.grp_nm_fll_prn);
- /* Variable ensemble members */
- trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr_var_nbr=0;
- trv_tbl->nsm[trv_tbl->nsm_nbr-1].var_mbr_fll=NULL;
+ (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,trv_1,var_trv,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
+ } /* A relative match was found */
+ } /* Loop table */
+ } /* !flg_tbl_1 */
- trv_tbl->nsm[trv_tbl->nsm_nbr-1].grp_mbr_fll=NULL;
- trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr_srt=0;
- trv_tbl->nsm[trv_tbl->nsm_nbr-1].mbr_end=0;
+ return rel_mch;
- /* Group (NB: outer loop) is ensemble parent group */
- trv_tbl->lst[idx_tbl_1].flg_nsm_prn=True;
+} /* nco_prc_rel_mch() */
- if(nco_dbg_lvl_get() == nco_dbg_old){
- (void)fprintf(stdout,"%s: DEBUG %s inserted ensemble for <%s>\n",nco_prg_nm_get(),fnc_nm,trv_2.grp_nm_fll_prn);
- }
- } /* Found common names */
+void
+nco_cmn_var /* [fnc] Does the list of common names contain absolute/relative variables match? */
+(const trv_tbl_sct * const trv_tbl_1, /* I [sct] GTT (Group Traversal Table) */
+ const trv_tbl_sct * const trv_tbl_2, /* I [sct] GTT (Group Traversal Table) */
+ const nco_cmn_t * const cmn_lst, /* I [sct] List of common names */
+ const int nbr_cmn_nm, /* I [nbr] Number of common names entries */
+ nco_bool *flg_cmn_abs, /* I/O [flg] Does the list of common names contain absolute variables match? */
+ nco_bool *flg_cmn_rel) /* I/O [flg] Does the list of common names contain relative variables match? */
+{
+ /* Purpose: Does the list of *any* common names contain absolute/relative variables match? (ncbo only) */
- /* Free list 2 */
- for(int idx_nm=0;idx_nm<nm_lst_2_nbr;idx_nm++) nm_lst_2[idx_nm]=(char *)nco_free(nm_lst_2[idx_nm]);
- nm_lst_2=(char **)nco_free(nm_lst_2);
+ nco_bool has_mch; /* [flg] A relative match was found in file 1 or 2 */
- } /* Same depth, same number of variables */
- } /* Loop table */
+ *flg_cmn_abs=False;
+ *flg_cmn_rel=False;
- /* Free list 1 */
- for(int idx_nm=0;idx_nm<nm_lst_1_nbr;idx_nm++) nm_lst_1[idx_nm]=(char *)nco_free(nm_lst_1[idx_nm]);
- nm_lst_1=(char **)nco_free(nm_lst_1);
+ /* Process objects in list */
+ for(int idx_cmn=0;idx_cmn<nbr_cmn_nm;idx_cmn++){
- } /* Group (not root) */
- } /* Loop table */
+ trv_sct *trv_1; /* [sct] Table object */
+ trv_sct *trv_2; /* [sct] Table object */
- if(nco_dbg_lvl_get() == nco_dbg_old){
- (void)fprintf(stdout,"%s: DEBUG %s list of ensembles\n",nco_prg_nm_get(),fnc_nm);
- for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
- (void)fprintf(stdout,"%s: DEBUG %s <%s>\n",nco_prg_nm_get(),fnc_nm,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
- }
- }
+ /* Inquire existence of these (full names, the common list contains group and variables) */
+ trv_1=trv_tbl_var_nm_fll(cmn_lst[idx_cmn].nm,trv_tbl_1);
+ trv_2=trv_tbl_var_nm_fll(cmn_lst[idx_cmn].nm,trv_tbl_2);
- /* Insert names in ensembles */
+ /* Both variables exist in same location, both are to extract */
+ if(trv_1 && trv_2 && trv_1->flg_xtr && trv_2->flg_xtr && cmn_lst[idx_cmn].flg_in_fl[0] && cmn_lst[idx_cmn].flg_in_fl[1]){
+ *flg_cmn_abs=True;
+ }
- /* Loop table */
- for(unsigned idx_tbl_1=0;idx_tbl_1<trv_tbl->nbr;idx_tbl_1++){
- trv_sct trv_1=trv_tbl->lst[idx_tbl_1];
- /* Group (not root, with variables) */
- if(trv_1.nco_typ == nco_obj_typ_grp && trv_1.grp_dpt > 0 && trv_1.nbr_var > 0){
- /* Export list of variable names for group */
- (void)nco_grp_var_lst(nc_id,trv_1.grp_nm_fll,&nm_lst_1,&nm_lst_1_nbr);
+ /* Object exists and is flagged for extraction only in file 1 */
+ else if(trv_1 && trv_1->flg_xtr && cmn_lst[idx_cmn].flg_in_fl[0] == True && cmn_lst[idx_cmn].flg_in_fl[1] == False ){
- if(nco_dbg_lvl_get() == nco_dbg_old){
- (void)fprintf(stdout,"%s: DEBUG %s looking for ensembles for <%s>\n",nco_prg_nm_get(),fnc_nm,trv_1.nm_fll);
+ nco_bool flg_tbl_1=True;
+ has_mch=nco_rel_mch(trv_1,flg_tbl_1,trv_tbl_1,trv_tbl_2);
+ *flg_cmn_rel=has_mch;
+ }
+
+ /* Object exists and is flagged for extraction only in file 2 */
+ else if(trv_2 && trv_2->flg_xtr && cmn_lst[idx_cmn].flg_in_fl[0] == False && cmn_lst[idx_cmn].flg_in_fl[1] == True){
+
+ nco_bool flg_tbl_1=False;
+ has_mch=nco_rel_mch(trv_2,flg_tbl_1,trv_tbl_1,trv_tbl_2);
+ *flg_cmn_rel=has_mch;
+ }
+
+ } /* Process objects in list */
+
+} /* nco_cmn_var() */
+
+void
+nco_prc_cmn_var_nm_fll /* [fnc] Process (define, write) absolute variables in both files (same path) (ncbo) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_cmn_t * const cmn_lst, /* I [sct] List of common names */
+ const int nbr_cmn_nm, /* I [nbr] Number of common names entries */
+ const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False for write variables ) */
+{
+ /* Purpose: Process (define, write) absolute variables in both files (same path) (ncbo). NB: using table 1 as template */
+
+ nco_bool flg_grp_1=True; /* [flg] Use table 1 as template for group creation */
+
+ /* Process objects in list */
+ for(int idx_cmn=0;idx_cmn<nbr_cmn_nm;idx_cmn++){
+
+ trv_sct *trv_1; /* [sct] Table object */
+ trv_sct *trv_2; /* [sct] Table object */
+
+ /* Inquire existence of these (full names, the common list contains group and variables) */
+ trv_1=trv_tbl_var_nm_fll(cmn_lst[idx_cmn].nm,trv_tbl_1);
+ trv_2=trv_tbl_var_nm_fll(cmn_lst[idx_cmn].nm,trv_tbl_2);
+
+ /* Both variables exist in same location, both are to extract */
+ if(trv_1 && trv_2 && trv_1->flg_xtr && trv_2->flg_xtr){
+
+ if(nco_dbg_lvl_get() >= nco_dbg_var) (void)fprintf(stdout,"%s: INFO common variable to output <%s>\n",nco_prg_nm_get(),trv_1->nm_fll);
+
+ /* Process common object */
+ (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,trv_1,trv_2,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
+
+ } /* Both variables exist in same location, both are to extract */
+ } /* Process objects in list */
+
+} /* nco_prc_cmn_var_nm_fll() */
+
+void
+nco_cmn_nsm_var /* [fnc] Common variable exist in ensembles (ncbo only) */
+(nco_bool *flg_var_cmn, /* I/O [flg] Common variable exists */
+ nco_bool *flg_var_cmn_rth, /* I/O [flg] Common variable exists at root */
+ nm_lst_sct **var_nm, /* I/O [sct] Array of common variable names */
+ nm_lst_sct **var_nm_rth, /* I/O [sct] Array of common variable names at root */
+ const trv_tbl_sct * const trv_tbl_1, /* I [sct] GTT (Group Traversal Table) */
+ const trv_tbl_sct * const trv_tbl_2) /* I [sct] GTT (Group Traversal Table) */
+{
+ *flg_var_cmn=False;
+ *flg_var_cmn_rth=False;
+
+ (*var_nm)=(nm_lst_sct *)nco_malloc(sizeof(nm_lst_sct));
+ (*var_nm)->nbr=0;
+ (*var_nm)->lst=NULL; /* Must be NULL to nco_realloc() correct handling */
+
+ (*var_nm_rth)=(nm_lst_sct *)nco_malloc(sizeof(nm_lst_sct));
+ (*var_nm_rth)->nbr=0;
+ (*var_nm_rth)->lst=NULL; /* Must be NULL to nco_realloc() correct handling */
+
+ int nbr_var=0;
+ int nbr_var_rth=0;
+
+ /* Loop over ensembles in table 1 */
+ for(int idx_nsm_1=0;idx_nsm_1<trv_tbl_1->nsm_nbr;idx_nsm_1++){
+
+ /* Loop over ensemble members in table 1 */
+ for(int idx_mbr_1=0;idx_mbr_1<trv_tbl_1->nsm[idx_nsm_1].mbr_nbr;idx_mbr_1++){
+
+ /* Loop over variables in table 1 */
+ for(int idx_var=0;idx_var<trv_tbl_1->nsm[idx_nsm_1].mbr[idx_mbr_1].var_nbr;idx_var++){
+
+ char *var_nm_fll=trv_tbl_1->nsm[idx_nsm_1].mbr[idx_mbr_1].var_nm_fll[idx_var];
+
+ /* Get GTT object */
+ trv_sct *var_trv=trv_tbl_var_nm_fll(var_nm_fll,trv_tbl_1);
+
+ /* Loop over table 2 */
+ for(unsigned idx_tbl_2=0;idx_tbl_2<trv_tbl_2->nbr;idx_tbl_2++){
+
+ trv_sct var_trv_2=trv_tbl_2->lst[idx_tbl_2];
+
+ /* Match template name from table 2 in table 1 */
+ if(var_trv_2.nco_typ == nco_obj_typ_var && strcmp(var_trv->nm,var_trv_2.nm) == 0){
+
+ /* Root variable */
+ if(var_trv_2.grp_dpt == 0){
+
+ *flg_var_cmn_rth=True;
+
+ /* Add to list */
+ (*var_nm_rth)->lst=(nm_sct *)nco_realloc((*var_nm_rth)->lst,(nbr_var_rth+1)*sizeof(nm_sct));
+ (*var_nm_rth)->lst[nbr_var_rth].nm=strdup(var_trv_2.nm_fll);
+ (*var_nm_rth)->nbr++;
+ nbr_var_rth++;
+
+ } else {
+
+ *flg_var_cmn=True;
+
+ /* Add to list */
+ (*var_nm)->lst=(nm_sct *)nco_realloc((*var_nm)->lst,(nbr_var+1)*sizeof(nm_sct));
+ (*var_nm)->lst[nbr_var].nm=strdup(var_trv_2.nm_fll);
+ (*var_nm)->nbr++;
+ nbr_var++;
+
+ } /* ! Root variable */
+
+ break;
+
+ } /* Match template name from table 2 in table 1 */
+ } /* Loop over table 2 */
+ } /* Loop variables table 1 */
+ } /* Loop ensemble members table 1 */
+
+ }/* Loop ensembles table 1 */
+
+}/* nco_cmn_nsm_var() */
+
+void
+nco_grp_brd /* [fnc] Group broadcasting (ncbo only) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False for write variables ) */
+{
+ /* Purpose: Group broadcasting OR variable matching (ncbo only) */
+
+ /* Broadcasting: file 1 contains multiple groups each with the variable v1, while file 2 contains v1
+ only in its top-level (i.e., root) group. Then ncbo will replicate the group structure of file 1
+ in the output file, file 3. Each group in file 3 contains the output of the corresponding
+ group in file 1 operating on the data in the single group in file 2. */
+
+ const char fnc_nm[]="nco_grp_brd()"; /* [sng] Function name */
+
+ int nbr_cmn_nm=0; /* [nbr] Number of common entries */
+
+ nco_bool flg_cmn_abs; /* [flg] Is there a variable with same absolute path in both files? */
+ nco_bool flg_cmn_rel; /* [flg] Is there a variable with same relative name */
+ nco_bool flg_nsm_fl_1; /* [flg] File 1 contains ensemble members */
+ nco_bool flg_nsm_fl_2; /* [flg] File 2 contains ensemble members */
+ nco_bool flg_var_cmn; /* [flg] Common variable exists */
+ nco_bool flg_var_cmn_rth; /* [flg] Common variable exists at root */
+ nco_bool flg_grp_1; /* [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ nco_bool flg_nsm_att_1; /* [flg] "ensemble" attribute exists in table 1 */
+ nco_bool flg_nsm_att_2; /* [flg] "ensemble" attribute exists in table 2 */
+
+ nco_cmn_t *cmn_lst=NULL; /* [lst] A list of common variable names */
+ nm_lst_sct *var_nm=NULL; /* [lst] A list of variable names */
+ nm_lst_sct *var_nm_rth=NULL; /* [lst] A list of variable names found at root */
+
+ /* Sanity check */
+ assert(nco_prg_id_get() == ncbo);
+
+ /* Match 2 tables (find common objects) and export common objects */
+ (void)trv_tbl_mch(trv_tbl_1,trv_tbl_2,&cmn_lst,&nbr_cmn_nm);
+
+ /* Inquire if there is a variable with same absolute/relative path in both files */
+ (void)nco_cmn_var(trv_tbl_1,trv_tbl_2,cmn_lst,nbr_cmn_nm,&flg_cmn_abs,&flg_cmn_rel);
+
+ /* Inquire if ensembles have "ensemble" attribute (meaning they were done by ncge already) */
+ (void)nco_nsm_att(nc_id_1,trv_tbl_1,&flg_nsm_att_1);
+ (void)nco_nsm_att(nc_id_2,trv_tbl_2,&flg_nsm_att_2);
+
+ /* There is a variable with same absolute path in both files. Do them and return */
+ if (flg_cmn_abs){
+
+ /* Process common variables (same path in both files) */
+ (void)nco_prc_cmn_var_nm_fll(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,cmn_lst,nbr_cmn_nm,flg_dfn);
+
+ } /* There is a variable with same absolute path in both files */
+
+ /* Inquire about group broadcasting (ensembles and not ensembles) */
+
+ /* Inquire about ensembles */
+ if(trv_tbl_1->nsm_nbr) flg_nsm_fl_1=True; else flg_nsm_fl_1=False;
+ if(trv_tbl_2->nsm_nbr) flg_nsm_fl_2=True; else flg_nsm_fl_2=False;
+
+ /* There are ensembles somewhere */
+ if (flg_nsm_fl_1 == True || flg_nsm_fl_2 == True){
+
+ /* File 1 has ensembles */
+ if(flg_nsm_fl_1 == True){
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s ensembles from file 1\n",nco_prg_nm_get(),fnc_nm);
+ nco_prn_nsm(trv_tbl_1);
}
- /* Loop table */
- for(unsigned idx_tbl_2=0;idx_tbl_2<trv_tbl->nbr;idx_tbl_2++){
- trv_sct trv_2=trv_tbl->lst[idx_tbl_2];
+ /* File 2 has ensembles */
+ if(flg_nsm_fl_2 == True){
- /* Same depth, same number of variables, same parent group */
- if(trv_1.nco_typ == nco_obj_typ_grp &&
- trv_1.grp_dpt == trv_2.grp_dpt &&
- trv_1.nbr_var == trv_2.nbr_var &&
- strcmp(trv_1.grp_nm_fll_prn,trv_2.grp_nm_fll_prn) == 0){
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s ensembles from file 2\n",nco_prg_nm_get(),fnc_nm);
+ nco_prn_nsm(trv_tbl_2);
+ }
- /* Export list of variable names for group */
- (void)nco_grp_var_lst(nc_id,trv_2.grp_nm_fll,&nm_lst_2,&nm_lst_2_nbr);
+ /* ncbo -O mdl_1.nc mdl_2.nc out.nc */
- /* Match 2 lists of variable names and export common names (NB: relative names) */
- (void)nco_nm_mch(nm_lst_1,nm_lst_1_nbr,nm_lst_2,nm_lst_2_nbr,&cmn_lst,&nbr_nm,&nbr_cmn_nm);
+ /* Use table 1 as template for group creation */
+ flg_grp_1=True;
- /* Found common names */
- if (nbr_cmn_nm && nm_lst_1_nbr == nm_lst_2_nbr && nm_lst_1_nbr == nbr_cmn_nm){
+ /* Process (define, write) variables belonging to ensembles in *both* files */
+ (void)nco_prc_cmn_nsm(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
- /* Define a list of variables to avoid for template definition */
- (void)nco_nm_skp(nc_id,trv_2.grp_nm_fll,cmn_lst,nbr_cmn_nm,&skp_lst,&nbr_skp_nm,trv_tbl);
+ }else if(flg_nsm_fl_2 == False){
- /* Mark the skip names as non extracted variables */
- for(int idx_skp=0;idx_skp<nbr_skp_nm;idx_skp++){
- (void)trv_tbl_mrk_xtr(skp_lst[idx_skp].nm,False,trv_tbl);
- }
-
- if (flg_ini_skp == False){
-
- trv_tbl->nsm_skp=(nm_tbl_sct *)nco_malloc(sizeof(nm_tbl_sct));
- trv_tbl->nsm_skp->nbr=nbr_skp_nm;
- trv_tbl->nsm_skp->lst=NULL;
- trv_tbl->nsm_skp->lst=(nm_sct *)nco_realloc(trv_tbl->nsm_skp->lst,(nbr_skp_nm)*sizeof(nm_sct));
- for(int idx_skp=0;idx_skp<nbr_skp_nm;idx_skp++){
- /* Duplicate string into list */
- trv_tbl->nsm_skp->lst[idx_skp].nm=strdup(skp_lst[idx_skp].nm);
- }
- flg_ini_skp=True;
- }
+ /* File 2 does NOT have ensembles */
+ /* Inquire about file 2 having a common object from list of file 1 ensembles */
+ (void)nco_cmn_nsm_var(&flg_var_cmn,&flg_var_cmn_rth,&var_nm,&var_nm_rth,trv_tbl_1,trv_tbl_2);
- /* Assume not yet inserted in array */
- nco_bool flg_ins=False;
- /* Loop constructed array to see if already inserted (NB: to nsm_nbr) */
- for(int idx_nsm=0;idx_nsm<nsm_nbr;idx_nsm++){
- /* Loop members */
- for(int idx_mbr=0;idx_mbr<trv_tbl->nsm[idx_nsm].mbr_nbr;idx_mbr++){
- /* Match */
- if(strcmp(trv_tbl->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll,trv_2.grp_nm_fll) == 0){
- /* Mark as inserted in array */
- flg_ins=True;
- break;
- } /* Match */
- } /* Loop names */
- } /* Loop constructed array to see if already inserted */
-
- /* Not inserted */
- if (!flg_ins){
- int mbr_nbr=trv_tbl->nsm[nsm_nbr].mbr_nbr;
- trv_tbl->nsm[nsm_nbr].mbr_nbr++;
- trv_tbl->nsm[nsm_nbr].mbr=(nsm_grp_sct *)nco_realloc(trv_tbl->nsm[nsm_nbr].mbr,(mbr_nbr+1)*sizeof(nsm_grp_sct));
- trv_tbl->nsm[nsm_nbr].mbr[mbr_nbr].mbr_nm_fll=(char *)strdup(trv_2.grp_nm_fll);
- trv_tbl->nsm[nsm_nbr].mbr[mbr_nbr].var_nbr=0;
- trv_tbl->nsm[nsm_nbr].mbr[mbr_nbr].var_nm_fll=NULL;
-
- trv_tbl->nsm[nsm_nbr].grp_mbr_fll=(char **)nco_realloc(trv_tbl->nsm[nsm_nbr].grp_mbr_fll,(mbr_nbr+1)*sizeof(char *));
- trv_tbl->nsm[nsm_nbr].grp_mbr_fll[mbr_nbr]=(char *)strdup(trv_2.grp_nm_fll);
-
- /* Update offsets */
- trv_tbl->nsm[nsm_nbr].mbr_srt=0;
- trv_tbl->nsm[nsm_nbr].mbr_end=trv_tbl->nsm[nsm_nbr].mbr_nbr;
-
- /* Mark variables as ensemble members */
- for(int idx_var=0;idx_var<nbr_cmn_nm;idx_var++){
-
- /* Define variable full name (NB: cmn_lst->var_nm_fll is relative here) */
- char *var_nm_fll=nco_bld_nm_fll(trv_2.grp_nm_fll,cmn_lst[idx_var].nm);
-
- /* Template criteria: check the names to skip built above in nco_nm_skp() */
- flg_nsm_tpl=True;
- /* Loop skip names */
- for(int idx_skp=0;idx_skp<nbr_skp_nm;idx_skp++){
- /* Match */
- if(strcmp(var_nm_fll,skp_lst[idx_skp].nm) == 0){
- flg_nsm_tpl=False;
- } /* Match */
- } /* Loop skip names */
-
- /* Ensemble members. Meaning here is "template" as "member" TODO */
- if(flg_nsm_tpl){
- int mbr_var_nbr=trv_tbl->nsm[nsm_nbr].mbr_var_nbr;
- trv_tbl->nsm[nsm_nbr].var_mbr_fll=(char **)nco_realloc(trv_tbl->nsm[nsm_nbr].var_mbr_fll,(mbr_var_nbr+1)*sizeof(char *));
- trv_tbl->nsm[nsm_nbr].var_mbr_fll[mbr_var_nbr]=(char *)strdup(var_nm_fll);
- trv_tbl->nsm[nsm_nbr].mbr_var_nbr++;
-
- /* Mark group as emsemble member (NB: loop 2) */
- trv_tbl->lst[idx_tbl_2].flg_nsm_mbr=True;
-
- /* If not the first group member, then it's not a template */
- if(mbr_nbr > 0) flg_nsm_tpl=False;
-
- /* Mark ensemble member flag in table for "var_nm_fll" real member */
- (void)trv_tbl_mrk_nsm_mbr(var_nm_fll,flg_nsm_tpl,trv_1.grp_nm_fll_prn,trv_tbl);
-
- } /* Ensemble members */
-
- /* Insert variable in table ensemble struct */
- trv_tbl->nsm[nsm_nbr].mbr[mbr_nbr].var_nbr++;
- trv_tbl->nsm[nsm_nbr].mbr[mbr_nbr].var_nm_fll=(char **)nco_realloc(trv_tbl->nsm[nsm_nbr].mbr[mbr_nbr].var_nm_fll,trv_tbl->nsm[nsm_nbr].mbr[mbr_nbr].var_nbr*sizeof(char *));
- trv_tbl->nsm[nsm_nbr].mbr[mbr_nbr].var_nm_fll[idx_var]=(char *)strdup(var_nm_fll);
-
- if(nco_dbg_lvl_get() == nco_dbg_old){
- (void)fprintf(stdout,"%s: DEBUG %s inserted ensemble variable <%s> as template %d\n",nco_prg_nm_get(),fnc_nm,var_nm_fll,flg_nsm_tpl);
- }
- /* Free */
- var_nm_fll=(char *)nco_free(var_nm_fll);
+ /* Common variables at root */
+ if (flg_var_cmn_rth){
- } /* Mark variables as ensemble members */
- } /* Not inserted */
- } /* Found common names */
+ /* file 2 has a common object at root */
+ /* ncbo -O mdl_1.nc obs.nc out.nc */
- /* Free list 2 */
- for(int idx_nm=0;idx_nm<nm_lst_2_nbr;idx_nm++) nm_lst_2[idx_nm]=(char *)nco_free(nm_lst_2[idx_nm]);
- nm_lst_2=(char **)nco_free(nm_lst_2);
+ /* Use table 1 as template for group creation */
+ flg_grp_1=True;
- } /* Same depth, same number of variables */
- } /* Loop table */
+ /* Process (define, write) variables belonging to ensembles only in 1 file */
+ (void)nco_prc_nsm(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,var_nm_rth,flg_grp_1,flg_dfn);
- /* Free list 1 */
- for(int idx_nm=0;idx_nm<nm_lst_1_nbr;idx_nm++) nm_lst_1[idx_nm]=(char *)nco_free(nm_lst_1[idx_nm]);
- nm_lst_1=(char **)nco_free(nm_lst_1);
+ /* Common variables not at root */
+ } else if (flg_var_cmn){
- /* Increase number of ensembles */
- if(trv_1.flg_nsm_prn) nsm_nbr++;
+ /* Use table 1 as template for group creation */
+ flg_grp_1=True;
- } /* Group (not root) */
- } /* Loop table */
+ /* Process (define, write) variables belonging to ensembles only in 1 file */
+ (void)nco_prc_nsm(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,var_nm,flg_grp_1,flg_dfn);
- if(nco_dbg_lvl_get() >= nco_dbg_fl){
- nco_prn_nsm(trv_tbl);
- }
+ }else {
+
+ /* file 2 has no common objects */
+ (void)fprintf(stdout,"%s: ERROR no common variables found. HINT: %s expects to find at least one variable of the same name in similar locations in both input files. When such variables are not found in identical locations (i.e., on the same path) then %s attempts group broadcasting to find comparable variables in sub-groups and ensembles. This search for comparable variables has failed. Read more about group broadcasting at http://nco.sf.net/nco.html#grp_brd\n",nco_prg_nm_get() [...]
+ nco_exit(EXIT_FAILURE);
+ } /* ! flg_var_cmn_rth */
+
+ } /* File 2 does NOT have ensembles */
+
+ }else if(flg_nsm_fl_1 == False){
+
+ /* File 1 does NOT have ensembles */
+
+ /* File 2 has ensembles */
+ if(flg_nsm_fl_2 == True){
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s ensembles from file 2\n",nco_prg_nm_get(),fnc_nm);
+ nco_prn_nsm(trv_tbl_2);
+ }
+
+ /* Inquire about file 1 having a common object from list of file 2 ensembles (NB: order of tables in parameter switched) */
+ (void)nco_cmn_nsm_var(&flg_var_cmn,&flg_var_cmn_rth,&var_nm,&var_nm_rth,trv_tbl_2,trv_tbl_1);
+
+ /* Common variables at root */
+ if (flg_var_cmn_rth){
+
+ /* file 1 has a common object at root */
+ /* ncbo -O obs.nc mdl_1.nc out.nc */
+
+ /* Do NOT use table 1 as template for group creation */
+ flg_grp_1=False;
- assert(nsm_nbr == trv_tbl->nsm_nbr);
-} /* nco_bld_nsm() */
+ /* Process (define, write) variables belonging to ensembles only in 1 file */
+ (void)nco_prc_nsm(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,var_nm_rth,flg_grp_1,flg_dfn);
+ /* Common variables not at root */
+ } else if (flg_var_cmn){
-void
-nco_prn_nsm /* [fnc] Print ensembles */
-(const trv_tbl_sct * const trv_tbl) /* I [sct] Traversal table */
-{
- (void)fprintf(stdout,"%s: list of ensembles\n",nco_prg_nm_get());
- for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
- (void)fprintf(stdout,"%s: <%s>\n",nco_prg_nm_get(),trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
- }
+ /* file 1 has a common object not at root */
+ /* ncra -Y ncge -O mdl_3.nc ncge_out.nc
+ ncbo -O --op_typ=add ncge_out.nc mdl_3.nc out.nc */
- (void)fprintf(stdout,"%s: list of templates\n",nco_prg_nm_get());
- int idx_tpl=0;
- for(unsigned uidx=0;uidx<trv_tbl->nbr;uidx++){
- if(trv_tbl->lst[uidx].flg_nsm_tpl){
- (void)fprintf(stdout,"%s: <template> %d <%s>\n",nco_prg_nm_get(),idx_tpl,trv_tbl->lst[uidx].nm_fll);
- idx_tpl++;
- }
- }
+ /* Do NOT use table 1 as template for group creation */
+ flg_grp_1=False;
- (void)fprintf(stdout,"%s: list of ensemble members\n",nco_prg_nm_get());
- for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
- (void)fprintf(stdout,"%s: <ensemble %d> <%s>\n",nco_prg_nm_get(),idx_nsm,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
- for(int idx_mbr=0;idx_mbr<trv_tbl->nsm[idx_nsm].mbr_nbr;idx_mbr++){
- (void)fprintf(stdout,"%s: \t <member %d> <%s>\n",nco_prg_nm_get(),idx_mbr,trv_tbl->nsm[idx_nsm].grp_mbr_fll[idx_mbr]);
- }
- }
+ /* Process (define, write) variables belonging to ensembles only in 1 file */
+ (void)nco_prc_nsm(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,var_nm,flg_grp_1,flg_dfn);
-} /* nco_prn_nsm() */
+ } else {
-void
-nco_nsm_ncr /* [fnc] Increase ensembles (more than 1 file cases) */
-(const int nc_id, /* I [id] netCDF file ID ( new file ) */
- trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
-{
- const char fnc_nm[]="nco_nsm_ncr()"; /* [sng] Function name */
+ /* file 1 has no common objects */
+ (void)fprintf(stdout,"%s: ERROR no common variables found. HINT: %s expects to find at least one variable of the same name in similar locations in both input files. When such variables are not found in identical locations (i.e., on the same path) then %s attempts group broadcasting to find comparable variables in sub-groups and ensembles. This search for comparable variables has failed. Read more about group broadcasting at http://nco.sf.net/nco.html#grp_brd\n",nco_prg_nm_get() [...]
+ nco_exit(EXIT_FAILURE);
- char **nm_lst_1; /* [sng] List of names */
- char *grp_nm_fll; /* I [sng] Full group name */
- char *grp_nm; /* I [sng] Group name */
+ } /* ! flg_var_cmn_rth */
+ } /* File 2 has ensembles */
+ } /* File 1 does NOT have ensembles */
+ } /* There are ensembles somewhere */
- int nm_lst_1_nbr; /* [nbr] Number of items in list */
- int grp_id; /* [id] Group ID */
- int nbr_grp; /* [nbr] Number of sub-groups */
- int *grp_ids; /* [id] Sub-group IDs array */
- int mbr_srt; /* [nbr] Offset */
- int rcd=NC_NOERR; /* [rcd] Return code */
- int dmn_id_var_2[NC_MAX_DIMS]; /* [ID] Dimensions IDs array for variable */
- int nbr_dmn_var_2; /* [nbr] Number of dimensions for variable */
+ /* There are NOT ensembles anywhere, but there are relative matches */
+ if (flg_nsm_fl_1 == False && flg_nsm_fl_2 == False && flg_cmn_rel == True){
- size_t grp_nm_lng; /* [nbr] Group name length */
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s Processing relative matches\n",nco_prg_nm_get(),fnc_nm);
- trv_sct *var_trv; /* [sct] Variable GTT object */
+ /* Process relative common objects (define or write) */
+ (void)nco_prc_rel_cmn_nm(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_tbl_1,trv_tbl_2,cmn_lst,nbr_cmn_nm,flg_dfn);
- /* Loop over ensembles in table */
- for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+ } /* There are NOT ensembles anywhere, but there are relative matches */
- /* Update offsets */
- mbr_srt=trv_tbl->nsm[idx_nsm].mbr_end;
- trv_tbl->nsm[idx_nsm].mbr_srt=mbr_srt;
+ /* Memory management for common names list */
+ for(int idx_cmn=0;idx_cmn<nbr_cmn_nm;idx_cmn++) cmn_lst[idx_cmn].nm=(char *)nco_free(cmn_lst[idx_cmn].nm);
+ if(nbr_cmn_nm > 0) cmn_lst=(nco_cmn_t *)nco_free(cmn_lst);
+ if(var_nm){
+ for(int idx=0;idx<var_nm->nbr;idx++) var_nm->lst[idx].nm=(char *)nco_free(var_nm->lst[idx].nm);
+ var_nm=(nm_lst_sct *)nco_free(var_nm);
+ }
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: DEBUG %s <ensemble %d> <%s>\n",nco_prg_nm_get(),fnc_nm,idx_nsm,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
- }
+ if(var_nm_rth){
+ for(int idx=0;idx<var_nm_rth->nbr;idx++) var_nm_rth->lst[idx].nm=(char *)nco_free(var_nm_rth->lst[idx].nm);
+ var_nm_rth=(nm_lst_sct *)nco_free(var_nm_rth);
+ }
- /* Obtain group ID of current ensemble using full group name */
- rcd+=nco_inq_grp_full_ncid_flg(nc_id,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,&grp_id);
+} /* nco_grp_brd() */
- /* Group must exist (file # call > 1 ), if not print error */
- if(rcd != NC_NOERR){
- (void)fprintf(stdout,"%s: ERROR ensemble <%s> does not exist\n",nco_prg_nm_get(),trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
- (void)fprintf(stdout,"%s: List of ensembles is\n",nco_prg_nm_get());
- for(int idx=0;idx<trv_tbl->nsm_nbr;idx++){
- (void)fprintf(stdout,"%s: <%s>\n",nco_prg_nm_get(),trv_tbl->nsm[idx].grp_nm_fll_prn);
- nco_exit(EXIT_FAILURE);
- }
- }
- /* Get number of sub-groups */
- (void)nco_inq_grps(grp_id,&nbr_grp,(int *)NULL);
- grp_ids=(int *)nco_malloc(nbr_grp*sizeof(int));
- (void)nco_inq_grps(grp_id,(int *)NULL,grp_ids);
+void
+nco_prc_cmn_nsm /* [fnc] Process (define, write) variables belonging to ensembles in both files (ncbo) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False for write variables ) */
+{
+ /* Purpose: Process (define, write) variables belonging to ensembles in *both* files (both files have ensembles) */
- /* Loop sub-groups */
- for(int idx_grp=0;idx_grp<nbr_grp;idx_grp++){
+ const char fnc_nm[]="nco_prc_cmn_nsm()"; /* [sng] Function name */
- /* Get group name length */
- (void)nco_inq_grpname_len(grp_ids[idx_grp],&grp_nm_lng);
- grp_nm=(char *)nco_malloc(grp_nm_lng+1L);
+ trv_sct *trv_1; /* [sct] Table object */
+ trv_sct *trv_2; /* [sct] Table object */
- /* Get group name */
- (void)nco_inq_grpname(grp_ids[idx_grp],grp_nm);
+ if (flg_grp_1 == True){
- /* Construct full name */
- grp_nm_fll=(char *)nco_malloc(grp_nm_lng+strlen(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn)+2L);
- strcpy(grp_nm_fll,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
- strcat(grp_nm_fll,"/");
- strcat(grp_nm_fll,grp_nm);
+ if(nco_dbg_lvl_get() >= nco_dbg_var){
+ (void)fprintf(stdout,"%s: Processing ensembles from file 1\n",nco_prg_nm_get());
+ }
- /* Export list of variable names for group */
- (void)nco_grp_var_lst(nc_id,grp_nm_fll,&nm_lst_1,&nm_lst_1_nbr);
+ /* Loop ensembles */
+ for(int idx_nsm=0;idx_nsm<trv_tbl_1->nsm_nbr;idx_nsm++){
- /* Loop variables in group */
- for(int idx_var=0;idx_var<nm_lst_1_nbr;idx_var++){
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s <ensemble %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_nsm,trv_tbl_1->nsm[idx_nsm].grp_nm_fll_prn);
+ }
- /* Loop over members (variables) of old ensemble (NB: Assumption, same number of variables for new ensembles) */
- for(int idx_mbr=0;idx_mbr<trv_tbl->nsm[idx_nsm].mbr_var_nbr;idx_mbr++){
+ /* Loop group members */
+ for(int idx_mbr=0;idx_mbr<trv_tbl_1->nsm[idx_nsm].mbr_nbr;idx_mbr++){
- /* Obtain variable GTT object for the member variable in ensemble */
- var_trv=trv_tbl_var_nm_fll(trv_tbl->nsm[idx_nsm].var_mbr_fll[idx_mbr],trv_tbl);
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s \t <member %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_mbr,trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll);
+ }
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- if (var_trv) (void)fprintf(stdout,"%s: DEBUG %s retrieving variable <%s>\n",nco_prg_nm_get(),fnc_nm,trv_tbl->nsm[idx_nsm].var_mbr_fll[idx_mbr]);
- }
+ /* Loop variables */
+ for(int idx_var=0;idx_var<trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].var_nbr;idx_var++){
if(nco_dbg_lvl_get() >= nco_dbg_dev){
- if (!var_trv) (void)fprintf(stdout,"%s: DEBUG %s variable <%s> does not exist\n",nco_prg_nm_get(),fnc_nm,trv_tbl->nsm[idx_nsm].var_mbr_fll[idx_mbr]);
+ (void)fprintf(stdout,"%s: DEBUG %s \t <variable %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_var,trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].var_nm_fll[idx_var]);
}
- /* Match relative name */
- if(var_trv && strcmp(nm_lst_1[idx_var],var_trv->nm) == 0){
+ /* Inquire existence of these objects in tables */
+ trv_1=trv_tbl_var_nm_fll(trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].var_nm_fll[idx_var],trv_tbl_1);
- /* Build new variable name */
- char *var_nm_fll=nco_bld_nm_fll(grp_nm_fll,nm_lst_1[idx_var]);
+ assert(trv_1);
- /* Check variables from 2nd file (no table, using API) */
+ /* Since we're using table 1 as template, for table 2 object has to be searched (using relative name and ensemble parent name) */
+ trv_2=trv_tbl_nsm_nm(trv_1->nm,trv_tbl_1->nsm[idx_nsm].grp_nm_fll_prn,trv_tbl_2);
- /* Get number of dimensions */
- (void)nco_inq_var(grp_ids[idx_grp],idx_var,var_trv->nm,NULL,&nbr_dmn_var_2,(int *)NULL,(int *)NULL);
+ /* If match object in table 2 does not exist, that's an error */
+
+ if (!trv_2){
+ (void)fprintf(stdout,"%s: ERROR No match variable found for <%s>\n",nco_prg_nm_get(),trv_1->nm_fll);
+ nco_exit(EXIT_FAILURE);
+ }
+
+ /* Both variables exist */
+ if(trv_1 && trv_2){
- /* Get dimension IDs for variable */
- (void)nco_inq_vardimid(grp_ids[idx_grp],idx_var,dmn_id_var_2);
+ if(nco_dbg_lvl_get() >= nco_dbg_var) (void)fprintf(stdout,"%s: INFO common variable to output <%s>\n",nco_prg_nm_get(),trv_1->nm_fll);
- /* Check dimensions between ensembles from 1st and 2nd files */
- for(int idx_dmn_1=0;idx_dmn_1<var_trv->nbr_dmn;idx_dmn_1++){
- dmn_trv_sct *dmn_trv_1=nco_dmn_trv_sct(var_trv->var_dmn[idx_dmn_1].dmn_id,trv_tbl);
- for(int idx_dmn_2=0;idx_dmn_2<nbr_dmn_var_2;idx_dmn_2++){
+ /* Process common object */
+ (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,trv_1,trv_2,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
- char dmn_nm_var[NC_MAX_NAME+1]; /* [sng] Dimension name */
- long dmn_sz_var; /* [nbr] Dimension size */
+ } /* Both variables exist */
- /* Get dimension size */
- (void)nco_inq_dim(grp_ids[idx_grp],dmn_id_var_2[idx_dmn_2],dmn_nm_var,&dmn_sz_var);
+ } /* Loop variables */
- if(dmn_trv_1->sz != (size_t)dmn_sz_var){
- (void)fprintf(stdout,"%s: ERROR variable <%s> has non conforming dimension %ld, expecting %ld\n",nco_prg_nm_get(),
- var_nm_fll,dmn_sz_var,dmn_trv_1->sz);
- nco_exit(EXIT_FAILURE);
- }
- }
- } /* Check dimensions between ensembles from 1st and 2nd files */
+ /* List of fixed templates */
+ for(int idx_skp=0;idx_skp<trv_tbl_1->nsm[idx_nsm].skp_nbr;idx_skp++){
+ /* Get variable */
+ trv_sct *var_trv=trv_tbl_var_nm_fll(trv_tbl_1->nsm[idx_nsm].skp_nm_fll[idx_skp],trv_tbl_1);
+
+ /* Define variable full name (using group name and relative name of fixed template) */
+ char *skp_nm_fll=nco_bld_nm_fll(trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll,var_trv->nm);
+
+ /* Get variable */
+ trv_sct *skp_trv=trv_tbl_var_nm_fll(skp_nm_fll,trv_tbl_1);
+
+ if (skp_trv){
+
+ /* Define/write fixed variables (ncbo) */
+ (void)nco_fix_dfn_wrt(nc_id_1,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,skp_trv,trv_tbl_1,flg_dfn);
+
+ }
+
+ } /* List of fixed templates */
- /* Variable ensemble members */
- int mbr_var_nbr=trv_tbl->nsm[idx_nsm].mbr_var_nbr;
- trv_tbl->nsm[idx_nsm].mbr_var_nbr++;
- trv_tbl->nsm[idx_nsm].var_mbr_fll=(char **)nco_realloc(trv_tbl->nsm[idx_nsm].var_mbr_fll,(mbr_var_nbr+1)*sizeof(char *));
- trv_tbl->nsm[idx_nsm].var_mbr_fll[mbr_var_nbr]=(char *)strdup(var_nm_fll);
+ } /* Loop group members */
+ } /* Loop ensembles */
- /* Groups ensemble members */
+ } else if (flg_grp_1 == False) {
- /* We detected variables, for groups detect duplicate insertions */
- /* Assume not yet inserted in array */
- nco_bool flg_ins=False;
- /* Loop constructed array to see if already inserted */
- for(int idx_mbr1=0;idx_mbr1<trv_tbl->nsm[idx_nsm].mbr_nbr;idx_mbr1++){
- /* Match */
- if(strcmp(trv_tbl->nsm[idx_nsm].grp_mbr_fll[idx_mbr1],grp_nm_fll) == 0){
- /* Mark as inserted in array */
- flg_ins=True;
- break;
- } /* Match */
- } /* Loop constructed array to see if already inserted */
+ } /* ! flg_grp_1 */
- /* Not inserted */
- if (!flg_ins){
- int mbr_nbr=trv_tbl->nsm[idx_nsm].mbr_nbr;
- trv_tbl->nsm[idx_nsm].grp_mbr_fll=(char **)nco_realloc(trv_tbl->nsm[idx_nsm].grp_mbr_fll,(mbr_nbr+1)*sizeof(char *));
- trv_tbl->nsm[idx_nsm].grp_mbr_fll[mbr_nbr]=(char *)strdup(grp_nm_fll);
- trv_tbl->nsm[idx_nsm].mbr_nbr++;
- /* Update offsets */
- trv_tbl->nsm[idx_nsm].mbr_end=trv_tbl->nsm[idx_nsm].mbr_nbr;
- } /* Not inserted */
+} /* nco_prc_cmn_nsm() */
- var_nm_fll=(char *)nco_free(var_nm_fll);
- /* Found, exit loop of old ensemble */
- break;
- } /* Match relative name */
- } /* Loop old ensemble */
- } /* Loop variables in group */
+void
+nco_prc_nsm /* [fnc] Process (define, write) variables belonging to ensembles only in 1 file (ncbo) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nm_lst_sct * const var_lst, /* I [sct] Array of common variable names from file not having ensembles */
+ const nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False for write variables ) */
+{
- /* Free list */
- for(int idx_nm=0;idx_nm<nm_lst_1_nbr;idx_nm++) nm_lst_1[idx_nm]=(char *)nco_free(nm_lst_1[idx_nm]);
- nm_lst_1=(char **)nco_free(nm_lst_1);
- grp_nm_fll=(char *)nco_free(grp_nm_fll);
+ const char fnc_nm[]="nco_prc_nsm()"; /* [sng] Function name */
- } /* Loop sub-groups */
+ trv_sct *trv_1; /* [sct] Table object */
+ trv_sct *trv_2; /* [sct] Table object */
- /* Clean up memory */
- grp_ids=(int *)nco_free(grp_ids);
+ /* Using table 1 as template */
+ if (flg_grp_1 == True){
- } /* Loop over ensembles in table */
+ if(nco_dbg_lvl_get() >= nco_dbg_var){
+ (void)fprintf(stdout,"%s: Processing ensembles from table 1\n",nco_prg_nm_get());
+ }
- if(nco_dbg_lvl_get() >= nco_dbg_fl){
- (void)fprintf(stdout,"%s: New list of ensembles\n",nco_prg_nm_get());
- nco_prn_nsm(trv_tbl);
- }
+ /* Loop ensembles */
+ for(int idx_nsm=0;idx_nsm<trv_tbl_1->nsm_nbr;idx_nsm++){
-} /* nco_nsm_ncr() */
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s <ensemble %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_nsm,trv_tbl_1->nsm[idx_nsm].grp_nm_fll_prn);
+ }
-int /* O [enm] Comparison result [<,=,>] 0 iff val_1 [<,==,>] val_2 */
-nco_cmp_aux_crd_dpt /* [fnc] Compare two aux_crd_sct's by group depth */
-(const void *val_1, /* I [sct] aux_crd_sct * to compare */
- const void *val_2) /* I [sct] aux_crd_sct * to compare */
-{
- /* Purpose: Compare two aux_crd_sct's by group depth structure member
- Function is suitable for argument to ANSI C qsort() routine in stdlib.h */
+ /* Loop group members */
+ for(int idx_mbr=0;idx_mbr<trv_tbl_1->nsm[idx_nsm].mbr_nbr;idx_mbr++){
- const aux_crd_sct * const crd_1=(const aux_crd_sct *)val_1;
- const aux_crd_sct * const crd_2=(const aux_crd_sct *)val_2;
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s \t <member %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_mbr,trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll);
+ }
- if(crd_1->grp_dpt > crd_2->grp_dpt) return 1;
- else if(crd_1->grp_dpt < crd_2->grp_dpt) return -1;
- else return 0;
+ /* Loop variables */
+ for(int idx_var=0;idx_var<trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].var_nbr;idx_var++){
-} /* nco_cmp_aux_crd_dpt() */
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s \t <variable %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_var,trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].var_nm_fll[idx_var]);
+ }
+ trv_1=NULL;
+ trv_2=NULL;
-void
-nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
-(const int nc_id, /* I [ID] netCDF file ID */
- const int aux_nbr, /* I [nbr] Number of auxiliary coordinates */
- char *aux_arg[], /* I [sng] Auxiliary coordinates */
- const nco_bool FORTRAN_IDX_CNV, /* I [flg] Hyperslab indices obey Fortran convention */
- const nco_bool MSA_USR_RDR, /* I [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
- const nco_bool EXTRACT_ASSOCIATED_COORDINATES, /* I [flg] Extract all coordinates associated with extracted variables? */
- trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
-{
- const char fnc_nm[]="nco_prs_aux_crd()"; /* [sng] Function name */
+ /* Inquire existence of these objects in tables */
+ trv_1=trv_tbl_var_nm_fll(trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].var_nm_fll[idx_var],trv_tbl_1);
- /* Loop table */
- for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ assert(trv_1);
- /* Filter variables to extract */
- if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && trv_tbl->lst[idx_tbl].flg_xtr){
+ /* List of fixed templates */
+ for(int idx_skp=0;idx_skp<trv_tbl_1->nsm[idx_nsm].skp_nbr;idx_skp++){
- trv_sct var_trv=trv_tbl->lst[idx_tbl];
+ /* Get variable */
+ trv_sct *var_trv=trv_tbl_var_nm_fll(trv_tbl_1->nsm[idx_nsm].skp_nm_fll[idx_skp],trv_tbl_1);
+
+ /* Define variable full name (using group name and relative name of fixed template) */
+ char *skp_nm_fll=nco_bld_nm_fll(trv_tbl_1->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll,var_trv->nm);
+
+ /* Get variable */
+ trv_sct *skp_trv=trv_tbl_var_nm_fll(skp_nm_fll,trv_tbl_1);
+
+ if (skp_trv){
+
+ /* Define/write fixed variables (ncbo) */
+ (void)nco_fix_dfn_wrt(nc_id_1,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,skp_trv,trv_tbl_1,flg_dfn);
+
+ }
+
+ } /* List of fixed templates */
- /* Filter variables with auxiliary coordinates */
- if(var_trv.flg_aux){
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: DEBUG %s variable <%s>\n",nco_prg_nm_get(),fnc_nm,
- trv_tbl->lst[idx_tbl].nm_fll);
- }
+ /* Loop list of variables from other file */
+ for(int idx_var_2=0;idx_var_2<var_lst->nbr;idx_var_2++){
- int dmn_idx_fnd=-1; /* [nbr] Index of dimension that has the coordinate */
- int dmn_id_fnd_lat=-1; /* [id] ID of dimension that has the latitude coordinate */
- int dmn_id_fnd_lon=-1; /* [id] ID of dimension that has the longituee coordinate */
+ /* Inquire existence of object in other table */
+ trv_2=trv_tbl_var_nm_fll(var_lst->lst[idx_var_2].nm,trv_tbl_2);
- trv_sct *lat_trv=NULL;
- trv_sct *lon_trv=NULL;
+ assert(trv_2);
- /* Loop dimensions, look for latitude */
- for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
- /* Has 'latitude' auxiliary coordinates */
- if (var_trv.var_dmn[idx_dmn].nbr_lat_crd){
- /* Use the coordinate with lower group depth (index 0) (These were already sorted ) */
- lat_trv=trv_tbl_var_nm_fll(var_trv.var_dmn[idx_dmn].lat_crd[0].nm_fll,trv_tbl);
- dmn_idx_fnd=idx_dmn;
- dmn_id_fnd_lat=var_trv.var_dmn[idx_dmn].lat_crd[0].dmn_id;
- break;
- } /* Has 'latitude' auxiliary coordinates */
- } /* Loop dimensions, look for latitude */
+ /* Match name (relative, since they are not absolute matches) */
+ if(strcmp(trv_2->nm,trv_1->nm) == 0){
- /* Loop dimensions, look for longitude */
- for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
- /* Has 'longitude' auxiliary coordinates */
- if (var_trv.var_dmn[idx_dmn].nbr_lon_crd){
- /* Use the coordinate with lower group depth (index 0) (These were already sorted ) */
- lon_trv=trv_tbl_var_nm_fll(var_trv.var_dmn[idx_dmn].lon_crd[0].nm_fll,trv_tbl);
- dmn_idx_fnd=idx_dmn;
- dmn_id_fnd_lon=var_trv.var_dmn[idx_dmn].lon_crd[0].dmn_id;
- break;
- } /* Has 'longitude' auxiliary coordinates */
- } /* Loop dimensions, look for longitude */
+ if(nco_dbg_lvl_get() >= nco_dbg_var) (void)fprintf(stdout,"%s: INFO common variable to output <%s>\n",nco_prg_nm_get(),trv_1->nm_fll);
- /* Auxiliary coordinates found */
- if (lat_trv && lon_trv){
+ /* Process common object */
+ (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,trv_1,trv_2,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
- lmt_sct **aux=NULL_CEWI; /* Auxiliary coordinate limits */
- int aux_lmt_nbr; /* Number of auxiliary coordinate limits */
- nc_type crd_typ; /* [enm] netCDF type of both "latitude" and "longitude" */
- char units[NC_MAX_NAME+1];
+ break;
+ } /* Match name */
+ } /* Loop list of variables from other file */
- aux_lmt_nbr=0;
- crd_typ=trv_tbl->lst[idx_tbl].var_dmn[dmn_idx_fnd].lat_crd[0].crd_typ;
- strcpy(units,trv_tbl->lst[idx_tbl].var_dmn[dmn_idx_fnd].lat_crd[0].units);
+ } /* Loop variables */
- aux=nco_aux_evl_trv(nc_id,aux_nbr,aux_arg,lat_trv,lon_trv,crd_typ,units,&aux_lmt_nbr);
+
+ } /* Loop group members */
+ } /* Loop ensembles */
- /* Mark both 'latitude' and 'longitude' for extraction */
- if(EXTRACT_ASSOCIATED_COORDINATES){
- (void)trv_tbl_mrk_xtr(lat_trv->nm_fll,True,trv_tbl);
- (void)trv_tbl_mrk_xtr(lon_trv->nm_fll,True,trv_tbl);
- }
+ /* Using table 2 as template; same logic looping table 2 */
- /* Found limits */
- if(aux_lmt_nbr > 0 ){
+ } else if (flg_grp_1 == False){
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: DEBUG %s variable <%s> (%d) limits\n",nco_prg_nm_get(),fnc_nm,
- trv_tbl->lst[idx_tbl].nm_fll,aux_lmt_nbr);
- }
+ if(nco_dbg_lvl_get() >= nco_dbg_var){
+ (void)fprintf(stdout,"%s: Processing ensembles from table 2\n",nco_prg_nm_get());
+ }
- lmt_sct **lmt=aux;
- int lmt_dmn_nbr=aux_lmt_nbr;
+ /* Loop ensembles */
+ for(int idx_nsm=0;idx_nsm<trv_tbl_2->nsm_nbr;idx_nsm++){
- /* The dimension IDs of both 'latitude' and 'longitude' must refer to the same dimemsion (e.g., 'gds_crd) ) */
- assert(dmn_id_fnd_lon == dmn_id_fnd_lat);
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s <ensemble %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_nsm,trv_tbl_2->nsm[idx_nsm].grp_nm_fll_prn);
+ }
- /* Apply limits to variable in table */
- (void)nco_lmt_aux_tbl(nc_id,lmt,lmt_dmn_nbr,var_trv.nm_fll,dmn_id_fnd_lat,FORTRAN_IDX_CNV,MSA_USR_RDR,trv_tbl);
+ /* Loop group members */
+ for(int idx_mbr=0;idx_mbr<trv_tbl_2->nsm[idx_nsm].mbr_nbr;idx_mbr++){
- /* Apply limits to *all* 'latitude', 'longitude' variables that share the same ID */
- (void)nco_lmt_std_att_lat_lon(nc_id,lmt,lmt_dmn_nbr,dmn_id_fnd_lat,FORTRAN_IDX_CNV,MSA_USR_RDR,trv_tbl);
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s \t <member %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_mbr,trv_tbl_2->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll);
+ }
- /* Get unique dimension object from unique dimension ID (e.g., 'gds_crd) */
- dmn_trv_sct *dmn_trv=nco_dmn_trv_sct(dmn_id_fnd_lat,trv_tbl);
+ /* Loop variables */
+ for(int idx_var=0;idx_var<trv_tbl_2->nsm[idx_nsm].mbr[idx_mbr].var_nbr;idx_var++){
- /* The dimension IDs of both 'latitude' and 'longitude' must refer to the same dimemsion (e.g., 'gds_crd) ) */
- assert(dmn_id_fnd_lon == dmn_trv->dmn_id);
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ (void)fprintf(stdout,"%s: DEBUG %s \t <variable %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_var,trv_tbl_2->nsm[idx_nsm].mbr[idx_mbr].var_nm_fll[idx_var]);
+ }
- /* Apply limits to the coordinate (e.g., 'gds_crd) */
- (void)nco_lmt_aux_tbl(nc_id,lmt,lmt_dmn_nbr,dmn_trv->nm_fll,dmn_id_fnd_lat,FORTRAN_IDX_CNV,MSA_USR_RDR,trv_tbl);
+ trv_1=NULL;
+ trv_2=NULL;
- } /* Found limits */
+ /* Inquire existence of these objects in tables */
+ trv_2=trv_tbl_var_nm_fll(trv_tbl_2->nsm[idx_nsm].mbr[idx_mbr].var_nm_fll[idx_var],trv_tbl_2);
- /* Free limits exported from nco_aux_evl_trv() */
- aux=(lmt_sct **)nco_free(aux);
+ assert(trv_2);
- } /* Auxiliary coordinates found */
- } /* Filter variables with auxiliary coordinates */
- } /* Filter variables to extract */
- } /* Loop table */
+ /* List of fixed templates */
+ for(int idx_skp=0;idx_skp<trv_tbl_2->nsm[idx_nsm].skp_nbr;idx_skp++){
- return;
-} /* nco_prs_aux_crd() */
+ /* Get variable */
+ trv_sct *var_trv=trv_tbl_var_nm_fll(trv_tbl_2->nsm[idx_nsm].skp_nm_fll[idx_skp],trv_tbl_2);
+
+ /* Define variable full name (using group name and relative name of fixed template) */
+ char *skp_nm_fll=nco_bld_nm_fll(trv_tbl_2->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll,var_trv->nm);
+
+ /* Get variable */
+ trv_sct *skp_trv=trv_tbl_var_nm_fll(skp_nm_fll,trv_tbl_2);
+
+ if (skp_trv){
+
+ /* Define/write fixed variables (ncbo) */
+ (void)nco_fix_dfn_wrt(nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,skp_trv,trv_tbl_2,flg_dfn);
+
+ }
+ } /* List of fixed templates */
+
+ /* Loop list of variables from other file */
+ for(int idx_var_1=0;idx_var_1<var_lst->nbr;idx_var_1++){
+
+ /* Inquire existence of object in other table */
+ trv_1=trv_tbl_var_nm_fll(var_lst->lst[idx_var_1].nm,trv_tbl_1);
+ assert(trv_1);
-void
-nco_lmt_aux_tbl /* [fnc] Apply limits to variable in table */
-(const int nc_id, /* I [ID] netCDF file ID */
- lmt_sct **lmt, /* I [sct] Limits */
- const int nbr_lmt, /* I [nbr] Number of limits */
- const char * const var_nm_fll, /* I [sng] Variable full name */
- const int dmn_id, /* I [id] ID of dimension to apply the limits */
- nco_bool FORTRAN_IDX_CNV, /* I [flg] Hyperslab indices obey Fortran convention */
- nco_bool MSA_USR_RDR, /* I [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
- trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
-{
- /* Loop table */
- for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
- /* Match variable */
- if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var && !strcmp(var_nm_fll,trv_tbl->lst[idx_tbl].nm_fll)){
+ /* Match name (relative, since they are not absolute matches) */
+ if(strcmp(trv_2->nm,trv_1->nm) == 0){
- trv_sct var_trv=trv_tbl->lst[idx_tbl];
+ if(nco_dbg_lvl_get() >= nco_dbg_var) (void)fprintf(stdout,"%s: INFO common variable to output <%s>\n",nco_prg_nm_get(),trv_2->nm_fll);
- /* Loop dimensions */
- for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
- /* Match index */
- if(dmn_id == var_trv.var_dmn[idx_dmn].dmn_id){
+ /* Process common object */
+ (void)nco_prc_cmn(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,nco_op_typ,trv_1,trv_2,trv_tbl_1,trv_tbl_2,flg_grp_1,flg_dfn);
- /* Apply limits */
- (void)nco_lmt_aux(nc_id,lmt,nbr_lmt,FORTRAN_IDX_CNV,MSA_USR_RDR,idx_tbl,idx_dmn,trv_tbl);
+ break;
+ } /* Match name */
+ } /* Loop list of variables from other file */
- } /* Match index */
- } /* Loop dimensions */
+ } /* Loop variables */
- } /* Match variable */
- } /* Loop table */
+ } /* Loop group members */
+ } /* Loop ensembles */
- return;
-} /* nco_lmt_aux_tbl() */
+ } /* ! Using table 1 as template */
+} /* nco_prc_nsm() */
-void
-nco_lmt_std_att_lat_lon /* [fnc] Apply limits to variable in table that contains 'standard_name' attribute "latitude" */
-(const int nc_id, /* I [ID] netCDF file ID */
- lmt_sct **lmt, /* I [sct] Limits */
- const int nbr_nbr, /* I [nbr] Number of limits */
- const int dmn_id, /* I [id] ID of dimension to apply the limits */
- nco_bool FORTRAN_IDX_CNV, /* I [flg] Hyperslab indices obey Fortran convention */
- nco_bool MSA_USR_RDR, /* I [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
- trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
+void
+nco_fix_dfn_wrt /* [fnc] Define/write fixed variables (ncbo) */
+(const int nc_id, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ trv_sct * trv, /* I [sct] Table object */
+ trv_tbl_sct * const trv_tbl, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False when write variables ) */
{
- /* Loop table */
- for(unsigned idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
- /* Match variable that has 'standard_name' flag */
- if(trv_tbl->lst[idx_tbl].nco_typ == nco_obj_typ_var &&
- (trv_tbl->lst[idx_tbl].flg_std_att_lat || trv_tbl->lst[idx_tbl].flg_std_att_lon)){
-
- trv_sct var_trv=trv_tbl->lst[idx_tbl];
+ char *grp_out_fll; /* [sng] Group name */
- /* Loop dimensions */
- for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
- /* Match index */
- if(dmn_id == var_trv.var_dmn[idx_dmn].dmn_id){
+ int grp_id; /* [id] Group ID in input file */
+ int grp_out_id; /* [id] Group ID in output file */
+ int var_id; /* [id] Variable ID in input file */
+ int var_out_id; /* [id] Variable ID in output file */
- /* Apply limits */
- (void)nco_lmt_aux(nc_id,lmt,nbr_nbr,FORTRAN_IDX_CNV,MSA_USR_RDR,idx_tbl,idx_dmn,trv_tbl);
+ /* Edit group name for output */
+ if(gpe) grp_out_fll=nco_gpe_evl(gpe,trv->grp_nm_fll); else grp_out_fll=(char *)strdup(trv->grp_nm_fll);
- } /* Match index */
- } /* Loop dimensions */
+ /* Obtain group ID using full group name */
+ (void)nco_inq_grp_full_ncid(nc_id,trv->grp_nm_fll,&grp_id);
- } /* Match variable */
- } /* Loop table */
+ /* Get variable ID */
+ (void)nco_inq_varid(grp_id,trv->nm,&var_id);
- return;
-} /* nco_lmt_std_att_lat_lon() */
+ /* Define mode */
+ if(flg_dfn){
+ char *rec_dmn_nm=NULL; /* [sng] Record dimension name */
+ /* If output group does not exist, create it */
+ if(nco_inq_grp_full_ncid_flg(nc_out_id,grp_out_fll,&grp_out_id)) nco_def_grp_full(nc_out_id,grp_out_fll,&grp_out_id);
+ /* Detect duplicate GPE names in advance, then exit with helpful error */
+ if(gpe) (void)nco_gpe_chk(grp_out_fll,trv->nm,&gpe_nm,&nbr_gpe_nm);
-void
-nco_lmt_aux /* [fnc] Apply auxiliary -X limits (Auxiliary function called by different functions ) */
-(const int nc_id, /* I [ID] netCDF file ID */
- lmt_sct **lmt, /* I [sct] Limits */
- const int nbr_nbr, /* I [nbr] Number of limits */
- nco_bool FORTRAN_IDX_CNV, /* I [flg] Hyperslab indices obey Fortran convention */
- nco_bool MSA_USR_RDR, /* I [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
- const int idx_tbl, /* I [nbr] Table index */
- const int idx_dmn, /* I [nbr] Dimension index */
- trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
-{
+ /* Define variable in output file */
+ var_out_id= nco_cpy_var_dfn_trv(nc_id,nc_out_id,cnk,grp_out_fll,dfl_lvl,gpe,rec_dmn_nm,trv,trv_tbl);
- /* a) case where the dimension has coordinate variables */
- if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd){
+ /* Copy variable's attributes */
+ (void)nco_att_cpy(grp_id,grp_out_id,var_id,var_out_id,True);
- /* For this call (-X) the *same* limits are applied to all coordinates, and other variables might apply
- them too, so make sure they are applied only once by setting -1 in lmt_crr */
+ }else{ /* !flg_dfn */
+ /* Write mode */
- if (trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_crr == -1) return;
+ md5_sct *md5=NULL; /* [sct] MD5 configuration */
- trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_crr=-1;
+ /* Get group ID */
+ (void)nco_inq_grp_full_ncid(nc_out_id,grp_out_fll,&grp_out_id);
- /* Loop limits */
- for(int idx_lmt=0;idx_lmt<nbr_nbr;idx_lmt++){
+ /* Get variable ID */
+ (void)nco_inq_varid(grp_out_id,trv->nm,&var_out_id);
- /* Increment number of dimension limits for this dimension */
- trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr++;
+ /* Non-processed variable */
+ (void)nco_cpy_var_val_mlt_lmt_trv(grp_id,grp_out_id,(FILE *)NULL,md5,trv);
- int nbr_lmt=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr;
- trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn=(lmt_sct **)nco_realloc(
- trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn,nbr_lmt*sizeof(lmt_sct *));
+ } /* !flg_dfn */
- crd_sct *crd=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd;
+ /* Free output path name */
+ grp_out_fll=(char *)nco_free(grp_out_fll);
- /* Limit is same as dimension in input file? */
- trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.BASIC_DMN=False;
+} /* nco_fix_dfn_wrt() */
- /* Parse user-specified limits into hyperslab specifications. NOTE: Use True parameter and "crd" */
- (void)nco_lmt_evl_dmn_crd(nc_id,0L,FORTRAN_IDX_CNV,crd->crd_grp_nm_fll,crd->nm,crd->sz,crd->is_rec_dmn,True,lmt[idx_lmt]);
+nco_bool /* O [flg] True for match found */
+nco_rel_mch /* [fnc] Relative match of object in table 1 to table 2 */
+(trv_sct * var_trv, /* I [sct] Table variable object (can be from table 1 or 2) */
+ const nco_bool flg_tbl_1, /* I [flg] Table variable object is from table1 for True, otherwise is from table 2 */
+ const trv_tbl_sct * const trv_tbl_1, /* I [sct] GTT (Group Traversal Table) */
+ const trv_tbl_sct * const trv_tbl_2) /* I [sct] GTT (Group Traversal Table) */
+{
+ nco_bool rel_mch; /* [flg] A match was found */
- /* Alloc this limit */
- trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn[idx_lmt]=(lmt_sct *)nco_malloc(sizeof(lmt_sct));
+ rel_mch=False;
- /* Initialize this entry */
- (void)nco_lmt_init(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn[idx_lmt]);
+ /* Object is from table 1, look in table 2 */
+ if(flg_tbl_1 == True){
- /* Store dimension ID */
- lmt[idx_lmt]->id=crd->dmn_id;
+ /* Loop table */
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl_2->nbr;idx_tbl++){
+ if(trv_tbl_2->lst[idx_tbl].nco_typ == nco_obj_typ_var && !strcmp(var_trv->nm,trv_tbl_2->lst[idx_tbl].nm)){
+ rel_mch=True;
+ } /* A relative match was found */
+ } /* Loop table */
- /* Store this valid input; deep-copy to table */
- (void)nco_lmt_cpy(lmt[idx_lmt],trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn[idx_lmt]);
+ /* Object is from table 2, look in table 1 */
+ }else if(flg_tbl_1 == False){
- } /* Loop limits */
+ /* Loop table */
+ for(unsigned idx_tbl=0;idx_tbl<trv_tbl_1->nbr;idx_tbl++){
+ if(trv_tbl_1->lst[idx_tbl].nco_typ == nco_obj_typ_var && !strcmp(var_trv->nm,trv_tbl_1->lst[idx_tbl].nm)){
+ rel_mch=True;
+ } /* A relative match was found */
+ } /* Loop table */
- /* Apply MSA for each Dimension in new cycle (that now has all its limits in place) */
+ } /* !flg_tbl_1 */
- /* Loop limits */
- for(int idx_lmt=0;idx_lmt<nbr_nbr;idx_lmt++){
+ return rel_mch;
- crd_sct *crd=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd;
+} /* nco_rel_mch() */
- /* Adapted from original MSA loop in nco_msa_lmt_all_ntl(); differences are marked GTT specific */
+void
+nco_prc_rel_cmn_nm /* [fnc] Process common relative objects from a common mames list (ncbo only) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_cmn_t * const cmn_lst, /* I [sct] List of common names (includes groups/datasets in absolute path */
+ const int nbr_cmn_nm, /* I [nbr] Number of common names entries */
+ const nco_bool flg_dfn) /* I [flg] Action type (True for define variables, False when write variables ) */
+{
+ /* Purpose: Process common objects from a common mames list (ncbo only)
+ Criteria for "larger" file is number of depth 1 groups (e.g cmip5.nc compared to obs.nc ) */
- nco_bool flg_ovl; /* [flg] Limits overlap */
+ const char fnc_nm[]="nco_prc_rel_cmn_nm()"; /* [sng] Function name */
- /* GTT: If this coordinate has no limits, continue */
- if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr == 0) continue;
+ int nbr_grp_dpt_1; /* [nbr] Number of depth 1 groups (root = 0) */
+ int nbr_grp_dpt_2; /* [nbr] Number of depth 1 groups (root = 0) */
- /* ncra/ncrcat have only one limit for record dimension so skip evaluation otherwise this messes up multi-file operation */
- if(crd->is_rec_dmn && (nco_prg_id_get() == ncra || nco_prg_id_get() == ncrcat)) continue;
+ nco_bool flg_grt_1; /* [flg] File 1 is "larger" */
+ nco_bool has_mch; /* [flg] A relative match was found in file 1 or 2 */
- /* Split-up wrapped limits. NOTE: using deep copy version nco_msa_wrp_splt_cpy() */
- (void)nco_msa_wrp_splt_cpy(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+ nco_bool flg_tbl_1; /* [flg] Table variable object is from table1 for True, otherwise is from table 2 */
+ nco_bool flg_grp_1; /* [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
- /* Wrapped hyperslabs are dimensions broken into the "wrong" order, e.g., from
- -d time,8,2 broken into -d time,8,9 -d time,0,2
- WRP flag set only when list contains dimensions split as above */
- if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.WRP){
+ trv_sct *trv_1; /* [sct] Table object */
+ trv_sct *trv_2; /* [sct] Table object */
- /* Find and store size of output dim */
- (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+ nbr_grp_dpt_1=trv_tbl_inq_dpt(trv_tbl_1);
+ nbr_grp_dpt_2=trv_tbl_inq_dpt(trv_tbl_2);
- continue;
- } /* End WRP flag set */
+ if (nbr_grp_dpt_1 > nbr_grp_dpt_2) flg_grt_1=True; else flg_grt_1=False;
- /* Single slab---no analysis needed */
- if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr == 1){
+ /* File 1 "larger" (typically model file) (e.g ncbo -O cmip5.nc obs.nc out.nc ) */
+ if(flg_grt_1 == True){
- (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+ /* Process objects in list */
+ for(int idx_cmn=0;idx_cmn<nbr_cmn_nm;idx_cmn++){
- continue;
- } /* End Single slab */
+ /* Get GTT objects from full names */
+ trv_1=trv_tbl_var_nm_fll(cmn_lst[idx_cmn].nm,trv_tbl_1);
+ trv_2=trv_tbl_var_nm_fll(cmn_lst[idx_cmn].nm,trv_tbl_2);
- /* Does Multi-Slab Algorithm returns hyperslabs in user-specified order? */
- if(MSA_USR_RDR){
- trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa.MSA_USR_RDR=True;
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s processing common name <%s>\n",nco_prg_nm_get(),fnc_nm,
+ cmn_lst[idx_cmn].nm);
- /* Find and store size of output dimension */
- (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+ if(!trv_1 && !trv_2){
+ continue;
+ }
+ /* Both objects exist in same location, both flagged for extraction */
+ if(trv_1 && trv_2 && cmn_lst[idx_cmn].flg_in_fl[0] && cmn_lst[idx_cmn].flg_in_fl[1] && trv_1->flg_xtr && trv_2->flg_xtr){
continue;
- } /* End MSA_USR_RDR */
+ }
- /* Sort limits */
- (void)nco_msa_qsort_srt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+ /* Object exists and is flagged for extraction only in file 1 */
+ if(trv_1 && trv_1->flg_xtr && cmn_lst[idx_cmn].flg_in_fl[0] == True && cmn_lst[idx_cmn].flg_in_fl[1] == False){
- /* Check for overlap */
- flg_ovl=nco_msa_ovl(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s reports element in file 1 to output <%s>\n",nco_prg_nm_get(),fnc_nm,trv_1->nm_fll);
- /* Find and store size of output dimension */
- (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd->lmt_msa);
+ flg_tbl_1=True;
+ flg_grp_1=True;
- if(nco_dbg_lvl_get() >= nco_dbg_fl){
- if(flg_ovl) (void)fprintf(stdout,"%s: coordinate \"%s\" has overlapping hyperslabs\n",nco_prg_nm_get(),crd->nm); else (void)fprintf(stdout,"%s: coordinate \"%s\" has distinct hyperslabs\n",nco_prg_nm_get(),crd->nm);
- } /* endif */
+ /* Try relative match in file 2 */
+ has_mch=nco_prc_rel_mch(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_1,flg_tbl_1,flg_grp_1,trv_tbl_1,trv_tbl_2,flg_dfn);
- } /* Loop limits */
- } /* a) case where the dimension has coordinate variables */
+ /* Match not found in file 2, copy instead object from file 1 as fixed to output */
+ if(!has_mch){
+ (void)nco_cpy_fix(nc_id_1,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,trv_1,trv_tbl_1,flg_dfn);
+ }
- return;
-} /* nco_lmt_aux() */
+ } /* Object exists and is flagged for extraction only in file 1 */
+ }/* Process objects in list */
-void
-nco_bld_crd_aux /* [fnc] Build auxiliary coordinates information into table */
-(const int nc_id, /* I [ID] netCDF file ID */
- trv_tbl_sct *trv_tbl) /* I [sct] GTT (Group Traversal Table) */
-{
- const char fnc_nm[]="nco_bld_crd_aux()"; /* [sng] Function name */
+ /* File 2 "larger" (typically model file) (e.g ncbo -O obs.nc cmip5.nc out.nc ) */
+ } else if (flg_grt_1 == False) {
- /* Look for 'standard_name' 'latitude' and 'longitude' attributes */
+ /* Process objects in list */
+ for(int idx_cmn=0;idx_cmn<nbr_cmn_nm;idx_cmn++){
- char *var_nm_fll=NULL;
+ /* Get GTT objects from full names */
+ trv_1=trv_tbl_var_nm_fll(cmn_lst[idx_cmn].nm,trv_tbl_1);
+ trv_2=trv_tbl_var_nm_fll(cmn_lst[idx_cmn].nm,trv_tbl_2);
- int dmn_id; /* [id] Dimension ID of dimension of 'latitude' and 'longitude' coordinate variables, e.g., lat_gds(gds_crd) */
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s processing common name <%s>\n",nco_prg_nm_get(),fnc_nm,
+ cmn_lst[idx_cmn].nm);
- nc_type crd_typ;
+ if(!trv_1 && !trv_2){
+ continue;
+ }
- /* Loop table */
- for(unsigned idx_var=0;idx_var<trv_tbl->nbr;idx_var++){
- /* Filter variables */
- trv_sct var_trv=trv_tbl->lst[idx_var];
+ /* Both objects exist in same location, both flagged for extraction */
+ if(trv_1 && trv_2 && cmn_lst[idx_cmn].flg_in_fl[0] && cmn_lst[idx_cmn].flg_in_fl[1] && trv_1->flg_xtr && trv_2->flg_xtr){
+ continue;
+ }
- nco_bool has_lat;
- nco_bool has_lon;
+ /* Object exists and is flagged for extraction only in file 2 */
+ if(trv_2 && trv_2->flg_xtr && cmn_lst[idx_cmn].flg_in_fl[0] == False && cmn_lst[idx_cmn].flg_in_fl[1] == True){
- /* Filter variables. */
- if(var_trv.nco_typ == nco_obj_typ_var){
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s reports element in file 2 to output <%s>\n",nco_prg_nm_get(),fnc_nm,trv_2->nm_fll);
- char units_lat[NC_MAX_NAME+1];
- char units_lon[NC_MAX_NAME+1];
+ flg_tbl_1=False;
+ flg_grp_1=False;
- has_lat=nco_find_lat_lon_trv(nc_id,&var_trv,"latitude",&var_nm_fll,&dmn_id,&crd_typ,units_lat);
+ /* Try relative match in file 1 */
+ has_mch=nco_prc_rel_mch(nc_id_1,nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,nco_op_typ,trv_2,flg_tbl_1,flg_grp_1,trv_tbl_1,trv_tbl_2,flg_dfn);
- if (has_lat){
+ /* Match not found in file 2, copy instead object from file 2 as fixed to output */
+ if(!has_mch){
+ (void)nco_cpy_fix(nc_id_2,nc_out_id,cnk,dfl_lvl,gpe,gpe_nm,nbr_gpe_nm,CNV_CCM_CCSM_CF,(nco_bool)False,(dmn_sct **)NULL,(int)0,trv_2,trv_tbl_2,flg_dfn);
+ }
- /* Variable contains 'standard_name' attribute "latitude" */
- trv_tbl->lst[idx_var].flg_std_att_lat=True;
+ } /* Object exists and is flagged for extraction only in file 2 */
+ } /* Process objects in list */
+ } /* File 2 "larger" (typically model file) (e.g ncbo -O obs.nc cmip5.nc out.nc ) */
- /* Loop table */
- for(unsigned idx_crd=0;idx_crd<trv_tbl->nbr;idx_crd++){
- /* Filter */
- if(trv_tbl->lst[idx_crd].nco_typ == nco_obj_typ_var &&
- trv_tbl->lst[idx_crd].nbr_dmn >=2 &&
- trv_tbl->lst[idx_crd].is_crd_var == False){
- /* Loop dimensions */
- for(int idx_dmn=0;idx_dmn<trv_tbl->lst[idx_crd].nbr_dmn;idx_dmn++){
- /* Match dimension */
- if (trv_tbl->lst[idx_crd].var_dmn[idx_dmn].dmn_id == dmn_id){
- /* Check if possible 'latitude' (var_trv) is in scope */
- if (nco_var_scp(&trv_tbl->lst[idx_crd],&var_trv,trv_tbl)){
+} /* nco_prc_rel_cmn_nm() */
- trv_tbl->lst[idx_crd].flg_aux=True;
- /* Insert item into list */
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].nbr_lat_crd++;
- int nbr_lat_crd=trv_tbl->lst[idx_crd].var_dmn[idx_dmn].nbr_lat_crd;
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd=(aux_crd_sct *)nco_realloc(
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd,nbr_lat_crd*sizeof(aux_crd_sct));
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].nm_fll=strdup(var_nm_fll);
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].dmn_id=dmn_id;
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].grp_dpt=var_trv.grp_dpt;
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].crd_typ=crd_typ;
- strcpy(trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lat_crd[nbr_lat_crd-1].units,units_lat);
+void
+nco_chk_nsm /* [fnc] Check if ensembles are valid */
+(const int in_id, /* I [id] netCDF input-file ID of current file, starting with first */
+ const int fl_idx, /* I [nbr] Index of file loop */
+ const trv_tbl_sct * const trv_tbl) /* I [sct] GTT (Group Traversal Table) of *first* file */
+{
+ /* Check if ensembles are valid. Ensemble parent group exists, variables have the same dimension sizes and names */
- } /* Is in scope */
- } /* Match dimension */
- } /* Loop dimensions */
- } /* Filter */
- } /* Loop table */
+ /* Tests:
+ ncra -Y ncge -O in_grp_4.nc in_grp_5.nc out.nc
+ ncra -Y ncge -O -d lon,0,2,1 -d time,0,5,1 in_grp_4.nc in_grp_5.nc out.nc
+ */
- } /* has_lat */
+ const char fnc_nm[]="nco_chk_nsm()"; /* [sng] Function name */
- has_lon=nco_find_lat_lon_trv(nc_id,&var_trv,"longitude",&var_nm_fll,&dmn_id,&crd_typ,units_lon);
+ char **var_nm_lst; /* [sng] List of variable names found in ensemble group */
+ char *grp_nm_fll; /* I [sng] Full group name */
+ char *grp_nm; /* I [sng] Group name */
- if (has_lon){
+ int nbr_var_nm_lst; /* [nbr] Number of items in list */
+ int grp_id; /* [id] Group ID */
+ int nbr_grp; /* [nbr] Number of sub-groups */
+ int *grp_ids; /* [id] Sub-group IDs array */
+ int dmn_id_var[NC_MAX_DIMS]; /* [ID] Dimensions IDs array for variable */
+ int nbr_dmn_var; /* [nbr] Number of dimensions for variable */
+ int rcd=NC_NOERR; /* [rcd] Return code */
- /* Variable contains 'standard_name' attribute "longitude" */
- trv_tbl->lst[idx_var].flg_std_att_lon=True;
+ size_t grp_nm_lng; /* [nbr] Group name length */
- /* Loop table */
- for(unsigned idx_crd=0;idx_crd<trv_tbl->nbr;idx_crd++){
- /* Filter */
- if(trv_tbl->lst[idx_crd].nco_typ == nco_obj_typ_var &&
- trv_tbl->lst[idx_crd].nbr_dmn >=2 &&
- trv_tbl->lst[idx_crd].is_crd_var == False){
- /* Loop dimensions */
- for(int idx_dmn=0;idx_dmn<trv_tbl->lst[idx_crd].nbr_dmn;idx_dmn++){
- /* Match dimension */
- if (trv_tbl->lst[idx_crd].var_dmn[idx_dmn].dmn_id == dmn_id){
- /* Check if possible 'longitude' (var_trv) is in scope */
- if (nco_var_scp(&trv_tbl->lst[idx_crd],&var_trv,trv_tbl)){
+ /* Loop ensembles */
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
- trv_tbl->lst[idx_crd].flg_aux=True;
+ trv_sct **var_tpl_trv;
- /* Insert item into list */
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].nbr_lon_crd++;
- int nbr_lon_crd=trv_tbl->lst[idx_crd].var_dmn[idx_dmn].nbr_lon_crd;
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd=(aux_crd_sct *)nco_realloc(
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd,nbr_lon_crd*sizeof(aux_crd_sct));
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].nm_fll=strdup(var_nm_fll);
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].dmn_id=dmn_id;
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].grp_dpt=var_trv.grp_dpt;
- trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].crd_typ=crd_typ;
- strcpy(trv_tbl->lst[idx_crd].var_dmn[idx_dmn].lon_crd[nbr_lon_crd-1].units,units_lat);
+ int nbr_var_mbr=trv_tbl->nsm[idx_nsm].mbr[0].var_nbr;
- } /* Is in scope */
- } /* Match dimension */
- } /* Loop dimensions */
- } /* Filter */
- } /* Loop table */
-
- } /* has_lon */
- } /* Filter variables to extract */
- } /* Loop table */
+ var_tpl_trv=(trv_sct **)nco_malloc(nbr_var_mbr*sizeof(trv_sct *));
- /* Sort the array of 'latitude' and 'longitude' coordinate variables by group depth and choose the most in scope variables */
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s <ensemble %d> <%s>\n",nco_prg_nm_get(),fnc_nm,
+ idx_nsm,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
- /* Loop table */
- for(unsigned idx_var=0;idx_var<trv_tbl->nbr;idx_var++){
+ /* Obtain group ID of current ensemble using full group name */
+ rcd+=nco_inq_grp_full_ncid_flg(in_id,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,&grp_id);
- /* Filter variables with auxiliary coordinates */
- if(trv_tbl->lst[idx_var].flg_aux){
+ /* Group must exist, if not exit */
+ if(rcd != NC_NOERR){
+ (void)fprintf(stdout,"%s: ERROR ensemble <%s> does not exist\n",nco_prg_nm_get(),trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ (void)fprintf(stdout,"%s: List of ensembles is\n",nco_prg_nm_get());
+ for(int idx=0;idx<trv_tbl->nsm_nbr;idx++){
+ (void)fprintf(stdout,"%s: <%s>\n",nco_prg_nm_get(),trv_tbl->nsm[idx].grp_nm_fll_prn);
+ nco_exit(EXIT_FAILURE);
+ }
+ }
- assert(trv_tbl->lst[idx_var].nco_typ == nco_obj_typ_var);
- /* Loop dimensions */
- for(int idx_dmn=0;idx_dmn<trv_tbl->lst[idx_var].nbr_dmn;idx_dmn++){
+ /* Get number of sub-groups */
+ (void)nco_inq_grps(grp_id,&nbr_grp,(int *)NULL);
+ grp_ids=(int *)nco_malloc(nbr_grp*sizeof(int));
+ (void)nco_inq_grps(grp_id,(int *)NULL,grp_ids);
- /* Has 'latitude' auxiliary coordinates */
- if (trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lat_crd){
- int nbr_lat_crd=trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lat_crd;
+ /* Loop sub-groups */
+ for(int idx_grp=0;idx_grp<nbr_grp;idx_grp++){
- /* Sort them by group depth */
- qsort(trv_tbl->lst[idx_var].var_dmn[idx_dmn].lat_crd,(size_t)nbr_lat_crd,sizeof(trv_tbl->lst[idx_var].var_dmn[idx_dmn].lat_crd[0]),nco_cmp_aux_crd_dpt);
+ /* Get group name length */
+ (void)nco_inq_grpname_len(grp_ids[idx_grp],&grp_nm_lng);
+ grp_nm=(char *)nco_malloc(grp_nm_lng+1L);
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: DEBUG %s variable with auxiliary coordinates <%s>:<%s>\n",nco_prg_nm_get(),fnc_nm,
- trv_tbl->lst[idx_var].nm_fll,trv_tbl->lst[idx_var].var_dmn[idx_dmn].dmn_nm_fll);
- for(int idx_crd=0;idx_crd<nbr_lat_crd;idx_crd++){
- (void)fprintf(stdout,"%s: DEBUG %s <%s> dpt=%d\n",nco_prg_nm_get(),fnc_nm,
- trv_tbl->lst[idx_var].var_dmn[idx_dmn].lat_crd[idx_crd].nm_fll,
- trv_tbl->lst[idx_var].var_dmn[idx_dmn].lat_crd[idx_crd].grp_dpt);
- }
- }
+ /* Get group name */
+ (void)nco_inq_grpname(grp_ids[idx_grp],grp_nm);
- } /* Has 'latitude' auxiliary coordinates */
+ /* Construct full name */
+ grp_nm_fll=(char *)nco_malloc(grp_nm_lng+strlen(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn)+2L);
+ strcpy(grp_nm_fll,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
+ strcat(grp_nm_fll,"/");
+ strcat(grp_nm_fll,grp_nm);
- /* Has 'longitude' auxiliary coordinates */
- if (trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lon_crd){
+ /* Export list of variable names for group */
+ (void)nco_grp_var_lst(in_id,grp_nm_fll,&var_nm_lst,&nbr_var_nm_lst);
- int nbr_lon_crd=trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lon_crd;
+ int tpl_nbr=trv_tbl->nsm[idx_nsm].tpl_nbr;
- /* Sort them by group depth */
- qsort(trv_tbl->lst[idx_var].var_dmn[idx_dmn].lon_crd,(size_t)nbr_lon_crd,sizeof(trv_tbl->lst[idx_var].var_dmn[idx_dmn].lon_crd[0]),nco_cmp_aux_crd_dpt);
+ /* Loop templates */
+ for(int idx_tpl=0;idx_tpl<tpl_nbr;idx_tpl++){
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: DEBUG %s variable with auxiliary coordinates <%s>:<%s>\n",nco_prg_nm_get(),fnc_nm,
- trv_tbl->lst[idx_var].nm_fll,trv_tbl->lst[idx_var].var_dmn[idx_dmn].dmn_nm_fll);
- for(int idx_crd=0;idx_crd<nbr_lon_crd;idx_crd++){
- (void)fprintf(stdout,"%s: DEBUG %s <%s> dpt=%d\n",nco_prg_nm_get(),fnc_nm,
- trv_tbl->lst[idx_var].var_dmn[idx_dmn].lon_crd[idx_crd].nm_fll,
- trv_tbl->lst[idx_var].var_dmn[idx_dmn].lon_crd[idx_crd].grp_dpt);
- }
- }
+ /* Obtain GTT check variable objects (for first member, index 0) */
+ var_tpl_trv[idx_tpl]=trv_tbl_var_nm_fll(trv_tbl->nsm[idx_nsm].mbr[0].var_nm_fll[idx_tpl],trv_tbl);
- } /* Has 'longitude' auxiliary coordinates */
- } /* Loop dimensions */
- } /* Filter variables with auxiliary coordinates */
- } /* Loop table */
+ assert(var_tpl_trv[idx_tpl]);
- return;
-} /* nco_bld_crd_aux() */
+ /* Loop variables in group */
+ for(int idx_var=0;idx_var<nbr_var_nm_lst;idx_var++){
-nco_bool /* O [flg] True if variable 1 is in scope of variable 2 */
-nco_var_scp /* [fnc] Is variable 1 is in scope of variable 2 */
-(const trv_sct * const var_trv_1, /* I [sct] Variable 1 */
- const trv_sct * const var_trv_2, /* I [sct] Variable 2 (use case , find 'latitude in scope )*/
- const trv_tbl_sct * const trv_tbl) /* I [sct] Traversal table */
-{
+ /* Match relative name of template variable and variable found in file */
+ if(strcmp(var_nm_lst[idx_var],trv_tbl->nsm[idx_nsm].tpl_mbr_nm[idx_tpl]) == 0){
- /* Same group */
- if (strcmp(var_trv_1->grp_nm_fll,var_trv_2->grp_nm_fll) == 0){
- return True;
- }
+ trv_sct *var_trv;
- /* Different groups: traverse down the higher and look for a group match name */
- if(var_trv_2->grp_dpt > var_trv_1->grp_dpt){
+ size_t lmn_cnt=1; /* [nbr] Total number of elements */
- char *grp_nm_fll_prn_2=var_trv_2->grp_nm_fll_prn; /* [sct] Parent group */
- trv_sct *grp_prn_2;
+ /* Build new variable name */
+ char *var_nm_fll=nco_bld_nm_fll(grp_nm_fll,var_nm_lst[idx_var]);
- grp_prn_2=trv_tbl_grp_nm_fll(grp_nm_fll_prn_2,trv_tbl);
+ /* For first file, GTT was built */
+ if (fl_idx == 0){
+ var_trv=trv_tbl_var_nm_fll(var_nm_fll,trv_tbl);
+ assert(var_trv);
+ }
- /* Look for same group name in hierarchy */
- while (grp_nm_fll_prn_2){
+ /* Get number of dimensions */
+ (void)nco_inq_var(grp_ids[idx_grp],idx_var,var_nm_lst[idx_var],NULL,&nbr_dmn_var,(int *)NULL,(int *)NULL);
- /* Same group in hierarchy */
- if (strcmp(grp_prn_2->grp_nm,var_trv_1->grp_nm) == 0){
- return True;
- } /* Same group in hierarchy */
+ /* Get dimension IDs for variable */
+ (void)nco_inq_vardimid(grp_ids[idx_grp],idx_var,dmn_id_var);
- /* Exit loop when root reached */
- if (grp_prn_2->grp_dpt == 0){
- break;
- }
+ /* Loop dimensions and check GTT template (first) with current variable */
+ for(int idx_dmn=0;idx_dmn<nbr_dmn_var;idx_dmn++){
- grp_nm_fll_prn_2=grp_prn_2->grp_nm_fll_prn;
- grp_prn_2=trv_tbl_grp_nm_fll(grp_nm_fll_prn_2,trv_tbl);
- } /* Look for same group name in hierarchy */
+ char dmn_nm[NC_MAX_NAME+1L]; /* [nbr] Name of coordinate */
+ char tpl_dmn_nm[NC_MAX_NAME+1L]; /* [nbr] Name of template coordinate */
- }
+ size_t tpl_sz; /* [nbr] Size of template dimension */
- return False;
-} /* nco_var_scp() */
+ long dmn_sz; /* [nbr] Size of dimension */
+ long dmn_cnt_gtt; /* [nbr] Hyperslabbed size of dimension of GTT variable (first file only) */
-int *
-nco_dmn_malloc /* [fnc] Inquire about number of dimensions in group and return dynamic array of dimension IDs */
-(const int nc_id, /* I [ID] netCDF file ID */
- const char * const grp_nm_fll, /* I [sng] Group full name */
- int *dmn_nbr) /* I/O [nbr] Number of dimensions in group */
+ nco_bool flg_has_lmt; /* [flg] Dimension has hyperslab */
-{
- const int flg_prn=0; /* [flg] Retrieve all dimensions in parent groups */
+ flg_has_lmt=False;
- int *dmn_ids; /* [nbr] Dimensions IDs array */
- int grp_id; /* [ID] Group ID */
- int nbr_dmn; /* [nbr] Number of dimensions */
+ /* Get size of template variable */
+ if (var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].crd){
+ tpl_sz=var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].crd->sz;
+ strcpy(tpl_dmn_nm,var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].crd->nm);
+ /* Inquire about hyperslabs*/
+ if(var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].crd->lmt_msa.lmt_dmn_nbr){
+ flg_has_lmt=True;
+ }
+ }else if (var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].ncd){
+ tpl_sz=var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].ncd->sz;
+ strcpy(tpl_dmn_nm,var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].ncd->nm);
+ /* Inquire about hyperslabs*/
+ if(var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].ncd->lmt_msa.lmt_dmn_nbr){
+ flg_has_lmt=True;
+ }
+ }else assert(0);
- /* Obtain group ID from netCDF API using full group name */
- (void)nco_inq_grp_full_ncid(nc_id,grp_nm_fll,&grp_id);
+ /* Get name/size of variable */
+ (void)nco_inq_dim(grp_ids[idx_grp],dmn_id_var[idx_dmn],dmn_nm,&dmn_sz);
- /* Obtain number of dimensions for group */
- (void)nco_inq(grp_id,&nbr_dmn,(int *)NULL,(int *)NULL,(int *)NULL);
+ /* Compare names */
+ if (strcmp(dmn_nm,tpl_dmn_nm) != 0 ){
+ (void)fprintf(stdout,"%s: ERROR Variables do not conform: variable <%s> has dimension named <%s>, expecting <%s>\n",nco_prg_nm_get(),
+ var_nm_fll,dmn_nm,tpl_dmn_nm);
+ nco_exit(EXIT_FAILURE);
+ }
- /* Alloc array */
- dmn_ids=(int *)nco_malloc(nbr_dmn*sizeof(int));
+ /* No hyperslab, compare dimension */
+ if (flg_has_lmt == False){
+ lmn_cnt*=dmn_sz;
+ /* Compare sizes */
+ if (dmn_sz != (long)tpl_sz){
+ (void)fprintf(stdout,"%s: ERROR Variables do not conform: variable <%s> has dimension <%s> with size %ld, expecting size %ld\n",nco_prg_nm_get(),
+ var_nm_fll,dmn_nm,dmn_sz,tpl_sz);
+ nco_exit(EXIT_FAILURE);
+ }
+ } else {
- /* Obtain dimensions IDs for group */
- (void)nco_inq_dimids(grp_id,&nbr_dmn,dmn_ids,flg_prn);
+ /* Hyperslab */
- /* Export number of dimensions */
- *dmn_nbr=nbr_dmn;
+ /* For first file, GTT was built */
+ if (fl_idx == 0){
- return dmn_ids;
-}
+ /* Get hyperslabbed size of GTT variable */
+ if (var_trv->var_dmn[idx_dmn].crd){
+ dmn_cnt_gtt=var_trv->var_dmn[idx_dmn].crd->lmt_msa.dmn_cnt;
+ }else if (var_tpl_trv[idx_tpl]->var_dmn[idx_dmn].ncd){
+ dmn_cnt_gtt=var_trv->var_dmn[idx_dmn].ncd->lmt_msa.dmn_cnt;
+ }else assert(0);
-void
-nco_prn_var /* [fnc] Print variable (debug only) */
-(const int nc_id, /* I [ID] netCDF file ID (Input or output file) */
- trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
-{
- const char fnc_nm[]="nco_prn_var()"; /* [sng] Function name */
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s <%s> <%s> hyperslabbed size %ld\n",nco_prg_nm_get(),fnc_nm,
+ var_trv->nm_fll,dmn_nm,dmn_cnt_gtt);
- int grp_id;
- int var_id;
- nc_type var_typ;
- int nbr_dmn;
+ lmn_cnt*=dmn_cnt_gtt;
- /* Loop table */
- for(unsigned int idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
+ } /* For first file, GTT was built */
- trv_sct var_trv=trv_tbl->lst[idx_tbl];
+ } /* Hyperslab */
+ } /* Loop dimensions */
- /* Is variable */
- if(var_trv.nco_typ == nco_obj_typ_var){
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ if (fl_idx == 0) (void)fprintf(stdout,"%s: DEBUG %s <%s> elements %ld\n",nco_prg_nm_get(),fnc_nm,var_trv->nm_fll,lmn_cnt);
+ }
- (void)nco_inq_grp_full_ncid(nc_id,var_trv.grp_nm_fll,&grp_id);
- (void)nco_inq_varid(grp_id,var_trv.nm,&var_id);
- (void)nco_inq_var(grp_id,var_id,(char *)NULL,&var_typ,&nbr_dmn,(int *)NULL,(int *)NULL);
+ var_nm_fll=(char *)nco_free(var_nm_fll);
- if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s variable <%s> Type: %d\n",nco_prg_nm_get(),fnc_nm,var_trv.nm_fll,var_typ);
+ break;
- } /* Is variable */
- } /* Loop table */
-} /* nco_prn_var() */
+ } /* Match relative name */
-void
-nco_dmn_lmt /* [fnc] Convert a lmt_sct array to dmn_sct (name only) */
-(lmt_sct **lmt, /* I [lst] lmt_sct array */
- const int nbr_lmt, /* I [nbr] Size of lmt_sct array */
- dmn_sct ***dmn) /* O [sct] dmn_sct array */
-{
- for(int idx=0;idx<nbr_lmt;idx++){
- (*dmn)[idx]=(dmn_sct *)nco_malloc(sizeof(dmn_sct));
- (*dmn)[idx]->nm=(char *)strdup(lmt[idx]->nm);
- (*dmn)[idx]->id=-1;
- (*dmn)[idx]->nc_id=-1;
- (*dmn)[idx]->xrf=NULL;
- (*dmn)[idx]->val.vp=NULL;
- (*dmn)[idx]->is_rec_dmn=lmt[idx]->is_rec_dmn;
- (*dmn)[idx]->cnt=-1;
- (*dmn)[idx]->sz=-1;
- (*dmn)[idx]->srt=-1;
- (*dmn)[idx]->end=-1;
- (*dmn)[idx]->srd=-1;
- (*dmn)[idx]->cid=-1;
- (*dmn)[idx]->cnk_sz=-1;
- (*dmn)[idx]->type=(nc_type)-1;
- }
+ } /* Loop variables in group */
+ } /* Loop templates */
- return;
+ /* Free list */
+ for(int idx_nm=0;idx_nm<nbr_var_nm_lst;idx_nm++) var_nm_lst[idx_nm]=(char *)nco_free(var_nm_lst[idx_nm]);
+ var_nm_lst=(char **)nco_free(var_nm_lst);
+ grp_nm_fll=(char *)nco_free(grp_nm_fll);
-} /* end nco_dmn_lmt() */
+ } /* Loop sub-groups */
-void
-nco_nsm_dfn_wrt /* [fnc] Define OR write ensemble fixed variables */
-(const int nc_id, /* I [ID] netCDF input file ID */
- const int nc_out_id, /* I [ID] netCDF output file ID */
- const cnk_sct * const cnk, /* I [sct] Chunking structure */
- const int dfl_lvl, /* I [enm] Deflate level [0..9] */
- const gpe_sct * const gpe, /* I [sct] GPE structure */
- const nco_bool flg_def, /* [fnc] Define OR write */
- trv_tbl_sct * const trv_tbl) /* I/O [sct] Traversal table */
+ /* Clean up memory */
+ grp_ids=(int *)nco_free(grp_ids);
+ var_tpl_trv=(trv_sct **)nco_free(var_tpl_trv);
+
+ } /* Loop ensembles */
+
+} /* nco_chk_nsm() */
+
+
+void
+nco_nsm_att /* [fnc] Inquire if ensemble parent group has "ensemble" attribute (ncbo only) */
+(const int nc_id, /* I [id] netCDF file ID */
+ const trv_tbl_sct * const trv_tbl, /* I [sct] GTT (Group Traversal Table) */
+ nco_bool *flg_nsm_att) /* I/O [flg] "ensemble" attribute exists */
{
- const char fnc_nm[]="nco_nsm_dfn_wrt()"; /* [sng] Function name */
+ /* Purpose: Inquire if ensemble parent group has "ensemble" attribute (ncbo only) */
- char *grp_out_fll;
+ int grp_id; /* [id] Group ID */
+ int rcd; /* [rcd] Return code */
- /* ncge */
- if(nco_prg_id_get() == ncge){
+ nc_type att_typ; /* [nbr] Attribute type */
- int grp_id_in; /* [ID] Group ID */
- int grp_id_out; /* [ID] Group ID */
+ *flg_nsm_att=False;
- trv_sct trv_obj;
+ /* Loop ensemble group parents */
+ for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
+
+ /* Obtain output group ID using full group name */
+ (void)nco_inq_grp_full_ncid(nc_id,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,&grp_id);
- /* Loop table */
- for(unsigned int tbl_idx=0;tbl_idx<trv_tbl->nbr;tbl_idx++){
- trv_obj=trv_tbl->lst[tbl_idx];
+ /* Does attribute exist? */
+ rcd=nco_inq_att_flg(grp_id,NC_GLOBAL,"ensemble",&att_typ,(long *)NULL);
+ if(rcd == NC_NOERR){
+ *flg_nsm_att=True;
- /* Find ensemble parent group */
- if (trv_obj.flg_nsm_prn){
+ (void)fprintf(stdout,"%s: ATTRIBUTE ensemble <%s>\n",nco_prg_nm_get(),trv_tbl->nsm[idx_nsm].grp_nm_fll_prn);
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: INFO %s creating variables in ensemble parent group <%s>",nco_prg_nm_get(),fnc_nm,
- trv_obj.grp_nm_fll_prn);
- }
-
- /* Get output group */
-
- if(trv_tbl->nsm_sfx){
- /* Define new name by appending suffix (e.g., /cesm + _avg) */
- char *nm_fll_sfx=nco_bld_nsm_sfx(trv_obj.grp_nm_fll_prn,trv_tbl);
- /* Use then delete new name */
- if(gpe) grp_out_fll=nco_gpe_evl(gpe,nm_fll_sfx); else grp_out_fll=(char *)strdup(nm_fll_sfx);
- nm_fll_sfx=(char *)nco_free(nm_fll_sfx);
- }else{ /* Non suffix case */
- if(gpe) grp_out_fll=nco_gpe_evl(gpe,trv_obj.grp_nm_fll_prn); else grp_out_fll=(char *)strdup(trv_obj.grp_nm_fll_prn);
- } /* !trv_tbl->nsm_sfx */
-
- /* Define variables (fixed coordinate variables) in output file */
-
- if(trv_tbl->nsm_skp){
- for(int idx=0;idx<trv_tbl->nsm_skp->nbr;idx++){
- trv_sct *var_trv=trv_tbl_var_nm_fll(trv_tbl->nsm_skp->lst[idx].nm,trv_tbl);
-
- if (flg_def == True)
- (void)nco_cpy_var_dfn_trv(nc_id,nc_out_id,cnk,grp_out_fll,dfl_lvl,gpe,NULL,var_trv,trv_tbl);
- /* Obtain group IDs using full group name */
- (void)nco_inq_grp_full_ncid(nc_id,var_trv->grp_nm_fll,&grp_id_in);
- (void)nco_inq_grp_full_ncid(nc_out_id,grp_out_fll,&grp_id_out);
-
- /* Copy variable data (NB: var_trv contains variable) */
- if (flg_def == False)
- (void)nco_cpy_var_val_mlt_lmt_trv(grp_id_in,grp_id_out,(FILE *)NULL,NULL,var_trv);
- }
- }
+ }
- break;
- } /* Find ensemble parent group */
- } /* Loop table */
- } /* ncge */
+ } /* Loop ensemble group parents */
-} /* nco_nsm_dfn_wrt() */
+
+} /* nco_nsm_att() */
\ No newline at end of file
diff --git a/src/nco/nco_grp_utl.h b/src/nco/nco_grp_utl.h
index f42d2f6..f1c3f16 100644
--- a/src/nco/nco_grp_utl.h
+++ b/src/nco/nco_grp_utl.h
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_utl.h,v 1.461 2014/02/19 21:36:44 pvicente Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_utl.h,v 1.494 2014/03/29 20:48:00 pvicente Exp $ */
/* Purpose: Group utilities */
@@ -210,6 +210,12 @@ void
nco_xtr_dmn_mrk /* [fnc] Mark extracted dimensions */
(trv_tbl_sct * const trv_tbl); /* I/O [sct] GTT (Group Traversal Table) */
+nco_bool
+nco_pth_mth /* [fnc] Name component in full path matches user string */
+(char * const nm_fll, /* I [sng] Full name (path) */
+ char * const nm, /* I [sng] Name (relative) */
+ char * const usr_sng); /* [sng] User-supplied object name */
+
void
nco_xtr_grp_mrk /* [fnc] Mark extracted groups */
(trv_tbl_sct * const trv_tbl); /* I/O [sct] GTT (Group Traversal Table) */
@@ -304,7 +310,7 @@ void
nco_get_rec_dmn_nm /* [fnc] Return array of record names */
(const trv_sct * const var_trv, /* I [sct] Variable object */
const trv_tbl_sct * const trv_tbl, /* I [sct] GTT (Group Traversal Table) */
- nm_tbl_sct ** rec_dmn_nm); /* I/O [sct] Array of record names */
+ nm_lst_sct ** rec_dmn_nm); /* I/O [sct] Array of record names */
void
nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
@@ -355,7 +361,7 @@ nco_prc_cmn /* [fnc] Process objects (ncbo only) */
trv_sct * trv_2, /* I [sct] Table object */
trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
- nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ const nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False when write variables ) */
void
@@ -381,43 +387,6 @@ nco_pck_cpy_att /* [fnc] Inquire about copying packing at
const int nco_pck_plc, /* I [enm] Packing policy */
const var_sct * const var_prc); /* I [sct] Variable */
-nco_bool /* O [flg] True for match found */
-nco_rel_mch /* [fnc] Relative match of object in table 1 to table 2 */
-(const int nc_id_1, /* I [id] netCDF input-file ID from file 1 */
- const int nc_id_2, /* I [id] netCDF input-file ID from file 2 */
- const int nc_out_id, /* I [id] netCDF output-file ID */
- const cnk_sct * const cnk, /* I [sct] Chunking structure */
- const int dfl_lvl, /* I [enm] Deflate level [0..9] */
- const gpe_sct * const gpe, /* I [sct] GPE structure */
- gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
- int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
- const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
- const int nco_op_typ, /* I [enm] Operation type (command line -y) */
- trv_sct * var_trv, /* I [sct] Table variable object (can be from table 1 or 2) */
- nco_bool flg_tbl_1, /* I [flg] Table variable object is from table1 for True, otherwise is from table 2 */
- nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
- trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
- trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
- const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False when write variables ) */
-
-void
-nco_prc_cmn_nm /* [fnc] Process common objects from a common mames list */
-(const int nc_id_1, /* I [id] netCDF input-file ID */
- const int nc_id_2, /* I [id] netCDF input-file ID */
- const int nc_out_id, /* I [id] netCDF output-file ID */
- const cnk_sct * const cnk, /* I [sct] Chunking structure */
- const int dfl_lvl, /* I [enm] Deflate level [0..9] */
- const gpe_sct * const gpe, /* I [sct] GPE structure */
- gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
- int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
- const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
- const int nco_op_typ, /* I [enm] Operation type (command line -y) */
- trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
- trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
- const nco_cmn_t * const cmn_lst, /* I [sct] List of common names */
- const int nbr_cmn_nm, /* I [nbr] Number of common names entries */
- const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False when write variables ) */
-
void
nco_var_prc_fix_trv /* [fnc] Store processed and fixed variables info into GTT */
(const int nbr_var_prc, /* I [nbr] Number of processed variables */
@@ -577,6 +546,7 @@ nco_bld_trv_tbl /* [fnc] Construct GTT, Group Traversal Ta
const nco_bool flg_unn, /* I [flg] Select union of specified groups and variables */
const nco_bool EXCLUDE_INPUT_LIST, /* I [flg] Exclude rather than extract groups and variables specified with -v */
const nco_bool EXTRACT_ASSOCIATED_COORDINATES, /* I [flg] Extract all coordinates associated with extracted variables? */
+ const int nco_pck_plc, /* I [enm] Packing policy */
nco_dmn_dne_t **flg_dne, /* I/O [lst] Flag to check if input dimension -d "does not exist" */
trv_tbl_sct * const trv_tbl); /* I/O [sct] Traversal table */
@@ -660,21 +630,6 @@ nco_grp_var_lst /* [fnc] Export list of variable names fo
char ***nm_lst, /* I/O [sng] List of names */
int *nm_lst_nbr); /* I/O [nbr] Number of items in list */
-void
-nco_bld_nsm /* [fnc] Build ensembles */
-(const int nc_id, /* I [id] netCDF file ID */
- trv_tbl_sct * const trv_tbl); /* I/O [sct] Traversal table */
-
-void
-nco_nm_skp /* [fnc] Extract list of variable names to skip for template definition */
-(const int nc_id, /* I [ID] netCDF file ID */
- const char * const grp_nm_fll, /* I [sng] Group full name where all names reside */
- const nco_cmn_t *cmn_lst, /* I [sct] List of names (relative) */
- const int nbr_cmn_nm, /* I [nbr] Number of names (size of above array) */
- nco_cmn_t **skp_lst, /* I/O [sct] List of skip names (full) */
- int * nbr_skp_nm, /* I/O [nbr] Number of skip names (size of above array) */
- const trv_tbl_sct * const trv_tbl); /* I [sct] GTT (Group Traversal Table) */
-
char * /* O [sng] Name of variable */
nco_var_has_cf /* [fnc] Variable has CF-compliant information ("coordinates" or "bounds") */
(const int nc_id, /* I [ID] netCDF file ID */
@@ -775,24 +730,214 @@ nco_dmn_lmt /* [fnc] Convert a lmt_sct array to dmn_s
dmn_sct ***dmn); /* O [sct] dmn_sct array */
void
+nco_prn_nsm /* [fnc] Print ensembles */
+(const trv_tbl_sct * const trv_tbl); /* I [sct] Traversal table */
+
+
+
+void
+nco_bld_nsm /* [fnc] Build ensembles */
+(const int nc_id, /* I [id] netCDF file ID */
+ const nco_bool flg_fix_xtr, /* I [flg] Mark fized variables as extracted */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_pck_plc, /* I [enm] Packing policy */
+ trv_tbl_sct * const trv_tbl); /* I/O [sct] Traversal table */
+
+void
nco_nsm_dfn_wrt /* [fnc] Define OR write ensemble fixed variables */
(const int nc_id, /* I [ID] netCDF input file ID */
const int nc_out_id, /* I [ID] netCDF output file ID */
const cnk_sct * const cnk, /* I [sct] Chunking structure */
const int dfl_lvl, /* I [enm] Deflate level [0..9] */
const gpe_sct * const gpe, /* I [sct] GPE structure */
- const nco_bool flg_def, /* [fnc] Define OR write */
+ const nco_bool flg_def, /* I [flg] Define OR write */
trv_tbl_sct * const trv_tbl); /* I/O [sct] Traversal table */
-
void
nco_nsm_ncr /* [fnc] Increase ensembles (more than 1 file cases) */
(const int nc_id, /* I [id] netCDF file ID */
trv_tbl_sct * const trv_tbl); /* I/O [sct] Traversal table */
+
+nco_bool /* O [flg] True for match found */
+nco_prc_rel_mch /* [fnc] Relative match of object in table 1 to table 2 */
+(const int nc_id_1, /* I [id] netCDF input-file ID from file 1 */
+ const int nc_id_2, /* I [id] netCDF input-file ID from file 2 */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_sct * var_trv, /* I [sct] Table variable object (can be from table 1 or 2) */
+ const nco_bool flg_tbl_1, /* I [flg] Table variable object is from table1 for True, otherwise is from table 2 */
+ const nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False when write variables ) */
+
+
+void
+nco_cmn_var /* [fnc] Does the list of common names contain absolute variables match? */
+(const trv_tbl_sct * const trv_tbl_1, /* I [sct] GTT (Group Traversal Table) */
+ const trv_tbl_sct * const trv_tbl_2, /* I [sct] GTT (Group Traversal Table) */
+ const nco_cmn_t * const cmn_lst, /* I [sct] List of common names */
+ const int nbr_cmn_nm, /* I [nbr] Number of common names entries */
+ nco_bool *flg_cmn_abs, /* I/O [flg] Does the list of common names contain absolute variables match? */
+ nco_bool *flg_cmn_rel); /* I/O [flg] Does the list of common names contain relative variables match? */
+
+
+void
+nco_prc_cmn_var_nm_fll /* [fnc] Process (define, write) absolute variables in both files (same path) (ncbo) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_cmn_t * const cmn_lst, /* I [sct] List of common names */
+ const int nbr_cmn_nm, /* I [nbr] Number of common names entries */
+ const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False for write variables ) */
+
+void
+nco_grp_brd2 /* [fnc] Group broadcasting (ncbo only) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False for write variables ) */
+
+void
+nco_grp_brd /* [fnc] Group broadcasting (ncbo only) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False for write variables ) */
+
+
+void
+nco_cmn_nsm_var /* [fnc] Common variable exist in ensembles (ncbo only) */
+(nco_bool *flg_var_cmn, /* I/O [flg] Common variable exists */
+ nco_bool *flg_var_cmn_rth, /* I/O [flg] Common variable exists at root */
+ nm_lst_sct **var_nm, /* I/O [sct] Array of common variable names */
+ nm_lst_sct **var_nm_rth, /* I/O [sct] Array of common variable names at root */
+ const trv_tbl_sct * const trv_tbl_1, /* I [sct] GTT (Group Traversal Table) */
+ const trv_tbl_sct * const trv_tbl_2); /* I [sct] GTT (Group Traversal Table) */
+
+void
+nco_prc_cmn_nsm /* [fnc] Process (define, write) variables belonging to ensembles in both files (ncbo) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False for write variables ) */
+
+
+void
+nco_prc_nsm /* [fnc] Process (define, write) variables belonging to ensembles only in 1 file (ncbo) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nm_lst_sct * const var_lst, /* I [sct] Array of common variable names from file not having ensembles */
+ const nco_bool flg_grp_1, /* I [flg] Use table 1 as template for group creation on True, otherwise use table 2 */
+ const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False for write variables ) */
+
+void
+nco_fix_dfn_wrt /* [fnc] Define/write fixed variables (ncbo) */
+(const int nc_id, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ trv_sct * trv, /* I [sct] Table object */
+ trv_tbl_sct * const trv_tbl, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False when write variables ) */
+
+
+nco_bool /* O [flg] True for match found */
+nco_rel_mch /* [fnc] Relative match of object in table 1 to table 2 */
+(trv_sct * var_trv, /* I [sct] Table variable object (can be from table 1 or 2) */
+ const nco_bool flg_tbl_1, /* I [flg] Table variable object is from table1 for True, otherwise is from table 2 */
+ const trv_tbl_sct * const trv_tbl_1, /* I [sct] GTT (Group Traversal Table) */
+ const trv_tbl_sct * const trv_tbl_2); /* I [sct] GTT (Group Traversal Table) */
+
+
+void
+nco_prc_rel_cmn_nm /* [fnc] Process common relative objects from a common mames list (ncbo only) */
+(const int nc_id_1, /* I [id] netCDF input-file ID */
+ const int nc_id_2, /* I [id] netCDF input-file ID */
+ const int nc_out_id, /* I [id] netCDF output-file ID */
+ const cnk_sct * const cnk, /* I [sct] Chunking structure */
+ const int dfl_lvl, /* I [enm] Deflate level [0..9] */
+ const gpe_sct * const gpe, /* I [sct] GPE structure */
+ gpe_nm_sct *gpe_nm, /* I/O [sct] GPE name duplicate check array */
+ int nbr_gpe_nm, /* I/O [nbr] Number of GPE entries */
+ const nco_bool CNV_CCM_CCSM_CF, /* I [flg] File adheres to NCAR CCM/CCSM/CF conventions */
+ const int nco_op_typ, /* I [enm] Operation type (command line -y) */
+ trv_tbl_sct * const trv_tbl_1, /* I/O [sct] GTT (Group Traversal Table) */
+ trv_tbl_sct * const trv_tbl_2, /* I/O [sct] GTT (Group Traversal Table) */
+ const nco_cmn_t * const cmn_lst, /* I [sct] List of common names */
+ const int nbr_cmn_nm, /* I [nbr] Number of common names entries */
+ const nco_bool flg_dfn); /* I [flg] Action type (True for define variables, False when write variables ) */
+
+
void
-nco_prn_nsm /* [fnc] Print ensembles */
-(const trv_tbl_sct * const trv_tbl); /* I [sct] Traversal table */
+nco_chk_nsm /* [fnc] Check if ensembles are valid */
+(const int in_id, /* I [id] netCDF input-file ID of current file, starting with first */
+ const int fl_idx, /* I [nbr] Index of file loop */
+ const trv_tbl_sct * const trv_tbl); /* I [sct] GTT (Group Traversal Table) of *first* file */
+
+void
+nco_nsm_att /* [fnc] Inquire if ensemble parent group has "ensemble" attribute (ncbo only) */
+(const int nc_id, /* I [id] netCDF file ID */
+ const trv_tbl_sct * const trv_tbl, /* I [sct] GTT (Group Traversal Table) */
+ nco_bool *flg_nsm_att); /* I/O [flg] "ensemble" attribute exists */
+
#ifdef __cplusplus
} /* end extern "C" */
diff --git a/src/nco/nco_msa.c b/src/nco/nco_msa.c
index 7ec6471..8b16ec3 100644
--- a/src/nco/nco_msa.c
+++ b/src/nco/nco_msa.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_msa.c,v 1.238 2014/02/14 05:22:17 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_msa.c,v 1.243 2014/03/25 00:09:20 pvicente Exp $ */
/* Purpose: Multi-slabbing algorithm */
@@ -77,7 +77,7 @@ nco_msa_rcr_clc /* [fnc] Multi-slab algorithm (recursive routine, returns a sing
cp_fst=0L;
/* Deal first with wrapped dimensions
- True if wrapped dims or slabs DO NOT overlap or user-specified order */
+ True if wrapped dims or slabs DO NOT overlap or user-specified order */
if(lmt_lst[dpt_crr]->WRP || lmt_lst[dpt_crr]->MSA_USR_RDR){
for(slb_idx=0;slb_idx<nbr_slb;slb_idx++){
@@ -143,10 +143,12 @@ read_lbl:
{ /* begin potential OpenMP critical */
/* Check for stride */
if(var_sz > 0){ /* Allow for zero-size record variables TODO nco711 */
- if(srd_prd == 1L)
- (void)nco_get_vara(vara->nc_id,vara->id,dmn_srt,dmn_cnt,vp,vara->type);
- else
- (void)nco_get_varm(vara->nc_id,vara->id,dmn_srt,dmn_cnt,dmn_srd,(long *)NULL,vp,vara->type);
+ /* 20140304: User reported extreme slowdown accessing 3-D data with strides across DAP connection
+ Info from R. Signell and J. Whitaker suggests using nco_get_vars() instead of nco_get_varm() may be crucial
+ Tests bear this out: get_varm() is tortuously slow across DAP
+ Always use get_vars() for strides unless using full get_varm() mapping vector */
+ /* (void)nco_get_varm(vara->nc_id,vara->id,dmn_srt,dmn_cnt,dmn_srd,(long *)NULL,vp,vara->type); */
+ if(srd_prd == 1L) (void)nco_get_vara(vara->nc_id,vara->id,dmn_srt,dmn_cnt,vp,vara->type); else (void)nco_get_vars(vara->nc_id,vara->id,dmn_srt,dmn_cnt,dmn_srd,vp,vara->type);
} /* end if var_sz */
} /* end potential OpenMP critical */
@@ -305,7 +307,7 @@ nco_msa_ram_2_dsk /* Convert hyperslab indices (in RAM) to hyperlsab indices rel
size=lmt_msa[idx]->lmt_dmn_nbr;
if(dmn_sbs_ram[idx] == dmn_sbs_prv[idx]) continue;
- if(lmt_msa[idx]->BASIC_DMN){
+ if(lmt_msa[idx]->NON_HYP_DMN){
dmn_sbs_dsk[idx]=dmn_sbs_ram[idx];
continue;
}
@@ -569,7 +571,7 @@ nco_msa_lmt_all_ntl
lmt_all_crr->lmt_dmn_nbr=1;
lmt_all_crr->dmn_sz_org=dmn_sz;
lmt_all_crr->WRP=False;
- lmt_all_crr->BASIC_DMN=True;
+ lmt_all_crr->NON_HYP_DMN=True;
lmt_all_crr->MSA_USR_RDR=False;
lmt_all_crr->lmt_dmn[0]=(lmt_sct *)nco_malloc(sizeof(lmt_sct));
@@ -605,7 +607,7 @@ nco_msa_lmt_all_ntl
for(jdx=0;jdx<nbr_dmn_fl;jdx++){
if(!strcmp(lmt[idx]->nm,lmt_all_lst[jdx]->dmn_nm)){
lmt_all_crr=lmt_all_lst[jdx];
- lmt_all_crr->BASIC_DMN=False;
+ lmt_all_crr->NON_HYP_DMN=False;
if(lmt_all_crr->lmt_dmn[0]->lmt_typ == -1) {
/* Free defualt limit set above structure first */
lmt_all_crr->lmt_dmn[0]=(lmt_sct*)nco_lmt_free(lmt_all_crr->lmt_dmn[0]);
@@ -739,7 +741,7 @@ nco_msa_var_val_cpy /* [fnc] Copy variables data from input to output file */
if(srd_prd == 1L)
nco_put_vara(out_id,var[idx]->xrf->id,var[idx]->xrf->srt,var[idx]->xrf->cnt,var[idx]->val.vp,var[idx]->type);
else
- nco_put_varm(out_id,var[idx]->xrf->id,var[idx]->xrf->srt,var[idx]->xrf->cnt,var[idx]->xrf->srd,(long *)NULL,var[idx]->val.vp,var[idx]->type);
+ nco_put_vars(out_id,var[idx]->xrf->id,var[idx]->xrf->srt,var[idx]->xrf->cnt,var[idx]->xrf->srd,var[idx]->val.vp,var[idx]->type);
} /* end if var_sz */
} /* end if variable is an array */
@@ -1344,7 +1346,7 @@ nco_cpy_msa_lmt /* [fnc] Copy MSA struct from table to local
/* And copy the structure made while building limits */
(*lmt_msa)[dmn_idx_var]->dmn_nm=strdup(var_trv->var_dmn[dmn_idx_var].crd->nm);
- (*lmt_msa)[dmn_idx_var]->BASIC_DMN=var_trv->var_dmn[dmn_idx_var].crd->lmt_msa.BASIC_DMN;
+ (*lmt_msa)[dmn_idx_var]->NON_HYP_DMN=var_trv->var_dmn[dmn_idx_var].crd->lmt_msa.NON_HYP_DMN;
(*lmt_msa)[dmn_idx_var]->dmn_cnt=var_trv->var_dmn[dmn_idx_var].crd->lmt_msa.dmn_cnt;
(*lmt_msa)[dmn_idx_var]->dmn_sz_org=var_trv->var_dmn[dmn_idx_var].crd->sz;
(*lmt_msa)[dmn_idx_var]->lmt_dmn_nbr=var_trv->var_dmn[dmn_idx_var].crd->lmt_msa.lmt_dmn_nbr;
@@ -1399,7 +1401,7 @@ nco_cpy_msa_lmt /* [fnc] Copy MSA struct from table to local
/* And copy the structure made while building limits */
(*lmt_msa)[dmn_idx_var]->dmn_nm=strdup(var_trv->var_dmn[dmn_idx_var].ncd->nm);
- (*lmt_msa)[dmn_idx_var]->BASIC_DMN=var_trv->var_dmn[dmn_idx_var].ncd->lmt_msa.BASIC_DMN;
+ (*lmt_msa)[dmn_idx_var]->NON_HYP_DMN=var_trv->var_dmn[dmn_idx_var].ncd->lmt_msa.NON_HYP_DMN;
(*lmt_msa)[dmn_idx_var]->dmn_cnt=var_trv->var_dmn[dmn_idx_var].ncd->lmt_msa.dmn_cnt;
(*lmt_msa)[dmn_idx_var]->dmn_sz_org=var_trv->var_dmn[dmn_idx_var].ncd->sz;
(*lmt_msa)[dmn_idx_var]->lmt_dmn_nbr=var_trv->var_dmn[dmn_idx_var].ncd->lmt_msa.lmt_dmn_nbr;
@@ -1457,6 +1459,8 @@ nco_msa_var_get_trv /* [fnc] Get variable data from disk taking
var_sct *var_in, /* I/O [sct] Variable */
const trv_tbl_sct * const trv_tbl) /* I [sct] GTT (Group Traversal Table) */
{
+ const char fnc_nm[]="nco_msa_var_get_trv()"; /* [sng] Function name */
+
int nbr_dim;
int grp_id;
@@ -1495,6 +1499,23 @@ nco_msa_var_get_trv /* [fnc] Get variable data from disk taking
/* Copy from table to local MSA */
(void)nco_cpy_msa_lmt(var_trv,&lmt_msa);
+
+ if(nco_dbg_lvl_get() == nco_dbg_old){
+ (void)fprintf(stdout,"%s: DEBUG %s reading <%s>\n",nco_prg_nm_get(),fnc_nm,var_trv->nm_fll);
+ /* Loop dimensions */
+ for(int idx_dmn=0;idx_dmn<var_trv->nbr_dmn;idx_dmn++){
+ (void)fprintf(stdout,"%s: DEBUG %s <%s> elements %ld",nco_prg_nm_get(),fnc_nm,
+ lmt_msa[idx_dmn]->dmn_nm,lmt_msa[idx_dmn]->dmn_cnt);
+ for(int idx_lmt=0;idx_lmt<lmt_msa[idx_dmn]->lmt_dmn_nbr;idx_lmt++){
+ (void)fprintf(stdout," : %ld (%ld->%ld)",lmt_msa[idx_dmn]->lmt_dmn[idx_lmt]->cnt,
+ lmt_msa[idx_dmn]->lmt_dmn[idx_lmt]->srt,
+ lmt_msa[idx_dmn]->lmt_dmn[idx_lmt]->end);
+ }
+ (void)fprintf(stdout,"\n");
+ } /* Loop dimensions */
+ }
+
+
/* Call super-dooper recursive routine */
typ_tmp=var_in->type;
var_in->type=var_in->typ_dsk;
diff --git a/src/nco/nco_omp.c b/src/nco/nco_omp.c
index ba60d11..a90a241 100644
--- a/src/nco/nco_omp.c
+++ b/src/nco/nco_omp.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_omp.c,v 1.69 2014/02/19 22:22:28 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_omp.c,v 1.70 2014/03/16 06:29:43 pvicente Exp $ */
/* Purpose: OpenMP utilities */
@@ -75,7 +75,7 @@ nco_openmp_ini /* [fnc] Initialize OpenMP threading environment */
} /* endif err */
if(thr_nbr == 0)
- if(nco_dbg_lvl_get() >= nco_dbg_scl)
+ if(nco_dbg_lvl_get() >= nco_dbg_scl && nco_dbg_lvl_get() != nco_dbg_dev )
(void)fprintf(fp_stderr,"%s: INFO User did not specify thread request > 0 on command line. NCO will automatically assign threads based on OMP_NUM_THREADS environment and machine capabilities.\nHINT: Not specifiying any --thr_nbr (or specifying --thr_nbr=0) causes NCO to try to pick the optimal thread number. Specifying --thr_nbr=1 tells NCO to execute in Uni-Processor (UP) (i.e., single-threaded) mode.\n",nco_prg_nm_get());
if(thr_nbr > 0) USR_SPC_THR_RQS=True;
diff --git a/src/nco/nco_prn.c b/src/nco/nco_prn.c
index 02690ae..0b256a1 100644
--- a/src/nco/nco_prn.c
+++ b/src/nco/nco_prn.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_prn.c,v 1.218 2014/02/19 17:44:13 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_prn.c,v 1.219 2014/03/04 22:44:16 zender Exp $ */
/* Purpose: Print variables, attributes, metadata */
@@ -817,7 +817,7 @@ nco_prn_var_val_lmt /* [fnc] Print variable data */
/* Block is critical/thread-safe for identical/distinct in_id's */
{ /* begin potential OpenMP critical */
/* Retrieve this coordinate */
- if(dmn_srd[idx] == 1L) (void)nco_get_vara(in_id,dim[idx].cid,dmn_srt+idx,dmn_cnt+idx,dim[idx].val.vp,dim[idx].type); else nco_get_varm(in_id,dim[idx].cid,dmn_srt+idx,dmn_cnt+idx,dmn_srd+idx,(long *)NULL,dim[idx].val.vp,dim[idx].type);
+ if(dmn_srd[idx] == 1L) (void)nco_get_vara(in_id,dim[idx].cid,dmn_srt+idx,dmn_cnt+idx,dim[idx].val.vp,dim[idx].type); else nco_get_vars(in_id,dim[idx].cid,dmn_srt+idx,dmn_cnt+idx,dmn_srd+idx,dim[idx].val.vp,dim[idx].type);
} /* end potential OpenMP critical */
/* Typecast pointer to values before access */
@@ -849,7 +849,7 @@ nco_prn_var_val_lmt /* [fnc] Print variable data */
}else if(!SRD){
nco_get_vara(in_id,var.id,dmn_srt,dmn_cnt,var.val.vp,var.type);
}else if(SRD){
- nco_get_varm(in_id,var.id,dmn_srt,dmn_cnt,dmn_srd,(long *)NULL,var.val.vp,var.type);
+ nco_get_vars(in_id,var.id,dmn_srt,dmn_cnt,dmn_srd,var.val.vp,var.type);
} /* end else */
} /* end potential OpenMP critical */
diff --git a/src/nco/nco_scm.c b/src/nco/nco_scm.c
index 737e6d4..bca7d8e 100644
--- a/src/nco/nco_scm.c
+++ b/src/nco/nco_scm.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_scm.c,v 1.52 2013/12/31 05:14:02 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_scm.c,v 1.53 2014/03/04 16:59:24 zender Exp $ */
/* Purpose: Software configuration management */
@@ -30,7 +30,7 @@ cvs_vrs_prs(void) /* [fnc] Return CVS version string */
/* Unexpanded cvs keywords in cvs_Name trigger GCC 4.0+ warning
"./src/nco/nco_scm.c:81: warning: offset outside bounds of constant string"
because routine looks for cvs_Name+7 later on */
- char cvs_Name[]="$Name: nco-4_4_2 $";
+ char cvs_Name[]="$Name: nco-4_4_3 $";
const char dlr_nm_cln_spc[]="$Name: "; /* [sng] Dollar name colon space */
const char nco_sng[]="nco";
const char spc_dlr[]=" $"; /* [sng] Space dollar */
@@ -48,9 +48,9 @@ cvs_vrs_prs(void) /* [fnc] Return CVS version string */
/* Is cvs_Name keyword expanded? */
dlr_ptr=(char *)strstr(cvs_Name,spc_dlr);
- if(dlr_ptr == NULL && nco_dbg_lvl_get() > 3)(void)fprintf(stderr,"%s: INFO cvs_vrs_prs() reports dlr_ptr == NULL\n%s: HINT Make sure CVS export uses -kkv\n",nco_prg_nm_get(),nco_prg_nm_get());
+ if(dlr_ptr == NULL && nco_dbg_lvl_get() >= nco_dbg_io)(void)fprintf(stderr,"%s: INFO cvs_vrs_prs() reports dlr_ptr == NULL\n%s: HINT Make sure CVS export uses -kkv\n",nco_prg_nm_get(),nco_prg_nm_get());
cvs_nm_ptr=(char *)strstr(cvs_Name,dlr_nm_cln_spc);
- if(cvs_nm_ptr == NULL && nco_dbg_lvl_get() > 3)(void)fprintf(stderr,"%s: INFO cvs_vrs_prs() reports cvs_nm_ptr == NULL\n%s: HINT Make sure CVS export uses -kkv\n",nco_prg_nm_get(),nco_prg_nm_get());
+ if(cvs_nm_ptr == NULL && nco_dbg_lvl_get() > nco_dbg_io)(void)fprintf(stderr,"%s: INFO cvs_vrs_prs() reports cvs_nm_ptr == NULL\n%s: HINT Make sure CVS export uses -kkv\n",nco_prg_nm_get(),nco_prg_nm_get());
cvs_nm_sng_len=(int)(dlr_ptr-cvs_nm_ptr-strlen(dlr_nm_cln_spc)); /* 7 is strlen("$Name: ") */
if(cvs_nm_sng_len > 0) dly_snp=False; else dly_snp=True;
@@ -124,7 +124,7 @@ cvs_vrs_prs(void) /* [fnc] Return CVS version string */
(void)sprintf(cvs_vrs_sng,"%li.%li",cvs_mjr_vrs,cvs_mnr_vrs);
}/* end else */
- if(nco_dbg_lvl_get() == 4){
+ if(nco_dbg_lvl_get() >= nco_dbg_sbr){
(void)fprintf(stderr,"NCO version %s\n",cvs_vrs_sng);
(void)fprintf(stderr,"cvs_nm_sng %s\n",cvs_nm_sng);
(void)fprintf(stderr,"cvs_mjr_vrs_sng %s\n",cvs_mjr_vrs_sng);
diff --git a/src/nco/nco_var_lst.c b/src/nco/nco_var_lst.c
index 8cd9eca..0562c6f 100644
--- a/src/nco/nco_var_lst.c
+++ b/src/nco/nco_var_lst.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_var_lst.c,v 1.166 2014/01/03 06:04:07 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_var_lst.c,v 1.168 2014/03/27 18:25:16 pvicente Exp $ */
/* Purpose: Variable list utilities */
@@ -870,8 +870,7 @@ nco_var_lst_dvd /* [fnc] Divide input lists into output lists */
int idx_dmn;
int idx_xcl;
int var_op_typ[NC_MAX_VARS];
-
- nco_bool is_sz_rnk_prv_rth_opr; /* [flg] Size- and rank-preserving operator */
+
nco_bool var_typ_fnk=False; /* [flg] Variable type is too funky for arithmetic */ /* CEWI */
nc_type var_typ=NC_NAT; /* NC_NAT present in netcdf.h version netCDF 3.5+ */
@@ -890,9 +889,7 @@ nco_var_lst_dvd /* [fnc] Divide input lists into output lists */
var_fix=(var_sct **)nco_malloc(NC_MAX_VARS*sizeof(var_sct *));
var_fix_out=(var_sct **)nco_malloc(NC_MAX_VARS*sizeof(var_sct *));
var_prc=(var_sct **)nco_malloc(NC_MAX_VARS*sizeof(var_sct *));
- var_prc_out=(var_sct **)nco_malloc(NC_MAX_VARS*sizeof(var_sct *));
-
- is_sz_rnk_prv_rth_opr=nco_is_sz_rnk_prv_rth_opr(nco_prg_id,nco_pck_plc);
+ var_prc_out=(var_sct **)nco_malloc(NC_MAX_VARS*sizeof(var_sct *));
/* Find operation type for each variable: for now this is either fix or prc */
for(idx=0;idx<nbr_var;idx++){
@@ -1010,39 +1007,13 @@ nco_var_lst_dvd /* [fnc] Divide input lists into output lists */
if(var[idx]->sz == 0L) var_op_typ[idx]=fix_typ;
if(CNV_CCM_CCSM_CF){
- if(!strcmp(var_nm,"ntrm") || !strcmp(var_nm,"ntrn") || !strcmp(var_nm,"ntrk") || !strcmp(var_nm,"ndbase") || !strcmp(var_nm,"nsbase") || !strcmp(var_nm,"nbdate") || !strcmp(var_nm,"nbsec") || !strcmp(var_nm,"mdt") || !strcmp(var_nm,"mhisf")) var_op_typ[idx]=fix_typ;
- /* NB: all !strcmp()'s except "msk_" which uses strstr() */
- if(is_sz_rnk_prv_rth_opr && (!strcmp(var_nm,"hyam") || !strcmp(var_nm,"hybm") || !strcmp(var_nm,"hyai") || !strcmp(var_nm,"hybi") || !strcmp(var_nm,"gw") || !strcmp(var_nm,"lon_bnds") || !strcmp(var_nm,"lat_bnds") || !strcmp(var_nm,"area") || !strcmp(var_nm,"ORO") || !strcmp(var_nm,"date") || !strcmp(var_nm,"datesec") || (strstr(var_nm,"msk_") == var_nm))) var_op_typ[idx]=fix_typ;
- /* Known "multi-dimensional coordinates" in CCSM-like model output:
- lat, lon, lev are normally 1-D coordinates
- Known exceptions:
- lat and lon are "2-D coordinates" in NARCCAP output
- NARCCAP specifies lat and lon in "coordinates" attribute of 2-D fields
- latixy and longxy are "2-D coordinates" in CLM output
- CLM does not specify latixy and longxy in "coordinates" attribute of any fields
- NARCCAP output gives all "coordinate-like" fields an "axis" attribute
- This includes the record coordinate (i.e., "time") which both ncra and ncwa _should_ process
- CLM does not give an "axis" attribute to any fields
- One method of chasing down all "coordinate-like" fields is to look
- for the field name in the "coordinates" attribute of any variable.
- However, this will miss (false-negative) the case when no variables
- use an N-D coordinate-like variable as a coordinate.
- And this may hit (false-positive) the record coordinate (often "time")
- which should be averaged by ncra, though perhaps not by nces.
- "coordinate-like" variables that should be "fixed", and not
- differenced, interpolated, or ensemble-averaged, include those
- satisfying these conditions:
- 0. Traditional coordinate (1-D variable same name as its dimension)
- 1. Present in a "coordinates" attribute (except "time" for ncra)
- 2. Present in a "bounds" attribute (except "time_bnds" for ncra)
- 3. Contain an "axis" attribute (except "time") fxm not done yet
- 4. Found in empirical list of variables
- NB: In the above algorithm discussion, "time" is my shorthand
- for "the record variable, if any" */
-
- /* Conditions #1 and #2 are already implemented above in the case() statement */
- /* Check condition #4 above: */
- if(is_sz_rnk_prv_rth_opr && (!strcmp(var_nm,"lat") || !strcmp(var_nm,"lon") || !strcmp(var_nm,"lev") || !strcmp(var_nm,"longxy") || !strcmp(var_nm,"latixy") )) var_op_typ[idx]=fix_typ;
+
+ nco_bool var_is_fix; /* [fnc] Variable should be treated as a fixed variable */
+
+ var_is_fix=nco_var_is_fix(var_nm,nco_prg_id,nco_pck_plc);
+
+ if (var_is_fix) var_op_typ[idx]=fix_typ;
+
} /* end if CNV_CCM_CCSM_CF */
/* Warn about any expected weird behavior */
@@ -1147,15 +1118,12 @@ nco_var_lst_dvd_trv /* [fnc] Divide input lists into ou
int idx_xcl;
prc_typ_enm var_op_typ;
- nco_bool is_sz_rnk_prv_rth_opr; /* [flg] Size- and rank-preserving operator */
nco_bool var_typ_fnk=False; /* [flg] Variable type is too funky for arithmetic */
nc_type var_typ=NC_NAT; /* NC_NAT present in netcdf.h version netCDF 3.5+ */
nco_prg_id=nco_prg_id_get();
- is_sz_rnk_prv_rth_opr=nco_is_sz_rnk_prv_rth_opr(nco_prg_id,nco_pck_plc);
-
/* Initialize operation type to processed. Change to fixed where warranted later. */
var_op_typ=prc_typ;
var_nm=var->nm;
@@ -1256,39 +1224,13 @@ nco_var_lst_dvd_trv /* [fnc] Divide input lists into ou
var_op_typ=fix_typ;
if(CNV_CCM_CCSM_CF){
- if(!strcmp(var_nm,"ntrm") || !strcmp(var_nm,"ntrn") || !strcmp(var_nm,"ntrk") || !strcmp(var_nm,"ndbase") || !strcmp(var_nm,"nsbase") || !strcmp(var_nm,"nbdate") || !strcmp(var_nm,"nbsec") || !strcmp(var_nm,"mdt") || !strcmp(var_nm,"mhisf")) var_op_typ=fix_typ;
- /* NB: all !strcmp()'s except "msk_" which uses strstr() */
- if(is_sz_rnk_prv_rth_opr && (!strcmp(var_nm,"hyam") || !strcmp(var_nm,"hybm") || !strcmp(var_nm,"hyai") || !strcmp(var_nm,"hybi") || !strcmp(var_nm,"gw") || !strcmp(var_nm,"lon_bnds") || !strcmp(var_nm,"lat_bnds") || !strcmp(var_nm,"area") || !strcmp(var_nm,"ORO") || !strcmp(var_nm,"date") || !strcmp(var_nm,"datesec") || (strstr(var_nm,"msk_") == var_nm))) var_op_typ=fix_typ;
- /* Known "multi-dimensional coordinates" in CCSM-like model output:
- lat, lon, lev are normally 1-D coordinates
- Known exceptions:
- lat and lon are "2-D coordinates" in NARCCAP output
- NARCCAP specifies lat and lon in "coordinates" attribute of 2-D fields
- latixy and longxy are "2-D coordinates" in CLM output
- CLM does not specify latixy and longxy in "coordinates" attribute of any fields
- NARCCAP output gives all "coordinate-like" fields an "axis" attribute
- This includes the record coordinate (i.e., "time") which both ncra and ncwa _should_ process
- CLM does not give an "axis" attribute to any fields
- One method of chasing down all "coordinate-like" fields is to look
- for the field name in the "coordinates" attribute of any variable.
- However, this will miss (false-negative) the case when no variables
- use an N-D coordinate-like variable as a coordinate.
- And this may hit (false-positive) the record coordinate (often "time")
- which should be averaged by ncra, though perhaps not by nces.
- "coordinate-like" variables that should be "fixed", and not
- differenced, interpolated, or ensemble-averaged, include those
- satisfying these conditions:
- 0. Traditional coordinate (1-D variable same name as its dimension)
- 1. Present in a "coordinates" attribute (except "time" for ncra)
- 2. Present in a "bounds" attribute (except "time_bnds" for ncra)
- 3. Contain an "axis" attribute (except "time") fxm not done yet
- 4. Found in empirical list of variables
- NB: In the above algorithm discussion, "time" is my shorthand
- for "the record variable, if any" */
-
- /* Conditions #1 and #2 are already implemented above in the case() statement */
- /* Check condition #4 above: */
- if(is_sz_rnk_prv_rth_opr && (!strcmp(var_nm,"lat") || !strcmp(var_nm,"lon") || !strcmp(var_nm,"lev") || !strcmp(var_nm,"longxy") || !strcmp(var_nm,"latixy") )) var_op_typ=fix_typ;
+
+ nco_bool var_is_fix; /* [fnc] Variable should be treated as a fixed variable */
+
+ var_is_fix=nco_var_is_fix(var_nm,nco_prg_id,nco_pck_plc);
+
+ if (var_is_fix) var_op_typ=fix_typ;
+
} /* end if CNV_CCM_CCSM_CF */
/* Warn about any expected weird behavior */
@@ -1310,3 +1252,54 @@ nco_var_lst_dvd_trv /* [fnc] Divide input lists into ou
*prc=var_op_typ;
} /* end nco_var_lst_dvd_trv */
+
+nco_bool
+nco_var_is_fix /* [fnc] Variable should be treated as a fixed variable */
+(const char * const var_nm, /* I [sng] Variable name */
+ const int nco_prg_id, /* I [enm] Program key */
+ const int nco_pck_plc) /* I [enm] Packing policy */
+{
+ nco_bool var_is_fix; /* [fnc] Variable should be treated as a fixed variable (return value) */
+ nco_bool is_sz_rnk_prv_rth_opr; /* [flg] Size- and rank-preserving operator */
+
+ is_sz_rnk_prv_rth_opr=nco_is_sz_rnk_prv_rth_opr(nco_prg_id,nco_pck_plc);
+
+ var_is_fix=False;
+
+ if(!strcmp(var_nm,"ntrm") || !strcmp(var_nm,"ntrn") || !strcmp(var_nm,"ntrk") || !strcmp(var_nm,"ndbase") || !strcmp(var_nm,"nsbase") || !strcmp(var_nm,"nbdate") || !strcmp(var_nm,"nbsec") || !strcmp(var_nm,"mdt") || !strcmp(var_nm,"mhisf")) var_is_fix=True;
+ /* NB: all !strcmp()'s except "msk_" which uses strstr() */
+ if(is_sz_rnk_prv_rth_opr && (!strcmp(var_nm,"hyam") || !strcmp(var_nm,"hybm") || !strcmp(var_nm,"hyai") || !strcmp(var_nm,"hybi") || !strcmp(var_nm,"gw") || !strcmp(var_nm,"lon_bnds") || !strcmp(var_nm,"lat_bnds") || !strcmp(var_nm,"area") || !strcmp(var_nm,"ORO") || !strcmp(var_nm,"date") || !strcmp(var_nm,"datesec") || (strstr(var_nm,"msk_") == var_nm))) var_is_fix=True;
+ /* Known "multi-dimensional coordinates" in CCSM-like model output:
+ lat, lon, lev are normally 1-D coordinates
+ Known exceptions:
+ lat and lon are "2-D coordinates" in NARCCAP output
+ NARCCAP specifies lat and lon in "coordinates" attribute of 2-D fields
+ latixy and longxy are "2-D coordinates" in CLM output
+ CLM does not specify latixy and longxy in "coordinates" attribute of any fields
+ NARCCAP output gives all "coordinate-like" fields an "axis" attribute
+ This includes the record coordinate (i.e., "time") which both ncra and ncwa _should_ process
+ CLM does not give an "axis" attribute to any fields
+ One method of chasing down all "coordinate-like" fields is to look
+ for the field name in the "coordinates" attribute of any variable.
+ However, this will miss (false-negative) the case when no variables
+ use an N-D coordinate-like variable as a coordinate.
+ And this may hit (false-positive) the record coordinate (often "time")
+ which should be averaged by ncra, though perhaps not by nces.
+ "coordinate-like" variables that should be "fixed", and not
+ differenced, interpolated, or ensemble-averaged, include those
+ satisfying these conditions:
+ 0. Traditional coordinate (1-D variable same name as its dimension)
+ 1. Present in a "coordinates" attribute (except "time" for ncra)
+ 2. Present in a "bounds" attribute (except "time_bnds" for ncra)
+ 3. Contain an "axis" attribute (except "time") fxm not done yet
+ 4. Found in empirical list of variables
+ NB: In the above algorithm discussion, "time" is my shorthand
+ for "the record variable, if any" */
+
+ /* Conditions #1 and #2 are already implemented above in the case() statement */
+ /* Check condition #4 above: */
+ if(is_sz_rnk_prv_rth_opr && (!strcmp(var_nm,"lat") || !strcmp(var_nm,"lon") || !strcmp(var_nm,"lev") || !strcmp(var_nm,"longxy") || !strcmp(var_nm,"latixy") )) var_is_fix=True;
+
+ return var_is_fix;
+
+} /* nco_var_is_fix() */
diff --git a/src/nco/nco_var_lst.h b/src/nco/nco_var_lst.h
index 426959f..c8d5257 100644
--- a/src/nco/nco_var_lst.h
+++ b/src/nco/nco_var_lst.h
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_var_lst.h,v 1.73 2014/01/06 06:46:05 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_var_lst.h,v 1.75 2014/03/27 18:25:16 pvicente Exp $ */
/* Purpose: Variable list utilities */
@@ -142,7 +142,11 @@ nco_var_lst_dvd_trv /* [fnc] Divide input lists into ou
const int nbr_dmn_xcl, /* I [nbr] Number of altered dimensions */
prc_typ_enm *prc); /* O [enm] Processing type */
-
+nco_bool
+nco_var_is_fix /* [fnc] Variable should be treated as a fixed variable */
+(const char * const var_nm, /* I [sng] Variable name */
+ const int nco_prg_id, /* I [enm] Program key */
+ const int nco_pck_plc); /* I [enm] Packing policy */
diff --git a/src/nco/nco_var_utl.c b/src/nco/nco_var_utl.c
index cfc321f..d0980db 100644
--- a/src/nco/nco_var_utl.c
+++ b/src/nco/nco_var_utl.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_var_utl.c,v 1.357 2014/02/14 05:22:17 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_var_utl.c,v 1.358 2014/03/04 22:44:16 zender Exp $ */
/* Purpose: Variable utilities */
@@ -550,7 +550,7 @@ nco_cpy_var_val_lmt /* [fnc] Copy variable data from input to output file, simpl
nco_put_var1(out_id,var_out_id,0L,void_ptr,var_typ);
if(fp_bnr) nco_bnr_wrt(fp_bnr,var_nm,var_sz,var_typ,void_ptr);
}else if(!WRP){ /* Copy contiguous array */
- if(!SRD) nco_get_vara(in_id,var_in_id,dmn_in_srt,dmn_cnt,void_ptr,var_typ); else nco_get_varm(in_id,var_in_id,dmn_in_srt,dmn_cnt,dmn_srd,(long *)NULL,void_ptr,var_typ);
+ if(!SRD) nco_get_vara(in_id,var_in_id,dmn_in_srt,dmn_cnt,void_ptr,var_typ); else nco_get_vars(in_id,var_in_id,dmn_in_srt,dmn_cnt,dmn_srd,void_ptr,var_typ);
nco_put_vara(out_id,var_out_id,dmn_out_srt,dmn_cnt,void_ptr,var_typ);
if(fp_bnr) nco_bnr_wrt(fp_bnr,var_nm,var_sz,var_typ,void_ptr);
}else if(WRP){ /* Copy wrapped array */
@@ -681,10 +681,10 @@ nco_cpy_var_val_lmt /* [fnc] Copy variable data from input to output file, simpl
(void)nco_put_vara(out_id,var_out_id,dmn_out_srt_2,dmn_cnt_2,void_ptr,var_typ);
if(fp_bnr) nco_bnr_wrt(fp_bnr,var_nm,var_sz,var_typ,void_ptr);
}else{ /* SRD */
- (void)nco_get_varm(in_id,var_in_id,dmn_in_srt_1,dmn_cnt_1,dmn_srd,(long *)NULL,void_ptr,var_typ);
+ (void)nco_get_vars(in_id,var_in_id,dmn_in_srt_1,dmn_cnt_1,dmn_srd,void_ptr,var_typ);
(void)nco_put_vara(out_id,var_out_id,dmn_out_srt_1,dmn_cnt_1,void_ptr,var_typ);
if(fp_bnr) nco_bnr_wrt(fp_bnr,var_nm,var_sz,var_typ,void_ptr);
- (void)nco_get_varm(in_id,var_in_id,dmn_in_srt_2,dmn_cnt_2,dmn_srd,(long *)NULL,void_ptr,var_typ);
+ (void)nco_get_vars(in_id,var_in_id,dmn_in_srt_2,dmn_cnt_2,dmn_srd,void_ptr,var_typ);
(void)nco_put_vara(out_id,var_out_id,dmn_out_srt_2,dmn_cnt_2,void_ptr,var_typ);
if(fp_bnr) nco_bnr_wrt(fp_bnr,var_nm,var_sz,var_typ,void_ptr);
} /* end else SRD */
@@ -841,7 +841,7 @@ nco_var_get /* [fnc] Allocate, retrieve variable hyperslab from disk to memory *
else
(void)nco_get_var1(nc_id,var->id,var->srt,var->val.vp,var->typ_dsk);
}else{
- (void)nco_get_varm(nc_id,var->id,var->srt,var->cnt,var->srd,(long *)NULL,var->val.vp,var->typ_dsk);
+ (void)nco_get_vars(nc_id,var->id,var->srt,var->cnt,var->srd,var->val.vp,var->typ_dsk);
} /* endif non-unity stride */
} /* end potential OpenMP critical */
@@ -1275,8 +1275,8 @@ nco_var_val_cpy /* [fnc] Copy variables data from input to output file */
nco_get_vara(in_id,var[idx]->id,var[idx]->srt,var[idx]->cnt,var[idx]->val.vp,var[idx]->type);
nco_put_vara(out_id,var[idx]->xrf->id,var[idx]->xrf->srt,var[idx]->xrf->cnt,var[idx]->xrf->val.vp,var[idx]->type);
}else{
- (void)nco_get_varm(in_id,var[idx]->id,var[idx]->srt,var[idx]->cnt,var[idx]->srd,(long *)NULL,var[idx]->val.vp,var[idx]->type);
- (void)nco_put_varm(out_id,var[idx]->xrf->id,var[idx]->xrf->srt,var[idx]->xrf->cnt,var[idx]->xrf->srd,(long *)NULL,var[idx]->xrf->val.vp,var[idx]->type);
+ (void)nco_get_vars(in_id,var[idx]->id,var[idx]->srt,var[idx]->cnt,var[idx]->srd,var[idx]->val.vp,var[idx]->type);
+ (void)nco_put_vars(out_id,var[idx]->xrf->id,var[idx]->xrf->srt,var[idx]->xrf->cnt,var[idx]->xrf->srd,var[idx]->xrf->val.vp,var[idx]->type);
} /* endif variable has non-unity stride */
} /* end if var_sz */
} /* end if variable is an array */
diff --git a/src/nco/ncpdq.c b/src/nco/ncpdq.c
index 972d03f..4699dbb 100644
--- a/src/nco/ncpdq.c
+++ b/src/nco/ncpdq.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncpdq.c,v 1.391 2014/02/11 16:17:24 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncpdq.c,v 1.392 2014/03/27 19:19:30 pvicente Exp $ */
/* ncpdq -- netCDF pack, re-dimension, query */
@@ -120,8 +120,8 @@ main(int argc,char **argv)
char scl_fct_sng[]="scale_factor"; /* [sng] Unidata standard string for scale factor */
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncpdq.c,v 1.391 2014/02/11 16:17:24 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.391 $";
+ const char * const CVS_Id="$Id: ncpdq.c,v 1.392 2014/03/27 19:19:30 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.392 $";
const char * const opt_sht_lst="3467Aa:CcD:d:Fg:G:hL:l:M:Oo:P:p:Rrt:v:UxZ-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -538,7 +538,7 @@ main(int argc,char **argv)
(void)nco_inq_format(in_id,&fl_in_fmt);
/* Construct GTT, Group Traversal Table (groups,variables,dimensions, limits) */
- (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne,trv_tbl);
+ (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne,trv_tbl);
/* Check if all input -d dimensions were found */
(void)nco_chk_dmn(lmt_nbr,flg_dne);
diff --git a/src/nco/ncra.c b/src/nco/ncra.c
index 5c57731..e043b67 100644
--- a/src/nco/ncra.c
+++ b/src/nco/ncra.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncra.c,v 1.515 2014/02/19 15:04:13 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncra.c,v 1.528 2014/03/29 20:11:29 pvicente Exp $ */
/* This single source file compiles into three separate executables:
ncra -- netCDF record averager
@@ -51,8 +51,8 @@
nces -O -n 3,4,1 -p ${HOME}/nco/data -l ${HOME} h0001.nc ~/foo.nc
nces -O -n 3,4,1 -p /ZENDER/tmp -l ${HOME} h0001.nc ~/foo.nc
- ncra -Y ncge -O -p ~/nco/data mdl.nc ~/foo.nc
- ncra -Y ncge -O --nsm_sfx=_avg -p ~/nco/data mdl.nc ~/foo.nc */
+ ncra -Y ncge -O -p ~/nco/data mdl_1.nc ~/foo.nc
+ ncra -Y ncge -O --nsm_sfx=_avg -p ~/nco/data mdl_1.nc ~/foo.nc */
#ifdef HAVE_CONFIG_H
# include <config.h> /* Autotools tokens */
@@ -137,8 +137,8 @@ main(int argc,char **argv)
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncra.c,v 1.515 2014/02/19 15:04:13 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.515 $";
+ const char * const CVS_Id="$Id: ncra.c,v 1.528 2014/03/29 20:11:29 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.528 $";
const char * const opt_sht_lst="3467ACcD:d:FG:g:HhL:l:n:Oo:p:P:rRt:v:X:xY:y:-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -633,7 +633,7 @@ main(int argc,char **argv)
trv_tbl_init(&trv_tbl);
/* Construct GTT, Group Traversal Table (groups,variables,dimensions, limits) */
- (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,var_lst_in_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne,trv_tbl);
+ (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,var_lst_in_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne,trv_tbl);
/* Check if all input -d dimensions were found */
(void)nco_chk_dmn(lmt_nbr,flg_dne);
@@ -735,9 +735,9 @@ main(int argc,char **argv)
/* Add cell_methods attributes (pass as dimension argument a records-only array) */
if(flg_cll_mth){
if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: DEBUG dimension list to nco_cnv_cf_cll_mth_add()\n",nco_prg_nm_get());
- for(idx=0;idx<nbr_dmn;idx++) (void)fprintf(stdout,"%s: DEBUG %s\n",nco_prg_nm_get(),dmn[idx]->nm);
- for(idx=0;idx<nbr_var_prc;idx++) (void)fprintf(stdout,"%s: DEBUG %s\n",nco_prg_nm_get(),var_prc_out[idx]->nm_fll);
+ (void)fprintf(stdout,"%s: DEBUG dimension list to nco_cnv_cf_cll_mth_add()\n",nco_prg_nm_get());
+ for(idx=0;idx<nbr_dmn;idx++) (void)fprintf(stdout,"%s: DEBUG %s\n",nco_prg_nm_get(),dmn[idx]->nm);
+ for(idx=0;idx<nbr_var_prc;idx++) (void)fprintf(stdout,"%s: DEBUG %s\n",nco_prg_nm_get(),var_prc_out[idx]->nm_fll);
} /* endif dbg */
rcd+=nco_cnv_cf_cll_mth_add(out_id,var_prc_out,nbr_var_prc,dmn,nbr_dmn,nco_op_typ,gpe,trv_tbl);
} /* !flg_cll_mth */
@@ -802,7 +802,11 @@ main(int argc,char **argv)
/* Do ncge ensemble refresh */
if(nco_prg_id == ncge){
/* Refresh ensembles */
- if(fl_idx > 0) (void)nco_nsm_ncr(in_id,trv_tbl);
+ if(fl_idx > 0) (void)nco_nsm_ncr(in_id,trv_tbl);
+
+ /* Check if ensembles are valid */
+ (void)nco_chk_nsm(in_id,fl_idx,trv_tbl);
+
}else{ /* ! ncge */
/* Variables may have different ID, missing_value, type, in each file */
for(idx=0;idx<nbr_var_prc;idx++){
@@ -1129,10 +1133,10 @@ main(int argc,char **argv)
trv_tbl_init(&trv_tbl1);
/* Construct GTT using current file ID */
- (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,var_lst_in_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne,trv_tbl1);
+ (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,var_lst_in_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne,trv_tbl1);
/* Check if all input -d dimensions were found */
- (void)nco_chk_dmn(lmt_nbr,flg_dne);
+ (void)nco_chk_dmn(lmt_nbr,flg_dne);
/* Loop over ensembles in current file */
for(int idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++){
@@ -1156,7 +1160,7 @@ main(int argc,char **argv)
if(strcmp(var_trv->nsm_nm,trv_tbl->nsm[idx_nsm].grp_nm_fll_prn)) continue;
/* Build new variable name */
- char *grp_nm_fll=trv_tbl->nsm[idx_nsm].grp_mbr_fll[idx_mbr];
+ char *grp_nm_fll=trv_tbl->nsm[idx_nsm].mbr[idx_mbr].mbr_nm_fll;
char *var_nm_fll=nco_bld_nm_fll(grp_nm_fll,var_prc[idx_prc]->nm);;
char *nm_fll=strdup(var_prc[idx_prc]->nm_fll);
@@ -1290,6 +1294,40 @@ main(int argc,char **argv)
if(nco_pck_plc == nco_pck_plc_all_new_att) var_prc_out[idx]=nco_put_var_pck(grp_out_id,var_prc_out[idx],nco_pck_plc);
if(var_prc_out[idx]->nbr_dim == 0) (void)nco_put_var1(grp_out_id,var_prc_out[idx]->id,var_prc_out[idx]->srt,var_prc_out[idx]->val.vp,var_prc_out[idx]->type); else (void)nco_put_vara(grp_out_id,var_prc_out[idx]->id,var_prc_out[idx]->srt,var_prc_out[idx]->cnt,var_prc_out[idx]->val.vp,var_prc_out[idx]->type);
+ /* For ncge, save helpful metadata for later handling by ncbo */
+ if(nco_prg_id == ncge){
+
+ aed_sct aed; /* [sct] Structure containing information necessary to edit */
+
+ /* Initialize attribute-edit structure for this variable */
+ aed.att_nm=strdup("ensemble");
+ aed.type=NC_CHAR;
+ aed.var_nm=var_prc_out[idx]->nm;
+ aed.id=var_out_id;
+ aed.sz=strlen("average");
+ aed.val.cp=(char *)nco_malloc((aed.sz+1L)*sizeof(char));
+ (void)strcpy(aed.val.cp,"average");
+ aed.mode=aed_create;
+
+ /* Create attribute to note ensenmble average */
+ (void)nco_aed_prc(grp_out_id,var_out_id,aed);
+
+ aed.var_nm=NULL;
+ aed.id=NC_GLOBAL;
+ (void)nco_aed_prc(grp_out_id,NC_GLOBAL,aed);
+
+ /* Build variable name */
+ char *var_nm_fll=nco_bld_nm_fll(grp_out_fll,var_prc_out[idx]->nm);;
+ if(nco_dbg_lvl_get() >= nco_dbg_fl){
+ (void)fprintf(stdout,"%s: <variable %d> <%s>\n",nco_prg_nm_get(),idx,var_nm_fll);
+ }
+ /* Free built variable name */
+ var_nm_fll=(char *)nco_free(var_nm_fll);
+ if(aed.att_nm) aed.att_nm=(char *)nco_free(aed.att_nm);
+ if(aed.val.cp) aed.val.cp=(char *)nco_free(aed.val.cp);
+
+ } /* ncge */
+
/* Memory management after current extracted group */
if(grp_out_fll) grp_out_fll=(char *)nco_free(grp_out_fll);
} /* end loop over idx */
diff --git a/src/nco/ncrename.c b/src/nco/ncrename.c
index 3a58727..be7cb01 100644
--- a/src/nco/ncrename.c
+++ b/src/nco/ncrename.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncrename.c,v 1.191 2014/02/05 23:27:26 pvicente Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncrename.c,v 1.192 2014/03/27 19:19:30 pvicente Exp $ */
/* ncrename -- netCDF renaming operator */
@@ -100,8 +100,8 @@ main(int argc,char **argv)
char var_nm[NC_MAX_NAME+1];
- const char * const CVS_Id="$Id: ncrename.c,v 1.191 2014/02/05 23:27:26 pvicente Exp $";
- const char * const CVS_Revision="$Revision: 1.191 $";
+ const char * const CVS_Id="$Id: ncrename.c,v 1.192 2014/03/27 19:19:30 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.192 $";
const char * const opt_sht_lst="a:D:d:g:hl:Oo:p:rv:-:";
const char dlm_chr='@'; /* Character delimiting variable from attribute name */
const char opt_chr='.'; /* Character indicating presence of following variable/dimension/attribute in file is optional */
@@ -336,7 +336,7 @@ main(int argc,char **argv)
trv_tbl_init(&trv_tbl);
/* Construct GTT (Group Traversal Table), check -v and -g input names and create extraction list*/
- (void)nco_bld_trv_tbl(nc_id,trv_pth,(int)0,NULL,(int)0,NULL,False,False,NULL,(int)0,NULL,(int) 0,False,False,False,True,NULL,trv_tbl);
+ (void)nco_bld_trv_tbl(nc_id,trv_pth,(int)0,NULL,(int)0,NULL,False,False,NULL,(int)0,NULL,(int) 0,False,False,False,True,nco_pck_plc_nil,NULL,trv_tbl);
/* Loop input variable names */
for(int idx_var=0;idx_var<nbr_var_rnm;idx_var++){
diff --git a/src/nco/ncwa.c b/src/nco/ncwa.c
index 29b65e5..13c48c4 100644
--- a/src/nco/ncwa.c
+++ b/src/nco/ncwa.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncwa.c,v 1.409 2014/02/17 23:12:39 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncwa.c,v 1.410 2014/03/27 19:19:30 pvicente Exp $ */
/* ncwa -- netCDF weighted averager */
@@ -134,8 +134,8 @@ main(int argc,char **argv)
char *wgt_nm=NULL;
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncwa.c,v 1.409 2014/02/17 23:12:39 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.409 $";
+ const char * const CVS_Id="$Id: ncwa.c,v 1.410 2014/03/27 19:19:30 pvicente Exp $";
+ const char * const CVS_Revision="$Revision: 1.410 $";
const char * const opt_sht_lst="3467Aa:B:bCcD:d:Fg:G:hIL:l:M:m:nNOo:p:rRT:t:v:Ww:xy:-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -624,7 +624,7 @@ main(int argc,char **argv)
(void)nco_inq_format(in_id,&fl_in_fmt);
/* Construct GTT, Group Traversal Table (groups,variables,dimensions, limits) */
- (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,&flg_dne,trv_tbl);
+ (void)nco_bld_trv_tbl(in_id,trv_pth,lmt_nbr,lmt_arg,aux_nbr,aux_arg,MSA_USR_RDR,FORTRAN_IDX_CNV,grp_lst_in,grp_lst_in_nbr,var_lst_in,xtr_nbr,EXTRACT_ALL_COORDINATES,GRP_VAR_UNN,EXCLUDE_INPUT_LIST,EXTRACT_ASSOCIATED_COORDINATES,nco_pck_plc_nil,&flg_dne,trv_tbl);
/* Get number of variables, dimensions, and global attributes in file, file format */
(void)trv_tbl_inq((int *)NULL,(int *)NULL,(int *)NULL,&nbr_dmn_fl,(int *)NULL,(int *)NULL,(int *)NULL,(int *)NULL,&nbr_var_fl,trv_tbl);
diff --git a/src/nco_c++/Makefile.in b/src/nco_c++/Makefile.in
index 49be990..377e5ac 100644
--- a/src/nco_c++/Makefile.in
+++ b/src/nco_c++/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/src/nco_c++/Makefile.in,v 1.111 2014/01/30 07:10:11 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/nco_c++/Makefile.in,v 1.113 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
--
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