[nco] 15/32: Imported Upstream version 4.4.7
Bas Couwenberg
sebastic at xs4all.nl
Mon Jan 19 00:00:37 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 530a782ad8aeb409aaa89bc5472dfbe8bbd35b52
Author: Bas Couwenberg <sebastic at xs4all.nl>
Date: Sun Jan 18 16:39:38 2015 +0100
Imported Upstream version 4.4.7
---
Makefile.in | 4 +-
bld/Makefile | 59 +-
bld/nco.spec | 13 +-
bld/nco_dst.pl | 34 +-
bm/NCO_rgr.pm | 676 ++-
configure | 45 +-
configure.ac | 18 +-
data/Makefile.am | 9 +-
data/Makefile.in | 11 +-
data/cnk.cdl | 56 +
data/hdn.cdl | 37 +
data/in.cdl | 33 +-
doc/ANNOUNCE | 246 +-
doc/ChangeLog | 140 +-
doc/MANIFEST | 26 +-
doc/Makefile.in | 2 +-
doc/TAG | 2 +-
doc/VERSION | 2 +-
doc/debian.txt | 170 +-
doc/doe.jpg | Bin 0 -> 20906 bytes
doc/index.shtml | 104 +-
doc/nco.dvi | Bin 1333232 -> 1344368 bytes
doc/nco.html | 487 +-
doc/nco.pdf | Bin 1224002 -> 1231564 bytes
doc/nco.ps | 11135 ++++++++++++++++++-----------------
doc/nco.texi | 296 +-
doc/nco.txt | 3353 ++++++-----
doc/nco.xml | 2558 ++++----
doc/nco_news.shtml | 4 +-
doc/nco_src_frg.txt | 4 +-
doc/xmp/cmb_fl_grp.sh | 16 +-
man/Makefile.in | 4 +-
man/ncbo.1 | 6 +-
man/ncecat.1 | 6 +-
man/nces.1 | 6 +-
man/ncflint.1 | 16 +-
man/ncks.1 | 6 +-
man/ncpdq.1 | 6 +-
man/ncra.1 | 6 +-
man/ncrcat.1 | 6 +-
man/ncwa.1 | 6 +-
qt/libnco/libnco.vcxproj | 2 +-
qt/libnco_c++/libnco_c++.vcxproj | 2 +-
qt/ncap2/ncap2.vcxproj | 4 +-
qt/ncatted/ncatted.vcxproj | 4 +-
qt/ncbo/ncbo.vcxproj | 4 +-
qt/ncea/ncea.vcxproj | 4 +-
qt/ncecat/ncecat.vcxproj | 4 +-
qt/ncflint/ncflint.vcxproj | 4 +-
qt/ncks/ncks.vcxproj | 2 +-
qt/nco.pri | 2 -
qt/ncpdq/ncpdq.vcxproj | 4 +-
qt/ncra/ncra.vcxproj | 4 +-
qt/ncrcat/ncrcat.vcxproj | 4 +-
qt/ncrename/ncrename.vcxproj | 4 +-
qt/ncwa/ncwa.vcxproj | 4 +-
qt/tst_nco_c++/tst_nco_c++.vcxproj | 4 +-
src/Makefile.in | 4 +-
src/nco++/Makefile.in | 4 +-
src/nco++/Makefile.old | 22 +-
src/nco++/fmc_all_cls.cc | 19 +-
src/nco++/ncap2.cc | 28 +-
src/nco++/ncap2_utl.cc | 37 +-
src/nco++/ncoLexer.hpp | 2 +-
src/nco++/ncoParser.hpp | 2 +-
src/nco++/ncoTree.hpp | 2 +-
src/nco++/prs_cls.hh | 6 +-
src/nco/Makefile.in | 4 +-
src/nco/mpncbo.c | 24 +-
src/nco/mpncecat.c | 24 +-
src/nco/mpncflint.c | 24 +-
src/nco/mpncpdq.c | 24 +-
src/nco/mpncra.c | 24 +-
src/nco/mpncwa.c | 24 +-
src/nco/ncap.c | 23 +-
src/nco/ncap_yacc.y | 4 +-
src/nco/ncatted.c | 13 +-
src/nco/ncbo.c | 25 +-
src/nco/ncecat.c | 23 +-
src/nco/ncflint.c | 23 +-
src/nco/ncks.c | 23 +-
src/nco/nco.h | 93 +-
src/nco/nco_aux.c | 54 +-
src/nco/nco_cnk.c | 372 +-
src/nco/nco_cnk.h | 7 +-
src/nco/nco_ctl.c | 37 +-
src/nco/nco_fl_utl.c | 6 +-
src/nco/nco_grp_utl.c | 1063 ++--
src/nco/nco_lmt.c | 19 +-
src/nco/nco_msa.c | 4 +-
src/nco/nco_netcdf.c | 6 +-
src/nco/nco_prn.c | 14 +-
src/nco/nco_scm.c | 15 +-
src/nco/nco_sng_utl.c | 15 +-
src/nco/ncpdq.c | 215 +-
src/nco/ncra.c | 23 +-
src/nco/ncrename.c | 39 +-
src/nco/ncwa.c | 23 +-
src/nco_c++/Makefile.in | 4 +-
src/nco_c++/Makefile.old | 12 +-
100 files changed, 11855 insertions(+), 10238 deletions(-)
diff --git a/Makefile.in b/Makefile.in
index 4ec2faa..a4c554d 100644
--- a/Makefile.in
+++ b/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/Makefile.in,v 1.145 2014/04/02 05:40:21 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/Makefile.in,v 1.146 2014/10/22 18:47:06 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
am__is_gnu_make = test -n '$(MAKEFILE_LIST)' && test -n '$(MAKELEVEL)'
am__make_running_with_option = \
@@ -262,9 +262,9 @@ MANIFEST_TOOL = @MANIFEST_TOOL@
MKDIR_P = @MKDIR_P@
NCOXX = @NCOXX@
NCO_CXX = @NCO_CXX@
-NETCDF4_ROOT = @NETCDF4_ROOT@
NETCDF_INC = @NETCDF_INC@
NETCDF_LIB = @NETCDF_LIB@
+NETCDF_ROOT = @NETCDF_ROOT@
NM = @NM@
NMEDIT = @NMEDIT@
OBJDUMP = @OBJDUMP@
diff --git a/bld/Makefile b/bld/Makefile
index cbfdace..0ce0381 100644
--- a/bld/Makefile
+++ b/bld/Makefile
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/bld/Makefile,v 1.730 2014/09/16 23:31:37 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/bld/Makefile,v 1.743 2014/11/26 05:18:52 zender Exp $ -*-makefile-*-
# Purpose: GNU Makefile for NCO module nco
# Requires GNU Make---AT&T Make chokes on GNU syntax
@@ -65,10 +65,10 @@
# cd ~/nco/bld;make OMP=Y OPTS=D NETCDF4=N UDUNITS=Y allinone;cd - # glace, virga
# mpi-selector --set openmpi_gcc-1.3.3 # Then use /sopt/netcdf/netcdf3-gcc-serial serial libraries
# mpi-selector --set mpich_pgi_1.2.7p1 # After compiling
-# cd ~/nco/bld;ANTLR_ROOT=/sopt/gfortran_g++ CNK=N NETCDF_ROOT=/sopt/gfortran_g++ SZ_LIB=/sopt/lib UDUNITS_INC=/sopt/include UDUNITS_LIB=/sopt/lib make OMP=Y OPTS=D NETCDF4=Y SZ=Y UDUNITS=N allinone;cd - # greenplanet gcc
+# cd ~/nco/bld;ANTLR_ROOT=/sopt/gfortran_g++ NETCDF_ROOT=/sopt/gfortran_g++ SZ_LIB=/sopt/lib UDUNITS_INC=/sopt/include UDUNITS_LIB=/sopt/lib make OMP=Y OPTS=D NETCDF4=Y SZ=Y UDUNITS=N allinone;cd - # greenplanet gcc
# cd ~/nco/bld;ANTLR=/home/pvicente/install/antlr-2.7.7/bin/antlr ANTLR_ROOT=/home/pvicente/install/antlr-2.7.7 NETCDF_ROOT=/home/pvicente/install/netcdf-4.3.0 UDUNITS_INC=/home/pvicente/install/udunits-2.1.24/include UDUNITS_LIB=/home/pvicente/install/udunits-2.1.24/lib make OPTS=D allinone;cd - # greenplanet gcc pedro
-# cd ~/nco/bld;ANTLR=/sopt/ifort_icpc/bin/antlr ANTLR_ROOT=/sopt/ifort_icpc CNK=N SZ_LIB=/sopt/lib UDUNITS_INC=/sopt/include UDUNITS_LIB=/sopt/lib make OMP=Y OPTS=D NETCDF4=Y SZ=Y UDUNITS=N allinone;cd - # greenplanet intel
-# cd ~/nco/bld;ANTLR=/sopt/pgf90_pgcc/bin/antlr ANTLR_ROOT=/sopt/pgf90_pgcc CNK=N SZ_LIB=/sopt/lib UDUNITS_INC=/sopt/include UDUNITS_LIB=/sopt/lib make OMP=Y OPTS=D NETCDF4=N SZ=Y UDUNITS=N allinone;cd - # greenplanet pgi
+# cd ~/nco/bld;ANTLR=/sopt/ifort_icpc/bin/antlr ANTLR_ROOT=/sopt/ifort_icpc SZ_LIB=/sopt/lib UDUNITS_INC=/sopt/include UDUNITS_LIB=/sopt/lib make OMP=Y OPTS=D NETCDF4=Y SZ=Y UDUNITS=N allinone;cd - # greenplanet intel
+# cd ~/nco/bld;ANTLR=/sopt/pgf90_pgcc/bin/antlr ANTLR_ROOT=/sopt/pgf90_pgcc SZ_LIB=/sopt/lib UDUNITS_INC=/sopt/include UDUNITS_LIB=/sopt/lib make OMP=Y OPTS=D NETCDF4=N SZ=Y UDUNITS=N allinone;cd - # greenplanet pgi
# cd ~/nco/bld;make OMP=Y OPTS=D NETCDF4=N UDUNITS=Y allinone;cd - # pbs
# cd ~/nco/bld;make OMP=Y OPTS=D NETCDF4=N UDUNITS=Y allinone;cd - # grele
# cd ~/nco/bld;make NETCDF4=N all ncap2;cd - # tephra
@@ -97,20 +97,19 @@
# /ncar/opt/hpss/hsi # Starts HPSS session
# export PATH=${PATH}\:/ncar/opt/hpss
# GNU (works):
-# module swap intel gnu;module add gsl;module add netcdf/4.3.0-rc4;
+# module swap intel gnu;module add gsl;module add netcdf/4.3.0;
# export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}\:/glade/apps/opt/udunits/2.1.24/gnu/default/lib
-# cd ~/nco/bld;make NETCDF_ROOT='/glade/apps/opt/netcdf/4.3.0-rc4/gnu/default' UDUNITS_INC='/glade/apps/opt/udunits/2.1.24/gnu/default/include' UDUNITS_LIB='/glade/apps/opt/udunits/2.1.24/gnu/default/lib' OPTS=D allinone;cd -
+# cd ~/nco/bld;make NETCDF_ROOT='/glade/apps/opt/netcdf/4.3.0/gnu/default' UDUNITS_INC='/glade/apps/opt/udunits/2.1.24/gnu/default/include' UDUNITS_LIB='/glade/apps/opt/udunits/2.1.24/gnu/default/lib' OPTS=D allinone;cd -
# Intel (works as of 20140129):
# module add intel;module add gsl;module add netcdf/4.3.0;
# https://www2.cisl.ucar.edu/sites/default/files/Yellowstone_Started_Nov30-2.pdf
# module add pnetcdf/1.4.1
-# export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}\:/glade/apps/opt/udunits/2.1.24/intel/12.1.4/lib
# cd ~/nco/bld;make NETCDF_ROOT='/glade/apps/opt/netcdf/4.3.0/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 UDUNITS=Y allinone;cd -
-# cd ~/bin/WIN32;tar cvzf ~/nco-4.4.6.win32.cygwin.tar.gz nc* ; scp ~/nco-4.4.6.win32.cygwin.tar.gz zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
+# cd ~/bin/WIN32;tar cvzf ~/nco-4.4.7.win32.cygwin.tar.gz nc* ; scp ~/nco-4.4.7.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_1.nc mdl_2.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 in_4c.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 OMP=Y
@@ -253,7 +252,7 @@ ifndef SZ
# Link to Szip library
SZ := N
endif
-ifndef UDUNITS
+ifndef ${UDUNITS}
# Use UDUnits functionality
UDUNITS := Y
endif
@@ -371,28 +370,28 @@ ifeq (${GSL},Y)
# Build GSL-enabled NCO
# Place GSL block after DAP blocks for both to work together
ifdef GSL_INC
- GSL_INC := -I${GSL_INC}
+ GSL_INC_FLG := -I${GSL_INC}
else
- GSL_INC := $(shell gsl-config --cflags)
+ GSL_INC_FLG := $(shell gsl-config --cflags)
endif # endif GSL_INC
ifdef GSL_LIB
- GSL_LIB := -L${GSL_LIB} -lgsl
+ GSL_LIB_FLG := -L${GSL_LIB} -lgsl
else
- GSL_LIB := $(shell gsl-config --libs)
+ GSL_LIB_FLG := $(shell gsl-config --libs)
endif # endif GSL_LIB
endif # end if GSL
ifeq (${UDUNITS},Y)
# 20130607: -lexpat needed on .deb systems, not on RPM systems
ifdef UDUNITS_INC
- UDUNITS_INC := -I${UDUNITS_INC}
+ UDUNITS_INC_FLG := -I${UDUNITS_INC}
else
- UDUNITS_INC := -I/usr/include/udunits2
+ UDUNITS_INC_FLG := -I/usr/include/udunits2
endif # endif UDUNITS_INC
ifdef UDUNITS_LIB
- UDUNITS_LIB := -L${UDUNITS_LIB} -ludunits2
+ UDUNITS_LIB_FLG := -L${UDUNITS_LIB} -ludunits2
else
- UDUNITS_LIB := -ludunits2
+ UDUNITS_LIB_FLG := -ludunits2
endif # end if UDUNITS_LIB
endif # end if UDUNITS
@@ -413,8 +412,8 @@ ifdef LIB_NCAR
NC_LDFLAGS := ${LIB_NCAR} ${NC_LDFLAGS}
endif
-OTHER_CFLAGS := ${NC_CFLAGS} ${MPI_CFLAGS} ${GSL_INC} ${UDUNITS_INC}
-OTHER_LDFLAGS := ${NCO_LDFLAGS} ${NC_LDFLAGS} ${MPI_LDFLAGS} ${GSL_LIB} ${UDUNITS_LIB}
+OTHER_CFLAGS := ${NC_CFLAGS} ${MPI_CFLAGS} ${GSL_INC_FLG} ${UDUNITS_INC_FLG}
+OTHER_LDFLAGS := ${NCO_LDFLAGS} ${NC_LDFLAGS} ${MPI_LDFLAGS} ${GSL_LIB_FLG} ${UDUNITS_LIB_FLG}
# NB: Do NOT add comment lines, e.g., # This is a comma, to character definitions
null :=
@@ -893,6 +892,8 @@ ifeq (${GCC_OR_CLANG},Y)
CPPFLAGS += -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE
CFLAGS := -Wall -Wuninitialized
# Compilation flags for numerical routines recommended by GSL 1.3 manual, p. 397
+# Greenplanet has old compiler that lacks -Werror=format-security
+# CFLAGS += -W -Wmissing-prototypes -Wshadow -Wpointer-arith -Wcast-qual -Wcast-align -Wwrite-strings -fno-common -g
CFLAGS += -Werror=format-security -W -Wmissing-prototypes -Wshadow -Wpointer-arith -Wcast-qual -Wcast-align -Wwrite-strings -fno-common -g
# Compilation flags recommended by GSL and others that I like and use:
# -D_BSD_SOURCE: Support 4.3 BSD Unix extensions to ANSI C (prevents nameser.h warnings)
@@ -903,7 +904,7 @@ ifeq (${GCC_OR_CLANG},Y)
# -Wcast-align: Warn if casting pointer to type of different size
# -Wcast-qual: Warn if const qualifier removed from pointer
# -Werror: Consider warnings as errors
-# -Werror=format-security: Consider this specific warning as errors
+# -Werror=format-security: Consider this specific warning as errors (requires gcc > 4.1.2)
# -Wmaybe-uninitialized: Warn on uninitialized variables. GCC has many false negatives, clang is better? Available on GCC 4.8.2+. Not available on GCC 4.6.3-.
# -Wmissing-prototypes: Warn if missing prototypes
# -Wpointer-arith: Warn if pointer arithmetic on types without size, e.g., void
@@ -1645,7 +1646,7 @@ 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=4.4.6 rpm
+rpm: ${MY_BLD_DIR}/nco.spec # Building rpm requires root priveleges, e.g., sudo make NCO_VRS=4.4.7 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
@@ -1700,10 +1701,14 @@ ${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_1.nc ${MY_DAT_DIR}/mdl_2.nc ${MY_DAT_DIR}/mdl_3.nc ${MY_DAT_DIR}/mrd.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
+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}/mrd.nc ${MY_DAT_DIR}/in.nc ${MY_DAT_DIR}/in_4c.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_r [...]
-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 $@ $<
+${MY_DAT_DIR}/in_4c.nc: ${MY_DAT_DIR}/in.nc
+ -ncks -O -7 --cnk_dmn time,10 $< $@
+# ncgen default chunksize for time = 4 MB produces ~200 MB in_4c.nc file. Avoid that!
+# -ncgen -k hdf5-nc3 -b -o $@ $<
${MY_DAT_DIR}/in_rec_zero.nc: ${MY_DAT_DIR}/in_rec_zero.cdl
ncgen -b -o $@ $<
${MY_DAT_DIR}/in_grp.nc: ${MY_DAT_DIR}/in_grp.cdl
@@ -1910,8 +1915,8 @@ dbg:
@printf "FL_FMT = ${FL_FMT}\n"
@printf "GCC_RCH_ARG = ${GCC_RCH_ARG}\n"
@printf "GSL = ${GSL}\n"
- @printf "GSL_INC = ${GSL_INC}\n"
- @printf "GSL_LIB = ${GSL_LIB}\n"
+ @printf "GSL_INC_FLG = ${GSL_INC_FLG}\n"
+ @printf "GSL_LIB_FLG = ${GSL_LIB_FLG}\n"
@printf "HDF5_ROOT = ${HDF5_ROOT}\n"
@printf "HDF5_INC = ${HDF5_INC}\n"
@printf "HDF5_LIB = ${HDF5_LIB}\n"
@@ -1981,6 +1986,8 @@ dbg:
@printf "UDUNITS = ${UDUNITS}\n"
@printf "UDUNITS_INC = ${UDUNITS_INC}\n"
@printf "UDUNITS_LIB = ${UDUNITS_LIB}\n"
+ @printf "UDUNITS_INC_FLG = ${UDUNITS_INC_FLG}\n"
+ @printf "UDUNITS_LIB_FLG = ${UDUNITS_LIB_FLG}\n"
@printf "VPATH = ${VPATH}\n"
@printf "VRS_SNG = ${VRS_SNG}\n"
@printf "YACC = ${YACC}\n"
@@ -1988,7 +1995,7 @@ 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_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 *~
+ 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_4c.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 ${TAGS_FILES}
# 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 e2ea0ea..2f4608f 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: 4.4.6
+Version: 4.4.7
Release: 1%{?dist}
Summary: Programs that manipulate netCDF files
Group: Applications/Engineering
License: GPL3
URL: http://nco.sf.net/
-# Obtain NCO version 4.4.6-1 tar.gz from Sourceforge using CVS:
+# Obtain NCO version 4.4.7-1 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-4.4.6-1 -d nco-%{version} nco
-# tar czf nco-%{version}.tar.gz --exclude='nco-4.4.6/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-4.4.7-1 -d nco-%{version} nco
+# tar czf nco-%{version}.tar.gz --exclude='nco-4.4.7/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
@@ -108,7 +108,10 @@ fi
# %{_libdir}/libnco++.so
%changelog
-* Tue Oct 26 2014 Charlie Zender <zender at uci.edu> - 4.4.6-1
+* Tue Nov 01 2014 Charlie Zender <zender at uci.edu> - 4.4.7-1
+- new upstream 4.4.7
+
+* Wed Oct 01 2014 Charlie Zender <zender at uci.edu> - 4.4.6-1
- new upstream 4.4.6
* Tue Aug 26 2014 Charlie Zender <zender at uci.edu> - 4.4.5-1
diff --git a/bld/nco_dst.pl b/bld/nco_dst.pl
index 95b7452..2d801f8 100755
--- a/bld/nco_dst.pl
+++ b/bld/nco_dst.pl
@@ -7,18 +7,18 @@
# Export tagged, public versions
# /usr/bin/scp ${DATA}/nco-4.4.4.tar.gz zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4_4_6 # Build, do not release on SF
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --sf nco-4_4_6 # Build, release on SF
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --nst_all nco-4_4_6 # Install, do not build
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --nst_all nco-4_4_6 # Build and install
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_cnt nco-4_4_6
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_prs nco-4_4_6
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cgd_cnt nco-4_4_6
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cray_prs nco-4_4_6
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --bbl_cnt nco-4_4_6
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --blk_cnt nco-4_4_6
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --dat_cnt nco-4_4_6
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --ute_prs nco-4_4_6
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4_4_7 # Build, do not release on SF
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --sf nco-4_4_7 # Build, release on SF
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --nst_all nco-4_4_7 # Install, do not build
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --nst_all nco-4_4_7 # Build and install
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_cnt nco-4_4_7
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_prs nco-4_4_7
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cgd_cnt nco-4_4_7
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cray_prs nco-4_4_7
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --bbl_cnt nco-4_4_7
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --blk_cnt nco-4_4_7
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --dat_cnt nco-4_4_7
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --ute_prs nco-4_4_7
# Export daily snapshot
# ${HOME}/nco/bld/nco_dst.pl --dbg=2
@@ -32,7 +32,7 @@ BEGIN{
unshift @INC,$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 1.217 2014/09/16 23:31:37 zender Exp $';
+my $CVS_Header='$Header: /cvsroot/nco/nco/bld/nco_dst.pl,v 1.218 2014/10/08 21:00:45 zender Exp $';
# Specify modules
use strict; # Protect all namespaces
@@ -69,9 +69,9 @@ my ($rsh_cmd,$rcp_cmd,$cp_cmd,$rm_cmd,$mkdir_cmd,$cvs_cmd);
my $False=0;
my $True=1;
-my $CVS_Date='$Date: 2014/09/16 23:31:37 $';
-my $CVS_Id='$Id: nco_dst.pl,v 1.217 2014/09/16 23:31:37 zender Exp $';
-my $CVS_Revision='$Revision: 1.217 $';
+my $CVS_Date='$Date: 2014/10/08 21:00:45 $';
+my $CVS_Id='$Id: nco_dst.pl,v 1.218 2014/10/08 21:00:45 zender Exp $';
+my $CVS_Revision='$Revision: 1.218 $';
my $CVSROOT='zender at nco.cvs.sf.net:/cvsroot/nco'; # CVS repository
my $DATA=$ENV{'DATA'};
my $HOME=$ENV{'HOME'};
@@ -256,7 +256,7 @@ 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 $dst_fl --exclude='nco-4.4.6/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude=ncap_yacc.[ch] ./$dst_vrs"); # Create gzipped tarfile
+ cmd_prc("$tar_cmd cvzf $dst_fl --exclude='nco-4.4.7/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude=ncap_yacc.[ch] ./$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 47f9f6b..d09f94c 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 1.516 2014/10/01 16:05:11 zender Exp $
+# $Header: /cvsroot/nco/nco/bm/NCO_rgr.pm,v 1.536 2014/11/26 05:18:52 zender Exp $
# Purpose: All REGRESSION tests for NCO operators
# BENCHMARKS are coded in "NCO_benchmarks.pm"
@@ -550,7 +550,7 @@ print "\n";
# NCO 4.3.0: added support for groups; ncbo -g
#
#ncbo #16
-# ncbo -O -y add -g g4 -v one_dmn_rec_var in_grp.nc in_grp.nc ~/foo.nc
+# ncbo -O -y add -g g4 -v one_dmn_rec_var ~/nco/data/in_grp.nc ~/nco/data/in_grp.nc ~/foo.nc
# ncks -C -H -s '%d' -d time,0,0,1 -g g4 -v one_dmn_rec_var ~/foo.nc
# /g4/one_dmn_rec_var
# time[0]=1 one_dmn_rec_var[0]=2
@@ -603,7 +603,7 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncbo #20
-# ncbo -O -y mlt -g g4 -v one_dmn_rec_var in_grp.nc in_grp.nc ~/foo.nc
+# ncbo -O -y mlt -g g4 -v one_dmn_rec_var ~/nco/data/in_grp.nc ~/nco/data/in_grp.nc ~/foo.nc
# ncks -C -H -s '%d' -d time,0,0,1 -g g4 -v one_dmn_rec_var ~/foo.nc
# /g4/one_dmn_rec_var
@@ -1038,7 +1038,6 @@ print "\n";
####################
#ncecat #1
-
$tst_cmd[0]="ncks -h -O $fl_fmt $nco_D_flg -v one $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -h -O $fl_fmt $nco_D_flg -v one $in_pth_arg in.nc %tmp_fl_01%";
$tst_cmd[2]="ncecat $omp_flg -h -O $fl_fmt $nco_D_flg %tmp_fl_00% %tmp_fl_01% %tmp_fl_02%";
@@ -1050,7 +1049,6 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncecat #2
-
$tst_cmd[0]="ncks -C -h -O $fl_fmt $nco_D_flg -v three_dmn_var_int $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncap2 -C -v -O $fl_fmt $nco_D_flg -s 'three_dmn_var_int+=100;' $in_pth_arg in.nc %tmp_fl_01%";
$tst_cmd[2]="ncecat -C -h -O $omp_flg $fl_fmt $nco_D_flg -d time,0,3 -d time,8,9 -d lon,0,1 -d lon,3,3 -v three_dmn_var_int %tmp_fl_00% %tmp_fl_01% %tmp_fl_02%";
@@ -1062,7 +1060,6 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-
#######################################
#### Group tests (requires netCDF4) ###
#######################################
@@ -1079,13 +1076,11 @@ print "\n";
$tst_cmd[4]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-
-
#
# NCO 4.3.1 - ncecat for groups
#
#ncecat #4 part1
-#ncecat -h -O -g g1g1 -v v1 in_grp.nc in_grp.nc ~/foo.nc
+#ncecat -h -O -g g1g1 -v v1 ~/nco/data/in_grp.nc ~/nco/data/in_grp.nc ~/foo.nc
#ncks -d record,1,1,1 ~/foo.nc
$dsc_sng="(Groups) Concatenate variables/groups 1: scalars -g g1g1 -v v1";
@@ -1097,7 +1092,7 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncecat #5 same as #4 but look metadata
-#ncecat -h -O -g g1g1 -v v1 in_grp.nc in_grp.nc ~/foo.nc
+#ncecat -h -O -g g1g1 -v v1 ~/nco/data/in_grp.nc ~/nco/data/in_grp.nc ~/foo.nc
#ncks -d record,1,1,1 ~/foo.nc
$dsc_sng="(Groups) Concatenate variables/groups 2: scalars -g g1g1 -v v1";
@@ -1109,7 +1104,7 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncecat #6 part1
-#ncecat -h -O -g g6g1 -v area in_grp.nc in_grp.nc ~/foo.nc
+#ncecat -h -O -g g6g1 -v area ~/nco/data/in_grp.nc ~/nco/data/in_grp.nc ~/foo.nc
#ncks -H -C -d record,1,1,1 -d lat,1,1,1 -g g6g1 -v area ~/foo.nc
$dsc_sng="(Groups) Concatenate variables/groups 1: 1D -g g6g1 -v area";
@@ -1120,8 +1115,8 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#ncecat #7 same as #6 but look metadata
-#ncecat -h -O -g g6g1 -v area in_grp.nc in_grp.nc ~/foo.nc
+#ncecat #7 same as #6 but look at metadata
+#ncecat -h -O -g g6g1 -v area ~/nco/data/in_grp.nc ~/nco/data/in_grp.nc ~/foo.nc
#ncks -C -g g6g1 -v area ~/foo.nc
#area dimension 0: record, size = 2 (Record non-coordinate dimension)
@@ -1134,7 +1129,7 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncecat #8 part1
-#ncecat -h -O -v two_dmn_rec_var in_grp.nc in_grp.nc ~/foo.nc
+#ncecat -h -O -v two_dmn_rec_var ~/nco/data/in_grp.nc ~/nco/data/in_grp.nc ~/foo.nc
#ncks -C -d record,1,1,1 -d time,9,9,1 -d lev,2,2,1 -v two_dmn_rec_var ~/foo.nc
$dsc_sng="(Groups) Concatenate variables/groups 1: 2D -v two_dmn_rec_var";
@@ -1142,13 +1137,12 @@ print "\n";
$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";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
#ncecat #9
#Check that "time" is eliminated as record
-#ncecat -O in_grp_3.nc in_grp_3.nc ~/foo.nc
+#ncecat -O ~/nco/data/in_grp_3.nc ~/nco/data/in_grp_3.nc ~/foo.nc
#ncks -m -C -g g25g1 -v one_dmn_rec_var ~/foo.nc
$dsc_sng="(Groups) Concatenate variables/groups";
@@ -1173,10 +1167,10 @@ print "\n";
#ncecat #11
#Chunking
-#ncecat -O -C -4 -v four_dmn_rec_var --cnk_dmn lat,2 --cnk_dmn lon,4 -p ~/nco/data in.nc in.nc ~/foo.nc
+#ncecat -O -C -4 -v four_dmn_rec_var --cnk_plc=xpl --cnk_dmn lat,2 --cnk_dmn lon,4 -p ~/nco/data in.nc in.nc ~/foo.nc
$dsc_sng="Chunking -v four_dmn_rec_var --cnk_dmn lat,2 --cnk_dmn lon,4";
- $tst_cmd[0]="ncecat -O -C -4 $nco_D_flg -v four_dmn_rec_var --cnk_dmn lat,2 --cnk_dmn lon,4 $in_pth_arg in.nc in.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncecat -O -C -4 $nco_D_flg -v four_dmn_rec_var --cnk_plc=xpl --cnk_dmn lat,2 --cnk_dmn lon,4 $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks %tmp_fl_00% | grep 'four_dmn_rec_var dimension 2'";
$tst_cmd[2]="four_dmn_rec_var dimension 2: lat, size = 2, chunksize = 2 (Non-coordinate dimension)";
$tst_cmd[3]="SS_OK";
@@ -1299,7 +1293,7 @@ print "\n";
$dsc_sng="-w 0.8,0.0 in.nc in.nc";
$tst_cmd[0]="ncflint $nco_D_flg -4 -O -w 0.8,0.0 $in_pth_arg in.nc in.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -H -C -v time -d time,9,9,1 %tmp_fl_00%";
+ $tst_cmd[1]="ncks -H -C -v time -d time,9,9,1 %tmp_fl_00%";
$tst_cmd[2]="time[9]=8";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -1312,7 +1306,7 @@ print "\n";
$dsc_sng="--fix_rec_crd -w 0.8,0.0 in.nc in.nc";
$tst_cmd[0]="ncflint $nco_D_flg -4 -O --fix_rec_crd -w 0.8,0.0 $in_pth_arg in.nc in.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -H -C -v time -d time,9,9,1 %tmp_fl_00%";
+ $tst_cmd[1]="ncks -H -C -v time -d time,9,9,1 %tmp_fl_00%";
$tst_cmd[2]="time[9]=10";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -1321,13 +1315,13 @@ print "\n";
# NCO 4.3.2 ncflint -- groups
#ncflint #8
-# ncflint -h -O -g g4 -v one_dmn_rec_var -w 1,1 in_grp.nc in_grp.nc ~/foo.nc
-# ncks -H -C -O -g g4 -d time,9 -v one_dmn_rec_var ~/foo.nc
+# ncflint -h -O -g g4 -v one_dmn_rec_var -w 1,1 ~/nco/data/in_grp.nc ~/nco/data/in_grp.nc ~/foo.nc
+# ncks -H -C -O -g g4 -d time,9 -v one_dmn_rec_var ~/foo.nc
$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%";
- $tst_cmd[1]="ncks -H -C -O -g g4 -d time,9 -v one_dmn_rec_var %tmp_fl_00%";
+ $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";
$tst_cmd[3]="SS_OK";
@@ -1553,7 +1547,6 @@ print "\n";
#######################################
if($RUN_NETCDF4_TESTS == 1){
-
#
#NCO 4.2.2
#
@@ -1562,14 +1555,11 @@ 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%";
-
$tst_cmd[1]="ncks -C -H -s '%g' -v lat %tmp_fl_00%";
$tst_cmd[2]="-9090";
$tst_cmd[3]="SS_OK";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-
#ncks #20 groups: Add to extraction list all coordinates associated with CF convention
@@ -1894,7 +1884,7 @@ print "\n";
#ncks #45 Extract CF 'coordinates' variables(netCDF4 file)
#gds_crd:coordinates = "lat_gds lon_gds";
-#ncks -v gds_crd in_grp.nc
+#ncks -v gds_crd ~/nco/data/in_grp.nc
$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";
@@ -1951,11 +1941,9 @@ 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%";
-
$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";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -1970,14 +1958,13 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncks #52
+# ncks -O --fix_rec_dmn time -v three_dmn_rec_var -p ~/nco/data in_grp.nc ~/foo.nc
$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%";
-
$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";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2021,39 +2008,25 @@ print "\n";
# Distribute these to variables when writing with nco_prn_var_val_trv().
# nco_bld_lmt_trv() assigns user specified dimension limits to traversal table dimensions.
-#
# Chunking tests
-#
-#ncks #54: This test applies chunking all policy to -v lat_lon(lat,lon); lat(2) and lon(4) are by default chunked with a size == dimension
-# The test greps chunksize = 2 for lat
-# Policy: Chunk All Variables [default]
-# Map:Chunksize Equals Dimension Size [default]
-#ncks -O -4 -v lat_lon --cnk_plc=all in_grp.nc ~/foo.nc"
-
+#ncks #54: Apply chunking all policy to -v lat_lon(lat,lon); lat(2) and lon(4) are by default chunked with a size == dimension
+#ncks -O -4 -v lat_lon --cnk_min=1 --cnk_plc=all ~/nco/data/in_grp.nc ~/foo.nc
+#ncks -C -m -v lat_lon ~/foo.nc | egrep -o -w 'lat_lon dimension 0: lat, size = 2 NC_FLOAT, chunksize = 2'
$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%";
-
+ $tst_cmd[0]="ncks $nco_D_flg -O -4 -v lat_lon --cnk_min=1 --cnk_plc=all $in_pth_arg in_grp.nc %tmp_fl_00%";
$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";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#ncks #55: This test applies: time chunk is explicitely set to 2 instead of the default 1 for record dimension
-# Policy: Chunk Variables with at least Three Dimensions Definition: Chunk all variables possible with at least three dimensions
-# Alternate invocation: none cnk plc key values: ‘g3d’, ‘cnk_g3d’, ‘plc_g3d’
-# Definition: Chunksize defaults to dimension size. Explicitly specify chunksizes for particular dimensions with ‘--cnk_dmn’ option.
-# Map:Chunksize Equals Dimension Size [default] Explicitly specify chunksizes for particular dimensions with ‘--cnk_dmn’ option.
-
+#ncks #55: Explicitly chunk time to 2 instead of the default 1 for record dimension
$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%";
-
$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";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
@@ -2094,7 +2067,7 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncks #58 Use limits to print a dimension "lon2(4)" that does NOT have a coordinate variable
-# ncks -H -d lon2,1,3,2 -v lon2_var in_grp_3.nc
+# ncks -H -d lon2,1,3,2 -v lon2_var ~/nco/data/in_grp_3.nc
#/g16/lon2_var
#lon2[1] lon2_var[1]=1
#lon2[3] lon2_var[3]=3
@@ -2109,7 +2082,7 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncks #59 same as #58 but with 2 limits with the same result
-# ncks -H -d lon2,1,1,1 -d lon2,3,3,1 -v lon2_var in_grp.nc
+# ncks -H -d lon2,1,1,1 -d lon2,3,3,1 -v lon2_var ~/nco/data/in_grp.nc
#/g16/lon2_var
#lon2[1] lon2_var[1]=1
#lon2[3] lon2_var[3]=3
@@ -2125,7 +2098,7 @@ print "\n";
#ncks #60
# This test tests both limits and extraction of associated CF variables
-# ncks -H -v gds_var -d gds_crd,1,1,1 in_grp.nc
+# ncks -H -v gds_var -d gds_crd,1,1,1 ~/nco/data/in_grp.nc
#/g7/g7g1/gds_var
#gds_var[1]=273.2
#/g7/gds_crd
@@ -2146,8 +2119,8 @@ print "\n";
#ncks #61
# This test tests both limits printing of coordinates that are in ancestor groups
-# ncks -H -v gds_var -d gds_crd,1,1,1 in_grp.nc
-# ncks -H -C -g g7g1 -v gds_var -d gds_crd,1,1,1 -d gds_crd,3,3,1 in_grp.nc
+# ncks -H -v gds_var -d gds_crd,1,1,1 ~/nco/data/in_grp.nc
+# ncks -H -C -g g7g1 -v gds_var -d gds_crd,1,1,1 -d gds_crd,3,3,1 ~/nco/data/in_grp.nc
#/g7/g7g1/gds_var
# gds_crd[1]=1 gds_var[1]=273.2
# gds_crd[3]=3 gds_var[3]=273.4
@@ -2164,7 +2137,7 @@ print "\n";
#ncks #62
# Test "parallel" scope
#ncks: INFO nco_bld_var_dmn() reports variable </g16/g16g1/lon1> with dimension coordinate [0]/g16/g16g1/lon1
-# ncks -H -g g16g1 -v lon1 -d lon1,3,3,1 in_grp.nc
+# ncks -H -g g16g1 -v lon1 -d lon1,3,3,1 ~/nco/data/in_grp.nc
#/g16/g16g1/lon1
#lon1[3]=3
@@ -2205,7 +2178,7 @@ print "\n";
#ncks #65
# Test creation of variables with ancestor group dimensions
-#ncks -O -g g6g1 -v area in_grp.nc ~/foo.nc
+#ncks -O -g g6g1 -v area ~/nco/data/in_grp.nc ~/foo.nc
#/g6/g6g1/area
#lat[1]=90 area[1]=50
@@ -2221,76 +2194,60 @@ print "\n";
#ncks #66
# Test creation of variables with ancestor group dimensions, with GPE
-#ncks -O -G o1 -g g6g1 -v area in_grp.nc ~/foo.nc
+#ncks -O -G o1 -g g6g1 -v area ~/nco/data/in_grp.nc ~/foo.nc
#/o1/g6/g6g1/area
#lat[0]=-90 area[0]=40
#lat[1]=90 area[1]=50
-
$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%";
-
$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";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
#ncks #67
# Test "out of scope" coordinate
-# ncks -H -v lon3_var in_grp.nc
-
+# ncks -H -v lon3_var ~/nco/data/in_grp.nc
$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";
-
$tst_cmd[1]="lon3[3] lon3_var[3]=3";
$tst_cmd[2]="SS_OK";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
#ncks #68
# Test 2 "intermediate scope " coordinates
-# ncks -H -v lon4_var in_grp.nc
-
+# ncks -H -v lon4_var ~/nco/data/in_grp.nc
$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";
-
$tst_cmd[1]="lon4[1]=4 lon4_var[1]=1";
$tst_cmd[2]="SS_OK";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
#ncks #69
# Test -X
-# ncks -O -C -X 0.,1.,-30.,-29. -g g18 -v gds_3dvar in_grp_3.nc
-
+# ncks -O -C -X 0.,1.,-30.,-29. -g g18 -v gds_3dvar ~/nco/data/in_grp_3.nc
$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";
-
$tst_cmd[1]="time[9] gds_crd[1]=1 gds_3dvar[73]=282.2 meter";
$tst_cmd[2]="SS_OK";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
#ncks #70
# Test -X with variables anywhere in file (g18g1 has variable)
-# ncks -O -C -X 0.,1.,-30.,-29. -g g18g1 -v gds_3dvar in_grp_3.nc
-
+# ncks -O -C -X 0.,1.,-30.,-29. -g g18g1 -v gds_3dvar ~/nco/data/in_grp_3.nc
$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";
-
$tst_cmd[1]="time[9] gds_crd[1]=1 gds_3dvar[73]=282.2 meter";
$tst_cmd[2]="SS_OK";
-
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-
#ncks #71
-# ncks -h -O -C -v three_dmn_var_dbl -d time,,2 -d lat,0,0 -d lon,0,0 -d lon,3,3 in.nc
+# ncks -h -O -C -v three_dmn_var_dbl -d time,,2 -d lat,0,0 -d lon,0,0 -d lon,3,3 in.nc
$dsc_sng="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 -v three_dmn_var_dbl -d time,,2 -d lat,0,0 -d lon,0,0 -d lon,3,3 $in_pth_arg in.nc";
@@ -2313,7 +2270,7 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncks #73
-# ncks -v lat -d latitude,0,1,1 in_grp.nc
+# ncks -v lat -d latitude,0,1,1 ~/nco/data/in_grp.nc
$dsc_sng="(Groups) Invalid input, expect ERROR because user-specified dimension \"latitude\" DNE";
$tst_cmd[0]="ncks $nco_D_flg -v lat -d latitude,0,1,1 $in_pth_arg in_grp.nc";
@@ -2339,7 +2296,7 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncks #75
-# ncks -O -c in_grp.nc ~/foo.nc
+# ncks -O -c ~/nco/data/in_grp.nc ~/foo.nc
if($RUN_NETCDF4_TESTS_VERSION_GE_431 == 1){
@@ -2354,7 +2311,7 @@ print "\n";
} #RUN_NETCDF4_TESTS_VERSION_GE_431
#ncks #76
-# ncks -O in_grp.nc ~/foo.nc
+# ncks -O ~/nco/data/in_grp.nc ~/foo.nc
$dsc_sng="(Groups) Default input dataset";
$tst_cmd[0]="ncks -O $nco_D_flg $in_pth_arg in_grp.nc %tmp_fl_00%";
@@ -2401,11 +2358,10 @@ print "\n";
if($RUN_NETCDF4_TESTS_VERSION_GE_431 == 1){
#ncks #80
-#ncks -O -4 -L 0 --cnk_dmn lev,1 -v two_dmn_var in_grp_7.nc ~/foo.nc
-#ncks -C -g g19g1g1 --hdn --cdl ~/foo.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_7.nc %tmp_fl_00%";
+#ncks -O -4 -L 0 --cnk_min=1 --cnk_dmn lev,1 -v two_dmn_var ~/nco/data/in_grp_7.nc ~/foo.nc
+#ncks -C -m -g /g19/g19g1/g19g1g1 -v two_dmn_var ~/foo.nc
+ $dsc_sng="(Groups) Chunking and decompression -L 0 --cnk_dmn lev,1 -v two_dmn_var";
+ $tst_cmd[0]="ncks -O -L 0 -4 --cnk_min=1 --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";
@@ -2413,24 +2369,24 @@ print "\n";
$#tst_cmd=0; # Reset array
#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_7.nc ~/foo.nc
-#ncks -m -C -v /g19/g19g1/two_dmn_var --hdn ~/foo.nc
+# There are two 'two_dmn_var' beneath /g19/g19g1, chunk the deeper and check the shallower was not chunked
+#ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var ~/nco/data/in_grp_7.nc ~/foo.nc
+#ncks -m -C -v /g19/g19g1/two_dmn_var --hdn ~/foo.nc | grep chunked | cut -d ' ' -f 8-9
- $dsc_sng="(Groups) Chunking and full dimension names --cnk_dmn /g19/g19g1/g19g1g1/lev,1";
+ $dsc_sng="(Groups) Chunking full dimension name does not chunk variables in parent group";
$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[1]="ncks -m -C -v /g19/g19g1/two_dmn_var --hdn %tmp_fl_00% | grep chunked | cut -d ' ' -f 8-9";
+ $tst_cmd[2]="chunked? no,";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
#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_7.nc ~/foo.nc
+# There are two 'two_dmn_var' beneath /g19/g19g1, chunk the deeper and check the deeper was chunked as requested
+#ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 -v two_dmn_var ~/nco/data/in_grp_7.nc ~/foo.nc
#ncks -m -C -v /g19/g19g1/g19g1g1/two_dmn_var --hdn ~/foo.nc
- $dsc_sng="(Groups) Chunking and full dimension names --cnk_dmn /g19/g19g1/g19g1g1/lev,1";
+ $dsc_sng="(Groups) Chunking full dimension name works on in-scope variable";
$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";
@@ -2439,12 +2395,12 @@ print "\n";
$#tst_cmd=0; # Reset array
#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_7.nc ~/foo.nc
+# There are two 'two_dmn_var' beneath /g19/g19g1, chunk both, deeper with absolute shallower with relative, check deeper
+# ncks -O -4 --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,3 -v two_dmn_var ~/nco/data/in_grp_7.nc ~/foo.nc
# ncks -m -C -v /g19/g19g1/g19g1g1/two_dmn_var --hdn ~/foo.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_7.nc %tmp_fl_00%";
+ $dsc_sng="(Groups) Chunking full dimension name takes precedence over partial name ";
+ $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/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";
@@ -2452,34 +2408,63 @@ print "\n";
$#tst_cmd=0; # Reset array
#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_7.nc ~/foo.nc
-# ncks -m -C -v /g19/g19g1/two_dmn_var --hdn ~/foo.nc | grep _ChunkSizes
+# There are two 'two_dmn_var' beneath /g19/g19g1, chunk both, deeper with absolute shallower with relative, check shallower
+# ncks -O -4 --cnk_min=1 --cnk_plc=xpl --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,2 -v two_dmn_var ~/nco/data/in_grp_7.nc ~/foo.nc
+# ncks -m -C -v /g19/g19g1/two_dmn_var --hdn ~/foo.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_7.nc %tmp_fl_00%";
+ $dsc_sng="(Groups) Chunking matches in-scope partial dimension name not out-of-scope full name";
+ $tst_cmd[0]="ncks -O -4 --cnk_min=1 --cnk_plc=xpl --cnk_dmn /g19/g19g1/g19g1g1/lev,1 --cnk_dmn lev,2 -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[2]="two_dmn_var attribute 3: _ChunkSizes, size = 2 NC_INT, value = 2, 2";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
#ncks #85
-#ncks -O -L 0 --cnk_dmn lat,2 -v one in_grp.nc ~/foo.nc
-#ncks -C -m --hdn -v one -g g13 ~/foo.nc | grep _Storage
+#ncks -O -L 0 --cnk_min=1 --cnk_dmn lat,1 -v one ~/nco/data/hdn.nc ~/foo.nc
+#ncks -C -m --hdn -v one -g g13 ~/foo.nc | grep _ChunkSizes
- $dsc_sng="(Groups) Chunking and shuffle filter -L 0 --cnk_dmn lat,2 -v one (expect failure with netCDF 4.1.1-)";
- $tst_cmd[0]="ncks -O -4 -L 0 --cnk_dmn lat,2 -v one $nco_D_flg $in_pth_arg hdn.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -C -m --hdn -v one -g g13 %tmp_fl_00% | grep _Storage";
- $tst_cmd[2]="one attribute 1: _Storage, size = 10 NC_CHAR, value = contiguous";
+ $dsc_sng="(Groups) Imposing zero deflation (-L 0) on already-chunked variable keeps uses specified not netCDF-default chunksizes (expect failure with netCDF 4.1.1-)";
+ $tst_cmd[0]="ncks -O -4 -L 0 --cnk_min=1 --cnk_dmn lat,1 -v one $nco_D_flg $in_pth_arg hdn.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -m --hdn -v one -g g13 %tmp_fl_00% | grep _ChunkSizes";
+ $tst_cmd[2]="one attribute 2: _ChunkSizes, size = 1 NC_INT, value = 1";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
- $#tst_cmd=0; # Reset array
+ $#tst_cmd=0; # Reset array
} # RUN_NETCDF4_TESTS_VERSION_GE_431
#ncks #86
-#ncks -h -O --fix_rec_dmn time52 -v one_dmn_rec_var in_grp.nc ~/foo.nc
+#Imposing zero-deflation (-L 0) on contiguous variable uses netCDF-default (not user-specified) sizes.
+#Since input variable is contiguous and default mode is (xst, xst), NCO determines that input has no existing chunksizes and so lets netCDF determine chunksizes
+#ncks -O -4 -L 0 --cnk_dmn lat,1 -v /lat ~/nco/data/in_grp.nc ~/foo.nc
+#ncks -C -m --hdn -v /lat ~/foo.nc | grep _ChunkSizes
+
+ $dsc_sng="(Groups) Imposing deflation (-L 1) on contiguous variable uses netCDF-default (not user-specified) sizes";
+ $tst_cmd[0]="ncks -O -4 -L 0 --cnk_dmn lat,1 -v /lat $nco_D_flg $in_pth_arg in_grp.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -m --hdn -v /lat %tmp_fl_00% | grep _ChunkSizes";
+ $tst_cmd[2]="lat attribute 2: _ChunkSizes, size = 1 NC_INT, value = 2";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+#ncks #86
+#Imposing real deflation (-L 1) on contiguous variable uses user-specified (not netCDF-default) sizes.
+#Input variable is contiguous and default mode is (xst, xst).
+#NCO determines that variable must be chunked (because compressed) and uses user-specified explicit overrides for chunksizes
+#ncks -O -4 -L 0 --cnk_dmn lat,1 -v /lat ~/nco/data/in_grp.nc ~/foo.nc
+#ncks -C -m --hdn -v /lat ~/foo.nc | grep _ChunkSizes
+
+ $dsc_sng="(Groups) Imposing deflation (-L 1) on contiguous variable uses netCDF-default (not user-specified) sizes";
+ $tst_cmd[0]="ncks -O -4 -L 1 --cnk_dmn lat,1 -v /lat $nco_D_flg $in_pth_arg in_grp.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -m --hdn -v /lat %tmp_fl_00% | grep _ChunkSizes";
+ $tst_cmd[2]="lat attribute 2: _ChunkSizes, size = 1 NC_INT, value = 1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+#ncks #87
+#ncks -h -O --fix_rec_dmn time52 -v one_dmn_rec_var ~/nco/data/in_grp.nc ~/foo.nc
#ncks -v time52 -m ~/foo.nc
$dsc_sng="(Groups) Change record dimension to fixed dimension --fix_rec_dmn time52 -v one_dmn_rec_var";
@@ -2490,21 +2475,19 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#ncks #87
+#ncks #88
#ncks -O -v lat29 in_grp_3.nc ~/foo.nc
-
- $dsc_sng="(Groups) Test ";
+ $dsc_sng="(Groups) Test";
$tst_cmd[0]="ncks -O -v lat29 $nco_D_flg $in_pth_arg in_grp_3.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -m -v lat29 %tmp_fl_00% | grep 'standard_name'";
+ $tst_cmd[1]="ncks -m -v lat29 %tmp_fl_00% | grep 'standard_name'";
$tst_cmd[2]="lat29 attribute 0: standard_name, size = 8 NC_CHAR, value = latitude";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#ncks #88
+#ncks #89
# Test -X writing (apply limits to all standard 'lat' 'lon')
-# ncks -O -X 0.,1.,-30.,-29. -g g18g1 -v gds_3dvar in_grp_3.nc ~/foo.nc
-
+# ncks -O -X 0.,1.,-30.,-29. -g g18g1 -v gds_3dvar ~/nco/data/in_grp_3.nc ~/foo.nc
$dsc_sng="(Groups) Auxiliary coordinates writing -X 0.,1.,-30.,-29. -g g18g1 -v gds_3dvar";
$tst_cmd[0]="ncks $nco_D_flg -X 0.,1.,-30.,-29. -g g18g1 -v gds_3dvar $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks $nco_D_flg -v lon_gds_1 %tmp_fl_00%";
@@ -2513,11 +2496,10 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#ncks #89
+#ncks #90
# Test -X (writing associated coordinates)
-# ncks -O -X 0.,1.,-30.,-29. -g g18 -v gds_3dvar in_grp_3.nc ~/foo.nc
-# ncks -g g18g2 -v lat_gds_2 ~/foo.nc
-
+# ncks -O -X 0.,1.,-30.,-29. -g g18 -v gds_3dvar ~/nco/data/in_grp_3.nc ~/foo.nc
+# ncks -g g18g2 -v lat_gds_2 ~/foo.nc
$dsc_sng="(Groups) Auxiliary coordinates (writing associated coordinates) -X 0.,1.,-30.,-29. -g g18 -v gds_3dvar in_grp_3.nc";
$tst_cmd[0]="ncks $nco_D_flg -X 0.,1.,-30.,-29. -g g18 -v gds_3dvar $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks $nco_D_flg -g g18g2 -C -v lat_gds_2 %tmp_fl_00%";
@@ -2528,10 +2510,9 @@ print "\n";
} #### Group tests
-#ncks #90
+#ncks #91
# Test -X writing
-# ncks -O -X 0.,1.,-30.,-29. -v gds_3dvar in.nc ~/foo.nc
-
+# ncks -O -X 0.,1.,-30.,-29. -v gds_3dvar ~/nco/data/in.nc ~/foo.nc
$dsc_sng="Auxiliary coordinates writing -X 0.,1.,-30.,-29. -v gds_3dvar";
$tst_cmd[0]="ncks $nco_D_flg -X 0.,1.,-30.,-29. -v gds_3dvar $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks $nco_D_flg -v gds_crd %tmp_fl_00%";
@@ -2540,7 +2521,7 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#ncks #91 Extract CF 'ancillary_variables' variables (netCDF3 file)
+#ncks #92 Extract CF 'ancillary_variables' variables (netCDF3 file)
#ncks -O -d time,5 -v cnv_CF_ncl ~/nco/data/in.nc ~/foo.nc
#ncks -C -H -v cnv_CF_ncl_var_2 ~/foo.nc
$dsc_sng="Extract CF 'ancillary_variables' variables (netCDF3 file)";
@@ -2551,11 +2532,10 @@ print "\n";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-#ncks #92
-#ncks -O -D 5 -C -d lat,0 -v one,four --cnk_plc=xst --cnk_map=xst ~/nco/data/hdn.nc ~/foo.nc
-
if($RUN_NETCDF4_TESTS_VERSION_GE_431 == 1){
+#ncks #93
+#ncks -O -D 5 -C -d lat,0 -v one,four --cnk_plc=xst --cnk_map=xst ~/nco/data/hdn.nc ~/foo.nc
$dsc_sng="Chunking multiple variables while hyperslabbing";
$tst_cmd[0]="ncks -O $nco_D_flg -C -d lat,0 -v one,four --cnk_plc=xst --cnk_map=xst $in_pth_arg hdn.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v one %tmp_fl_00% | grep 'chunksize'";
@@ -2566,16 +2546,39 @@ print "\n";
} # RUN_NETCDF4_TESTS_VERSION_GE_431
-#ncks #93
-#ncks -O -C -H -d lon,-0 -v lon ~/nco/data/in.nc
-
- $dsc_sng="Select last element using negative zero index";
- $tst_cmd[0]="ncks -O $nco_D_flg -C -H -d lon,-0 -v lon $in_pth_arg in.nc";
+#ncks #94
+#ncks -O -C -H -d lon,-1 -v lon ~/nco/data/in.nc
+ $dsc_sng="Select last element using negative one index";
+ $tst_cmd[0]="ncks -O $nco_D_flg -C -H -d lon,-1 -v lon $in_pth_arg in.nc";
$tst_cmd[1]="lon[3]=270";
$tst_cmd[2]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
+#ncks #95
+# Test -X writing two variables
+# ncks -O -X 150.,210.,-15.,45. -v gds_var,gds_3dvar ~/nco/data/in.nc ~/foo.nc
+# ncks -C -H -d gds_crd,-1 -v gds_var ~/foo.nc
+ $dsc_sng="Auxiliary coordinate writing two variables";
+ $tst_cmd[0]="ncks -O $nco_D_flg -X 150.,210.,-15.,45. -v gds_var,gds_3dvar $in_pth_arg in.nc %tmp_fl_00";
+ $tst_cmd[1]="ncks -C -H -d gds_crd,-1 -v gds_var %tmp_fl_00";
+ $tst_cmd[2]="gds_crd[1]=6 gds_var[1]=273.7";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
+#ncks #96
+# Test -X problem encountered in wavewatch.nc once that problem is isolated
+# ncks -O -X 150.,210.,-15.,45. -v gds_var_ncd ~/nco/data/in.nc ~/foo.nc
+# ncks -C -H -d gds_ncd,-1 -v gds_var_ncd ~/foo.nc
+ $dsc_sng="Test -X auxiliary coordinates where underlying dimension is a non-coordinate dimension";
+ $tst_cmd[0]="ncks -O $nco_D_flg -X 150.,210.,-15.,45. -v gds_var_ncd $in_pth_arg in.nc %tmp_fl_00";
+ $tst_cmd[1]="ncks -C -H -d gds_ncd,-1 -v gds_var_ncd %tmp_fl_00";
+ $tst_cmd[2]="gds_ncd[1] gds_var_ncd[1]=273.7";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ $#tst_cmd=0; # Reset array
+
#####################
#### ncpdq tests #### -OK !
#####################
@@ -2688,12 +2691,12 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #10
# two_dmn_var (lat,lev) no change
-# ncpdq -O -C -a lat,lev -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -C -a lat,lev -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks -d lat,1,1 -d lev,1,1 ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg -O -C $fl_fmt $nco_D_flg -a lat,lev -v two_dmn_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v two_dmn_var -d lat,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable (-C , no MSA, no-reorder) -v two_dmn_var -a lat,lev";
+ $dsc_sng="Re-order 2D variable (-C, no MSA, no-reorder) -v two_dmn_var -a lat,lev";
$tst_cmd[2]="lat[1] lev[1] two_dmn_var[4]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2702,12 +2705,12 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #11
# two_dmn_var (lat,lev) -C, no MSA (no associated coordinates)
-# ncpdq -O -C -a lev,lat -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -C -a lev,lat -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks -v two_dmn_var -d lat,1,1 -d lev,1,1 ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -C -a lev,lat -v two_dmn_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v two_dmn_var -d lat,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable (-C , no MSA) -v two_dmn_var -a lev,lat";
+ $dsc_sng="Re-order 2D variable (-C, no MSA) -v two_dmn_var -a lev,lat";
$tst_cmd[2]="lev[1] lat[1] two_dmn_var[3]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2716,13 +2719,13 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #12
# two_dmn_var (lat,lev) no MSA (associated coordinates)
-# ncpdq -O -a lev,lat -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -a lev,lat -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks -C -d lat,1,1 -d lev,1,1 ~/foo.nc
#$tst_cmd[2]="lev[1]=500 lat[1]=90 two_dmn_var[3]=17.5 fraction";
$tst_cmd[0]="ncpdq $omp_flg -O $fl_fmt $nco_D_flg -a lev,lat -v two_dmn_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -v two_dmn_var -d lat,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable (no -C , no MSA) -v two_dmn_var -a lev,lat";
+ $dsc_sng="Re-order 2D variable (no -C, no MSA) -v two_dmn_var -a lev,lat";
$tst_cmd[2]="lev[1]=500 lat[1]=90 two_dmn_var[3]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2732,12 +2735,12 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #13
# two_dmn_var (lat,lev) -C, MSA (no associated coordinates)
-# ncpdq -O -C -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -C -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg -O -C $fl_fmt $nco_D_flg -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v two_dmn_var %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable (-C , MSA) -v two_dmn_var -a lev,lat -d lat,1,1 -d lev,1,1";
+ $dsc_sng="Re-order 2D variable (-C, MSA) -v two_dmn_var -a lev,lat -d lat,1,1 -d lev,1,1";
$tst_cmd[2]="lev[0] lat[0] two_dmn_var[0]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2746,12 +2749,12 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #14
# two_dmn_var (lat,lev) MSA (associated coordinates)
-# ncpdq -O -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg -O $fl_fmt $nco_D_flg -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v two_dmn_var %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable (no -C , MSA) -v two_dmn_var -a lev,lat -d lat,1,1 -d lev,1,1";
+ $dsc_sng="Re-order 2D variable (no -C, MSA) -v two_dmn_var -a lev,lat -d lat,1,1 -d lev,1,1";
$tst_cmd[2]="lev[0]=500 lat[0]=90 two_dmn_var[0]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2759,13 +2762,13 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #15
-# two_dmn_rec_var(time,lev) 2D variable with record (-C , no MSA)
-# ncpdq -O -C -a lev,time -v two_dmn_rec_var in.nc ~/foo.nc
+# two_dmn_rec_var(time,lev) 2D variable with record (-C, no MSA)
+# ncpdq -O -C -a lev,time -v two_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
# ncks -d time,1,1 -d lev,1,1 ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg -O $fl_fmt $nco_D_flg -C -a lev,time -v two_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v two_dmn_rec_var -d time,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable with record (-C , no MSA) -v two_dmn_rec_var -C -a lev,time";
+ $dsc_sng="Re-order 2D variable with record (-C, no MSA) -v two_dmn_rec_var -C -a lev,time";
$tst_cmd[2]="lev[1] time[1] two_dmn_rec_var[11]=2.1 watt meter-2";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2775,12 +2778,12 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #16
# two_dmn_rec_var(time,lev) 2D variable with record (no MSA)
-# ncpdq -O -a lev,time -v two_dmn_rec_var in.nc ~/foo.nc
+# ncpdq -O -a lev,time -v two_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
# ncks -d time,1,1 -d lev,1,1 ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg -O $fl_fmt $nco_D_flg -a lev,time -v two_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v two_dmn_rec_var -d time,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable with record (no -C , no MSA) -v two_dmn_rec_var -a lev,time";
+ $dsc_sng="Re-order 2D variable with record (no -C, no MSA) -v two_dmn_rec_var -a lev,time";
$tst_cmd[2]="lev[1]=500 time[1]=2 two_dmn_rec_var[11]=2.1 watt meter-2";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2789,12 +2792,12 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #17
# two_dmn_rec_var(time,lev) 2D variable with record (MSA)
-# ncpdq -O -C -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var in.nc ~/foo.nc
+# ncpdq -O -C -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
# ncks ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg -O $fl_fmt $nco_D_flg -C -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v two_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable with record (-C , MSA) -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var";
+ $dsc_sng="Re-order 2D variable with record (-C, MSA) -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var";
$tst_cmd[2]="lev[0] time[0] two_dmn_rec_var[0]=2.1 watt meter-2";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2803,12 +2806,12 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #18
# two_dmn_rec_var(time,lev) 2D variable with record (MSA)
-# ncpdq -O -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var in.nc ~/foo.nc
+# ncpdq -O -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
# ncks ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg -O $fl_fmt $nco_D_flg -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -v two_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="Re-order 2D variable with record (no -C , MSA) -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var";
+ $dsc_sng="Re-order 2D variable with record (no -C, MSA) -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var";
$tst_cmd[2]="lev[0]=500 time[0]=2 two_dmn_rec_var[0]=2.1 watt meter-2";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -2820,7 +2823,7 @@ print "\n";
#ncpdq -h -O -a lat,time -v three_dmn_var -d time,1,1 -d lat,1,1 -d lon,1,1 in.nc ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg -h -O $fl_fmt $nco_D_flg -a -lat,-time -v three_dmn_var_dbl -d time,1,6,2 -d lat,0,1 -d lon,1,1 $in_pth_arg in.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -H -C -v three_dmn_var_dbl -d lat,1,1 -d time,2,2 %tmp_fl_00%";
+ $tst_cmd[1]="ncks -H -C -v three_dmn_var_dbl -d lat,1,1 -d time,2,2 %tmp_fl_00%";
$dsc_sng="Reverse/Re-order 3D variable -a -lat,-time -v three_dmn_var_dbl -d time,1,1 -d lat,1,1 -d lon,1,1";
$tst_cmd[2]="lat[1]=-90 time[2]=2 lon[0]=90 three_dmn_var_dbl[5]=10";
$tst_cmd[3]="SS_OK";
@@ -2831,7 +2834,7 @@ print "\n";
#ncpdq #20
#three_dmn_rec_var(time,lat,lon);
#ty(time,lat);
-#ncpdq -h -O -a lat,time -v ty,three_dmn_rec_var in.nc ~/foo.nc
+#ncpdq -h -O -a lat,time -v ty,three_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -h -O -a lat,time -v ty,three_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -v ty -d time,1,1 -d lat,1,1 %tmp_fl_00%";
@@ -2845,7 +2848,7 @@ print "\n";
#ncpdq #21 (same run as #20)
#three_dmn_rec_var(time,lat,lon);
#ty(time,lat);
-#ncpdq -h -O -a lat,time -v ty,three_dmn_rec_var in.nc ~/foo.nc
+#ncpdq -h -O -a lat,time -v ty,three_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -h -O -a lat,time -v ty,three_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -v three_dmn_rec_var -d time,1,1 -d lat,1,1 -d lon,1,1 %tmp_fl_00%";
@@ -2887,7 +2890,7 @@ print "\n";
#ncpdq #24 (same run as #22) check if output is the right record
#three_dmn_rec_var(time,lat,lon);
#ty(time,lat);
-#ncpdq -h -O -a lat,time -v ty,three_dmn_rec_var in.nc ~/foo.nc
+#ncpdq -h -O -a lat,time -v ty,three_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -h -O -a lat,time -v ty,three_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -C -v three_dmn_rec_var %tmp_fl_00% | grep 'three_dmn_rec_var dimension 0: lat, size = 2 NC_FLOAT (Record coordinate is lat)'";
@@ -2901,7 +2904,7 @@ print "\n";
#ncpdq #25 (same run as #22) check if output is the right record
#three_dmn_rec_var(time,lat,lon);
#ty(time,lat);
-#ncpdq -h -O -a lat,time -v ty,three_dmn_rec_var in.nc ~/foo.nc
+#ncpdq -h -O -a lat,time -v ty,three_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -h -O -a lat,time -v ty,three_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m -C -v three_dmn_rec_var %tmp_fl_00% | grep 'three_dmn_rec_var dimension 1: time, size = 10 NC_DOUBLE (Coordinate is time)'";
@@ -3003,7 +3006,7 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #11
# two_dmn_var (lat,lev) -C, no MSA (no associated coordinates)
-# ncpdq -O -C -a lev,lat -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -C -a lev,lat -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks -v two_dmn_var -d lat,1,1 -d lev,1,1 ~/foo.nc
@@ -3015,13 +3018,13 @@ print "\n";
# dimensions:lat=2;lev=3;lon=4;time=unlimited;
#ncpdq #11
# two_dmn_var (lat,lev) -C, no MSA (no associated coordinates)
-# ncpdq -O -C -g g19g1 -a lev,lat -v two_dmn_var in_grp_3.nc ~/foo.nc
+# ncpdq -O -C -g g19g1 -a lev,lat -v two_dmn_var ~/nco/data/in_grp_3.nc ~/foo.nc
# ncks -g g19g1 -v two_dmn_var -d lat,1,1 -d lev,1,1 ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -C -g g19g1 -a lev,lat -v two_dmn_var $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -g g19g1 -v two_dmn_var -d lat,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="(Groups) Re-order 2D variable (-C , no MSA) -v two_dmn_var -a lev,lat";
+ $dsc_sng="(Groups) Re-order 2D variable (-C, no MSA) -v two_dmn_var -a lev,lat";
$tst_cmd[2]="lev[1] lat[1] two_dmn_var[3]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -3031,7 +3034,7 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #12
# two_dmn_var (lat,lev) no -C, no MSA
-# ncpdq -O -a lev,lat -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -a lev,lat -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks -C -d lat,1,1 -d lev,1,1 ~/foo.nc
@@ -3043,12 +3046,12 @@ print "\n";
# dimensions:lat=2;lev=3;lon=4;time=unlimited;
#ncpdq #12
# two_dmn_var (lat,lev) no -C, no MSA
-# ncpdq -O -g g19g1 -a lev,lat -v two_dmn_var in_grp_3.nc ~/foo.nc
+# ncpdq -O -g g19g1 -a lev,lat -v two_dmn_var ~/nco/data/in_grp_3.nc ~/foo.nc
# ncks -C -g g19g1 -v two_dmn_var -d lat,1,1 -d lev,1,1 ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -g g19g1 -a lev,lat -v two_dmn_var $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g g19g1 -v two_dmn_var -d lat,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="(Groups) Re-order 2D variable (no -C , no MSA) -v two_dmn_var -a lev,lat";
+ $dsc_sng="(Groups) Re-order 2D variable (no -C, no MSA) -v two_dmn_var -a lev,lat";
$tst_cmd[2]="lev[1]=500 lat[1]=90 two_dmn_var[3]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -3057,7 +3060,7 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #13
# two_dmn_var (lat,lev) -C, MSA (no associated coordinates)
-# ncpdq -O -C -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -C -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks ~/foo.nc
@@ -3069,13 +3072,13 @@ print "\n";
# dimensions:lat=2;lev=3;lon=4;time=unlimited;
#ncpdq #13
# two_dmn_var (lat,lev) -C, MSA (no associated coordinates)
-# ncpdq -O -C -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var in_grp_3.nc ~/foo.nc
+# ncpdq -O -C -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var ~/nco/data/in_grp_3.nc ~/foo.nc
# ncks ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -g g19g1 -C -a lev,lat -v two_dmn_var -d lat,1,1 -d lev,1,1 $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -g g19g1 -v two_dmn_var %tmp_fl_00%";
- $dsc_sng="(Groups) Re-order 2D variable (-C , MSA) -v two_dmn_var -a lev,lat";
+ $dsc_sng="(Groups) Re-order 2D variable (-C, MSA) -v two_dmn_var -a lev,lat";
$tst_cmd[2]="lev[0] lat[0] two_dmn_var[0]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -3084,7 +3087,7 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #14
# two_dmn_var (lat,lev) MSA (associated coordinates)
-# ncpdq -O -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var in.nc ~/foo.nc
+# ncpdq -O -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var ~/nco/data/in.nc ~/foo.nc
# ncks ~/foo.nc
#$tst_cmd[2]="lev[0]=500 lat[0]=90 two_dmn_var[0]=17.5 fraction";
@@ -3095,12 +3098,12 @@ print "\n";
# group: g19 {
# dimensions:lat=2;lev=3;lon=4;time=unlimited;
# two_dmn_var (lat,lev) MSA (associated coordinates)
-# ncpdq -O -g g19g1 -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var in_grp_3.nc ~/foo.nc
+# ncpdq -O -g g19g1 -a lev,lat -d lat,1,1 -d lev,1,1 -v two_dmn_var ~/nco/data/in_grp_3.nc ~/foo.nc
# ncks -C -g g19g1 -v two_dmn_var ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -g g19g1 -a lev,lat -v two_dmn_var -d lat,1,1 -d lev,1,1 $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g g19g1 -v two_dmn_var %tmp_fl_00%";
- $dsc_sng="(Groups) Re-order 2D variable (no -C , MSA) -v two_dmn_var -a lev,lat";
+ $dsc_sng="(Groups) Re-order 2D variable (no -C, MSA) -v two_dmn_var -a lev,lat";
$tst_cmd[2]="lev[0]=500 lat[0]=90 two_dmn_var[0]=17.5 fraction";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -3108,8 +3111,8 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #15
-# two_dmn_rec_var(time,lev) 2D variable with record (-C , no MSA)
-# ncpdq -O -C -a lev,time -v two_dmn_rec_var in.nc ~/foo.nc
+# two_dmn_rec_var(time,lev) 2D variable with record (-C, no MSA)
+# ncpdq -O -C -a lev,time -v two_dmn_rec_var ~/nco/data/in.nc ~/foo.nc
# ncks -d time,1,1 -d lev,1,1 ~/foo.nc
# same as previous but with group
@@ -3118,12 +3121,12 @@ print "\n";
#ncpdq #36
# group: g19 {
# dimensions:lat=2;lev=3;lon=4;time=unlimited;
-# ncpdq -O -g g19g2 -C -a lev,time -v two_dmn_rec_var in_grp_3.nc ~/foo.nc
+# ncpdq -O -g g19g2 -C -a lev,time -v two_dmn_rec_var ~/nco/data/in_grp_3.nc ~/foo.nc
# ncks -d time,1,1 -d lev,1,1 ~/foo.nc
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -g g19g2 -C -a lev,time -v two_dmn_rec_var $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -g g19g2 -v two_dmn_rec_var -d time,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="(Groups) Re-order 2D variable with record (-C , no MSA) -v two_dmn_rec_var -C -a lev,time";
+ $dsc_sng="(Groups) Re-order 2D variable with record (-C, no MSA) -v two_dmn_rec_var -C -a lev,time";
$tst_cmd[2]="lev[1] time[1] two_dmn_rec_var[11]=2.1 watt meter-2";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -3132,14 +3135,14 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #37
# two_dmn_rec_var(time,lev) 2D variable with record (no -C, no MSA)
-# ncpdq -O -g g19g2 -a lev,time -v two_dmn_rec_var in_grp_3.nc ~/foo.nc
+# ncpdq -O -g g19g2 -a lev,time -v two_dmn_rec_var ~/nco/data/in_grp_3.nc ~/foo.nc
# ncks -C -g g19g2 -d time,1,1 -d lev,1,1 ~/foo.nc
# same #16 as previous but with group
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -g g19g2 -a lev,time -v two_dmn_rec_var $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g g19g2 -d time,1,1 -d lev,1,1 %tmp_fl_00%";
- $dsc_sng="(Groups) Re-order 2D variable with record (no -C , no MSA) -v two_dmn_rec_var -C -a lev,time";
+ $dsc_sng="(Groups) Re-order 2D variable with record (no -C, no MSA) -v two_dmn_rec_var -C -a lev,time";
$tst_cmd[2]="lev[1]=500 time[1]=2 two_dmn_rec_var[11]=2.1 watt meter-2";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -3148,14 +3151,14 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #38
# two_dmn_rec_var(time,lev) 2D variable with record (MSA)
-# ncpdq -O -C -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var in_grp_3.nc ~/foo.nc
+# ncpdq -O -C -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var ~/nco/data/in_grp_3.nc ~/foo.nc
# ncks -g g19g2 -v two_dmn_rec_var ~/foo.nc
# same as #17 but with group
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -C -g g19g2 -a lev,time -v two_dmn_rec_var -d time,1,1 -d lev,1,1 $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -g g19g2 -v two_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="(Groups) Re-order 2D variable with record (-C , MSA) -v two_dmn_rec_var -C -a lev,time";
+ $dsc_sng="(Groups) Re-order 2D variable with record (-C, MSA) -v two_dmn_rec_var -C -a lev,time";
$tst_cmd[2]="lev[0] time[0] two_dmn_rec_var[0]=2.1 watt meter-2";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -3164,15 +3167,14 @@ print "\n";
#NEW NCO 4.3.2
#ncpdq #39
# two_dmn_rec_var(time,lev) 2D variable with record (MSA)
-# ncpdq -O -g g19g2 -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var in_grp_3.nc ~/foo.nc
-# ncks -C -g g19g2 -v two_dmn_rec_var ~/foo.nc
+# ncpdq -O -g g19g2 -a lev,time -d time,1,1 -d lev,1,1 -v two_dmn_rec_var ~/nco/data/in_grp_3.nc ~/foo.nc
+# ncks -C -g g19g2 -v two_dmn_rec_var ~/foo.nc
# $tst_cmd[2]="lev[0]=500 time[0]=2 two_dmn_rec_var[0]=2.1 watt meter-2";
-
# same as #18 but with group
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -O -g g19g2 -a lev,time -v two_dmn_rec_var -d time,1,1 -d lev,1,1 $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g g19g2 -v two_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="(Groups) Re-order 2D variable with record (no -C , MSA) -v two_dmn_rec_var";
+ $dsc_sng="(Groups) Re-order 2D variable with record (no -C, MSA) -v two_dmn_rec_var";
$tst_cmd[2]="lev[0]=500 time[0]=2 two_dmn_rec_var[0]=2.1 watt meter-2";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
@@ -3209,9 +3211,7 @@ print "\n";
#ncpdq -h -O -P all_new -v upk in.nc ~/foo.nc
#ncpdq -h -O -P upk -v upk ~/foo.nc ~/foo.nc
#ncks -C -H -s '%g' -v upk ~/foo.nc
-
# same as #29 but with group
-
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -h -O -g g19g4 -P all_new -v upk $in_pth_arg in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncpdq $omp_flg -h -O $fl_fmt $nco_D_flg -P upk -v upk %tmp_fl_00% %tmp_fl_00%";
$dsc_sng="(Groups) Pack and then unpack scalar (uses only add_offset) -P all_new -v upk";
@@ -3227,7 +3227,6 @@ print "\n";
#ncpdq -g g19g4 -h -O -C -P upk -v rec_var_dbl_mss_val_dbl_pck -d time,0,4 -d time,6 in_grp_3.nc ~/foo.nc
#ncks -g g19g4 -C -H -s '%f' -v rec_var_dbl_mss_val_dbl_pck -d time,5 ~/foo.nc
#$tst_cmd[2]="7";
-
# same as #30 but with group
$tst_cmd[0]="ncpdq $omp_flg $fl_fmt $nco_D_flg -g g19g4 -h -O -C -P upk -v rec_var_dbl_mss_val_dbl_pck -d time,0,4 -d time,6 $in_pth_arg in_grp_3.nc %tmp_fl_00%";
@@ -3237,22 +3236,21 @@ print "\n";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
$#tst_cmd=0; # Reset array
-
#NEW NCO 4.4.0
#ncpdq #46
-# ncpdq -O -4 -a lon,lat --cnk_dmn lat,1 --cnk_dmn lon,2 -v lat_2D_rct in.nc ~/foo.nc
+# ncpdq -O -4 -a lon,lat --cnk_min=1 --cnk_plc=xpl --cnk_dmn lat,1 --cnk_dmn lon,2 -v lat_2D_rct ~/nco/data/in.nc ~/foo.nc
+# ncks -m ~/foo.nc | grep 'lat_2D_rct dimension 0'
- $dsc_sng="Chunking -a lon,lat --cnk_dmn lat,1 --cnk_dmn lon,2 -v lat_2D_rct";
- $tst_cmd[0]="ncpdq $omp_flg -4 $nco_D_flg -a lon,lat --cnk_dmn lat,1 --cnk_dmn lon,2 -v lat_2D_rct $in_pth_arg in.nc %tmp_fl_00%";
+ $dsc_sng="Chunking -a lon,lat --cnk_min=1 --cnk_plc=xpl --cnk_dmn lat,1 --cnk_dmn lon,2 -v lat_2D_rct";
+ $tst_cmd[0]="ncpdq $omp_flg -4 $nco_D_flg -a lon,lat --cnk_min=1 --cnk_plc=xpl --cnk_dmn lat,1 --cnk_dmn lon,2 -v lat_2D_rct $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m %tmp_fl_00% | grep 'lat_2D_rct dimension 0'";
$tst_cmd[2]="lat_2D_rct dimension 0: lon, size = 4 NC_FLOAT, chunksize = 2 (Coordinate is lon)";
$tst_cmd[3]="SS_OK";
if($mpi_prc == 0 || ($mpi_prc > 0 && !($localhostname =~ /pbs/))){NCO_bm::tst_run(\@tst_cmd);} # ncpdq hangs with MPI TODO nco772
$#tst_cmd=0; # Reset array
-
- } ##### Group tests
+} ##### Group tests
#ncpdq #42
@@ -3591,7 +3589,7 @@ print "\n";
#ncrcat #23
# 2 groups each one with a record (part 1)
-# ncra -Y ncrcat -h -O -g g25g1,g25g2 -v one_dmn_rec_var in_grp_3.nc in_grp_3.nc -d time,2.,3. ~/foo.nc
+# ncra -Y ncrcat -h -O -g g25g1,g25g2 -v one_dmn_rec_var -p ~/nco/data in_grp_3.nc in_grp_3.nc -d time,2.,3. ~/foo.nc
$tst_cmd[0]="ncra -Y ncrcat $omp_flg -h -O $fl_fmt $nco_D_flg -g g25g1,g25g2 -v one_dmn_rec_var $in_pth_arg in_grp_3.nc in_grp_3.nc -d time,2.,3. %tmp_fl_00% 2> %tmp_fl_02%";
$tst_cmd[1]="ncks -C -H -s '%d ' -g g25g1 -v one_dmn_rec_var %tmp_fl_00%";
@@ -3603,7 +3601,7 @@ print "\n";
#ncrcat #24
# 2 groups each one with a record (part 2)
-# ncra -Y ncrcat -h -O -g g25g1,g25g2 -v one_dmn_rec_var in_grp_3.nc in_grp_3.nc -d time,2.,3. ~/foo.nc
+# ncra -Y ncrcat -h -O -g g25g1,g25g2 -v one_dmn_rec_var -p ~/nco/data in_grp_3.nc in_grp_3.nc -d time,2.,3. ~/foo.nc
$tst_cmd[0]="ncra -Y ncrcat $omp_flg -h -O $fl_fmt $nco_D_flg -g g25g1,g25g2 -v one_dmn_rec_var $in_pth_arg in_grp_3.nc in_grp_3.nc -d time,2.,3. %tmp_fl_00% 2> %tmp_fl_02%";
$tst_cmd[1]="ncks -C -H -s '%d ' -g g25g2 -v one_dmn_rec_var %tmp_fl_00%";
@@ -3662,8 +3660,8 @@ print "\n";
if($RUN_NETCDF4_TESTS == 1){
#ncrcat #28
-#ncks -h -O -g g4 -v one_dmn_rec_var in_grp.nc in_grp1.nc
-#ncrcat -h --no_tmp_fl --rec_apn -v one_dmn_rec_var in_grp.nc in_grp1.nc
+#ncks -h -O -g g4 -v one_dmn_rec_var ~/nco/data/in_grp.nc in_grp1.nc
+#ncrcat -h --no_tmp_fl --rec_apn -v one_dmn_rec_var ~/nco/data/in_grp.nc in_grp1.nc
$tst_cmd[0]="ncks $omp_flg -h -O $fl_fmt $nco_D_flg -g g4 -v one_dmn_rec_var $in_pth_arg in_grp.nc %tmp_fl_00%";
$tst_cmd[1]="ncrcat $omp_flg -h --no_tmp_fl --rec_apn $fl_fmt $nco_D_flg -g g4 -v one_dmn_rec_var $in_pth_arg in_grp.nc %tmp_fl_00%";
@@ -3675,8 +3673,8 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncrcat #29
-#ncks -h -O -g g5 -v one_dmn_rec_var,time51,time52 in_grp.nc in_grp1.nc
-#ncrcat -h --no_tmp_fl --rec_apn -g g5 -v one_dmn_rec_var in_grp.nc in_grp1.nc
+#ncks -h -O -g g5 -v one_dmn_rec_var,time51,time52 ~/nco/data/in_grp.nc in_grp1.nc
+#ncrcat -h --no_tmp_fl --rec_apn -g g5 -v one_dmn_rec_var ~/nco/data/in_grp.nc in_grp1.nc
$tst_cmd[0]="ncks $omp_flg -h -O $fl_fmt $nco_D_flg -g g5 -v one_dmn_rec_var,time51,time52 $in_pth_arg in_grp.nc %tmp_fl_00%";
$tst_cmd[1]="ncrcat $omp_flg -h --no_tmp_fl --rec_apn $fl_fmt $nco_D_flg -g g5 -v one_dmn_rec_var $in_pth_arg in_grp.nc %tmp_fl_00%";
@@ -3688,9 +3686,9 @@ print "\n";
$#tst_cmd=0; # Reset array
#ncrcat #30
-#ncks -h -O -g g5 -v one_dmn_rec_var,time51,time52 in_grp.nc in_grp1.nc
-#ncks -h -O -g g5 -v one_dmn_rec_var,time51,time52 in_grp.nc in_grp2.nc
-#ncrcat -O -h -g g5 -v one_dmn_rec_var in_grp1.nc in_grp2.nc ~/foo.nc
+#ncks -h -O -g g5 -v one_dmn_rec_var,time51,time52 ~/nco/data/in_grp.nc in_grp1.nc
+#ncks -h -O -g g5 -v one_dmn_rec_var,time51,time52 ~/nco/data/in_grp.nc in_grp2.nc
+#ncrcat -O -h -g g5 -v one_dmn_rec_var -p ~/nco/data in_grp1.nc in_grp2.nc ~/foo.nc
#ncks -C -g g5 -v one_dmn_rec_var ~/foo.nc
$tst_cmd[0]="ncks $omp_flg -h -O $fl_fmt $nco_D_flg -g g5 -v one_dmn_rec_var,time51,time52 $in_pth_arg in_grp.nc %tmp_fl_00%";
@@ -3716,12 +3714,12 @@ print "\n";
# ncra #01
# if($mpi_prc == 0 || ($mpi_prc > 0 && $localhostname !~ /sand/)){ # test hangs because of ncrcat TODO nco772
+ $dsc_sng="record sdn of float with double missing values across two files";
$tst_cmd[0]="ncra -Y ncrcat $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_flt_mss_val_dbl $in_pth_arg in.nc in.nc %tmp_fl_01% 2> %tmp_fl_00%";
$tst_cmd[1]="ncwa $omp_flg -h -O $fl_fmt $nco_D_flg -a time %tmp_fl_01% %tmp_fl_02%";
$tst_cmd[2]="ncdiff $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_flt_mss_val_dbl %tmp_fl_01% %tmp_fl_02% %tmp_fl_03%";
$tst_cmd[3]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -y rms -v rec_var_flt_mss_val_dbl %tmp_fl_03% %tmp_fl_00%";
$tst_cmd[4]="ncks -C -H -s '%f' -v rec_var_flt_mss_val_dbl %tmp_fl_00%";
- $dsc_sng="record sdn of float with double missing values across two files";
$tst_cmd[5]="2";
$tst_cmd[6]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3730,9 +3728,9 @@ print "\n";
# ncra #02
+ $dsc_sng="record mean of int across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v one_dmn_rec_var $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%d' -v one_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="record mean of int across two files";
$tst_cmd[2]="6";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3740,9 +3738,9 @@ print "\n";
# ncra #03
+ $dsc_sng="record mean of float with double missing values";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_flt_mss_val_dbl $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v rec_var_flt_mss_val_dbl %tmp_fl_00%";
- $dsc_sng="record mean of float with double missing values";
$tst_cmd[2]="5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3750,9 +3748,9 @@ print "\n";
# ncra #04
+ $dsc_sng="record mean of float with integer missing values";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_flt_mss_val_int $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v rec_var_flt_mss_val_int %tmp_fl_00%";
- $dsc_sng="record mean of float with integer missing values";
$tst_cmd[2]="5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3760,9 +3758,9 @@ print "\n";
# ncra #05
+ $dsc_sng="record mean of integer with integer missing values";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_int_mss_val_int $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%d' -v rec_var_int_mss_val_int %tmp_fl_00%";
- $dsc_sng="record mean of integer with integer missing values";
$tst_cmd[2]="5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3770,9 +3768,9 @@ print "\n";
# ncra #06
+ $dsc_sng="record mean of integer with integer missing values across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_int_mss_val_int $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%d' -v rec_var_int_mss_val_int %tmp_fl_00%";
- $dsc_sng="record mean of integer with integer missing values across two files";
$tst_cmd[2]="5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3780,9 +3778,9 @@ print "\n";
# ncra #07
+ $dsc_sng="record mean of integer with float missing values";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_int_mss_val_flt $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%d' -v rec_var_int_mss_val_flt %tmp_fl_00%";
- $dsc_sng="record mean of integer with float missing values";
$tst_cmd[2]="5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3790,9 +3788,9 @@ print "\n";
# ncra #08
+ $dsc_sng="record mean of integer with float missing values across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_int_mss_val_flt $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%d' -v rec_var_int_mss_val_flt %tmp_fl_00%";
- $dsc_sng="record mean of integer with float missing values across two files";
$tst_cmd[2]="5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3800,9 +3798,9 @@ print "\n";
# ncra #09
+ $dsc_sng="record mean of packed double with double missing values";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_dbl_mss_val_dbl_pck $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v rec_var_dbl_mss_val_dbl_pck %tmp_fl_00%";
- $dsc_sng="record mean of packed double with double missing values";
$tst_cmd[2]="5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3810,9 +3808,9 @@ print "\n";
# ncra #10
+ $dsc_sng="record mean of packed double to test precision";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_dbl_pck $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v rec_var_dbl_pck %tmp_fl_00%";
- $dsc_sng="record mean of packed double to test precision";
$tst_cmd[2]="100.55";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3820,9 +3818,9 @@ print "\n";
# ncra #11
+ $dsc_sng="record mean of packed float to test precision";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v rec_var_flt_pck $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%3.2f' -v rec_var_flt_pck %tmp_fl_00%";
- $dsc_sng="record mean of packed float to test precision";
$tst_cmd[2]="100.55";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3830,9 +3828,9 @@ print "\n";
# ncra #12
+ $dsc_sng="pass through non-record (i.e., non-processed) packed data to output";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -v pck,one_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%d' -v pck %tmp_fl_00%";
- $dsc_sng="pass through non-record (i.e., non-processed) packed data to output";
$tst_cmd[2]="1";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3840,9 +3838,9 @@ print "\n";
# ncra #13
+ $dsc_sng="record mean of float with double missing values across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -y avg -v rec_var_flt_mss_val_dbl $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v rec_var_flt_mss_val_dbl %tmp_fl_00%";
- $dsc_sng="record mean of float with double missing values across two files";
$tst_cmd[2]="5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3850,9 +3848,9 @@ print "\n";
# ncra #14
+ $dsc_sng="record min of float with double missing values across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -y min -v rec_var_flt_mss_val_dbl $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v rec_var_flt_mss_val_dbl %tmp_fl_00%";
- $dsc_sng="record min of float with double missing values across two files";
$tst_cmd[2]="2";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3860,9 +3858,9 @@ print "\n";
# ncra #15
+ $dsc_sng="record max of float with double missing values across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -y max -v rec_var_flt_mss_val_dbl $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v rec_var_flt_mss_val_dbl %tmp_fl_00%";
- $dsc_sng="record max of float with double missing values across two files";
$tst_cmd[2]="8";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3870,9 +3868,9 @@ print "\n";
# ncra #16
+ $dsc_sng="record ttl of float with double missing values across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -y ttl -v rec_var_flt_mss_val_dbl $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v rec_var_flt_mss_val_dbl %tmp_fl_00%";
- $dsc_sng="record ttl of float with double missing values across two files";
$tst_cmd[2]="70";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3880,9 +3878,9 @@ print "\n";
# ncra #17
+ $dsc_sng="record rms of float with double missing values across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -y rms -v rec_var_flt_mss_val_dbl $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%1.5f' -v rec_var_flt_mss_val_dbl %tmp_fl_00%";
- $dsc_sng="record rms of float with double missing values across two files";
$tst_cmd[2]="5.38516";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3890,9 +3888,9 @@ print "\n";
# ncra #18
+ $dsc_sng="Return mean time coordinate (when computing totals) across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -y ttl -v time,one_dmn_rec_var $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%f' -v time %tmp_fl_00%";
- $dsc_sng="Return mean time coordinate (when computing totals) across two files";
$tst_cmd[2]="5.5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3900,9 +3898,9 @@ print "\n";
# ncra #19
+ $dsc_sng="Return total record (when computing totals) across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -y ttl -v time,one_dmn_rec_var $in_pth_arg in.nc in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%d' -v one_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="Return total record (when computing totals) across two files";
$tst_cmd[2]="110";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3910,9 +3908,9 @@ print "\n";
# ncra #20
+ $dsc_sng="Return record average of cell-based geodesic data";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -X 0.,180.,-30.,30. -v gds_3dvar $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -H -s '%8.1f' -v gds_3dvar %tmp_fl_00%";
- $dsc_sng="Return record average of cell-based geodesic data";
$tst_cmd[2]=" 277.7 277.8 277.9 278.0 278.1 278.2";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3952,9 +3950,9 @@ print "\n";
# ncra #23
# same as ncra #02, for groups
+ $dsc_sng="(Groups) 1 group -g g4 -v one_dmn_rec_var record mean of int across two files";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g4 -v one_dmn_rec_var $in_pth_arg in_grp.nc in_grp.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g g4 -v one_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="(Groups) 1 group -g g4 -v one_dmn_rec_var record mean of int across two files";
$tst_cmd[2]="time[0]=5.5 one_dmn_rec_var[0]=6 kelvin";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3964,21 +3962,20 @@ print "\n";
# ncra #24
# (Groups) 1 record to process in 1 group
- $tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g23 $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -C -H -g g23 -v time %tmp_fl_00%";
$dsc_sng="(Groups) 1 record to process in 1 group -g g23 (do variable and record in group) ";
+ $tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g23 $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -H -g g23 -v time %tmp_fl_00%";
$tst_cmd[2]="time[0]=1.5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-
# ncra #25
# (Groups) 2 records to process in 2 groups (part 1)
- $tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g23,g24 -v time $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -C -H -g g23 -v time %tmp_fl_00%";
$dsc_sng="(Groups) 2 records to process in 2 groups (part 1) (do record in group only)";
+ $tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g23,g24 -v time $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -H -g g23 -v time %tmp_fl_00%";
$tst_cmd[2]="time[0]=1.5";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -3987,22 +3984,21 @@ print "\n";
# ncra #26
# (Groups) 2 records to process in 2 groups (part 2)
- $tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g23,g24 -v time $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks -C -H -g g24 -v time %tmp_fl_00%";
$dsc_sng="(Groups) 2 records to process in 2 groups (part 2) (do record in group only)";
+ $tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g23,g24 -v time $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -C -H -g g24 -v time %tmp_fl_00%";
$tst_cmd[2]="time[0]=4";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
-
# ncra #27
# (Groups) 1D var 2 records to process in 2 groups (part 1)
-# ncra -h -O -g g25g1,g25g2 in_grp_3.nc in_grp_3.nc ~/foo.nc
+# ncra -h -O -g g25g1,g25g2 -p ~/nco/data in_grp_3.nc in_grp_3.nc ~/foo.nc
+ $dsc_sng="(Groups) 2 records to process in 2 groups (part 1) (1D variable and record in group)";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g25g1,g25g2 $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g g25g1 -v one_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="(Groups) 2 records to process in 2 groups (part 1) (1D variable and record in group)";
$tst_cmd[2]="time[0]=5.5 one_dmn_rec_var[0]=6";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -4010,26 +4006,27 @@ print "\n";
# ncra #28 same as #27
# (Groups) 1D var 2 records to process in 2 groups (part 2)
-# ncra -h -O -g g25g1,g25g2 in_grp_3.nc in_grp_3.nc ~/foo.nc
+# ncra -h -O -g g25g1,g25g2 -p ~/nco/data in_grp_3.nc in_grp_3.nc ~/foo.nc
+ $dsc_sng="(Groups) 2 records to process in 2 groups (part 2) (1D variable and record in group)";
$tst_cmd[0]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg -g g25g1,g25g2 $in_pth_arg in_grp_3.nc in_grp_3.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -C -g g25g2 -v one_dmn_rec_var %tmp_fl_00%";
- $dsc_sng="(Groups) 2 records to process in 2 groups (part 2) (1D variable and record in group)";
$tst_cmd[2]="time[0]=5.5 one_dmn_rec_var[0]=6";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
$#tst_cmd=0; # Reset array
# ncra #29 Generate a file with 2 records
-# ncecat -O -g g25g1 in_grp_3.nc in1.nc -> generate "record"
-# ncpdq -O -a time,record in1.nc in2.nc -> switch "record" and "time"
-# ncra -O in2.nc ~/foo.nc
+# ncecat -O -g g25g1 ~/nco/data/in_grp_3.nc ~/foo1.nc # generate "record"
+# ncpdq -O -a time,record ~/foo1.nc ~/foo2.nc # switch "record" and "time"
+# ncra -O ~/foo2.nc ~/foo.nc
+# ncks -C -g g25g1 -v one_dmn_rec_var ~/foo.nc
+ $dsc_sng="(Groups) 2 records in 1 group ('time' same as record, 1st record)";
$tst_cmd[0]="ncecat $omp_flg -h -O $fl_fmt $nco_D_flg -g g25g1 $in_pth_arg in_grp_3.nc %tmp_fl_00%";
- $tst_cmd[1]="ncpdq $omp_flg -h -O $fl_fmt $nco_D_flg -a time,record %tmp_fl_00% %tmp_fl_01%";
- $tst_cmd[2]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg %tmp_fl_01% %tmp_fl_02%";
+ $tst_cmd[1]="ncpdq $omp_flg -h -O $fl_fmt $nco_D_flg -a time,record %tmp_fl_00% %tmp_fl_01%";
+ $tst_cmd[2]="ncra $omp_flg -h -O $fl_fmt $nco_D_flg %tmp_fl_01% %tmp_fl_02%";
$tst_cmd[3]="ncks -C -g g25g1 -v one_dmn_rec_var %tmp_fl_02%";
- $dsc_sng="(Groups) 2 records in 1 group ('time' same as record, 1st record)";
$tst_cmd[4]="time[0]=5.5 record[0] one_dmn_rec_var[0]=6";
$tst_cmd[5]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@@ -4313,7 +4310,7 @@ if (0){
# will fail SS - ncks not the last cmd
@tst_cmd=(); # really reset array. $#tst_cmd=0; sets last index=0 --> list has one element.
- push(@tst_cmd, "ncwa $omp_flg -h -O $fl_fmt $nco_D_flg -y min -v three_dmn_var_dbl -a lon $in_pth_arg in.nc %tmp_fl_00%");
+ push(@tst_cmd, "ncwa $omp_flg -h -O $fl_fmt $nco_D_flg -y min -v three_dmn_var_dbl -a lon $in_pth_arg in.nc %tmp_fl_00%");
push(@tst_cmd, "ncks -C -H --no_blank -s '%f' -v three_dmn_var_dbl -d time,3 -d lat,0 %tmp_fl_00%");
# used to cut for field 7. (1 + 3x2 + 0x1=7)
$dsc_sng="Dimension reduction with min switch and missing values";
@@ -4325,7 +4322,7 @@ if (0){
#ncwa #21
# will fail SS - ncks not the last cmd
- push(@tst_cmd, "ncwa $omp_flg -h -O $fl_fmt $nco_D_flg -y min -v three_dmn_var_dbl -a lon $in_pth_arg in.nc %tmp_fl_00%");
+ push(@tst_cmd, "ncwa $omp_flg -h -O $fl_fmt $nco_D_flg -y min -v three_dmn_var_dbl -a lon $in_pth_arg in.nc %tmp_fl_00%");
push(@tst_cmd, "ncks -C -H -s '%f' -v three_dmn_var_dbl -d time,9 -d lat,1 %tmp_fl_00%");
# used to cut for field 20. (1 + 9x2 + 1x1 = 20)
$dsc_sng="Dimension reduction with min switch";
@@ -4596,7 +4593,7 @@ if (0){
#ncwa #44
#NEW NCO 4.3.3
#same as #ncwa #25
-#ncwa -h -O -y min -g g10 -v three_dmn_rec_var in_grp.nc ~/foo.nc
+#ncwa -h -O -y min -g g10 -v three_dmn_rec_var ~/nco/data/in_grp.nc ~/foo.nc
#ncks -C -H -s '%f' -g g10 -v three_dmn_rec_var ~/foo.nc
#$tst_cmd[0]="ncwa $omp_flg -h -O $fl_fmt $nco_D_flg -y min -v three_dmn_rec_var $in_pth_arg in.nc %tmp_fl_00% 2> %tmp_fl_02%";
#$tst_cmd[1]="ncks -C -H -s '%f' -v three_dmn_rec_var %tmp_fl_00%";
@@ -4698,7 +4695,7 @@ if (0){
#NEW 4.3.7
#ncwa #51
-# ncwa -h -O -a time -b -v time in_grp.nc ~/foo.nc
+# ncwa -h -O -a time -b -v time ~/nco/data/in_grp.nc ~/foo.nc
# ncks ~/foo.nc | grep 'time dimension 0'
$tst_cmd[0]="ncwa $omp_flg -h -O $fl_fmt $nco_D_flg -a time -b -v time $in_pth_arg in_grp.nc %tmp_fl_00%";
@@ -4754,10 +4751,10 @@ if (0){
#NEW 4.4.0
#ncwa #55
-#ncwa -O -4 -a time --cnk_dmn lon,4 -v byt_3D_rec ~/nco/data/in.nc ~/foo.nc
-
+#ncwa -O -4 -a time --cnk_min=1 --cnk_plc=xpl --cnk_dmn lon,4 -v byt_3D_rec ~/nco/data/in.nc ~/foo.nc
+#ncks -m ~/foo.nc | grep 'byt_3D_rec dimension 1'
$dsc_sng="Chunking -a time --cnk_dmn lon,4 -v byt_3D_rec";
- $tst_cmd[0]="ncwa $omp_flg -O -4 $nco_D_flg -a time --cnk_dmn lon,4 -v byt_3D_rec $in_pth_arg in.nc %tmp_fl_00%";
+ $tst_cmd[0]="ncwa $omp_flg -O -4 $nco_D_flg -a time --cnk_min=1 --cnk_plc=xpl --cnk_dmn lon,4 -v byt_3D_rec $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks -m %tmp_fl_00% | grep 'byt_3D_rec dimension 1'";
$tst_cmd[2]="byt_3D_rec dimension 1: lon, size = 4 NC_FLOAT, chunksize = 4 (Coordinate is lon)";
$tst_cmd[3]="SS_OK";
@@ -4778,11 +4775,11 @@ if (0){
#NEW 4.4.0
#ncwa #57
-#ncwa -O -C -4 -D 12 --rdd -a lon,lat -v four_dmn_rec_var --cnk_dmn lat,2 --cnk_dmn lon,4 ~/nco/data/in.nc ~/foo.nc
+#ncwa -O -C -4 -D 1 --rdd -a lon,lat -v four_dmn_rec_var --cnk_plc=xpl --cnk_dmn lat,2 --cnk_dmn lon,4 ~/nco/data/in.nc ~/foo.nc
#ncks --hdn --cdl -v four_dmn_rec_var ~/foo.nc
- $dsc_sng="Chunking with --rdd -a lon,lat -v four_dmn_rec_var --cnk_dmn lat,2 --cnk_dmn lon,4 ";
- $tst_cmd[0]="ncwa $omp_flg -O -C -4 $nco_D_flg --rdd -a lon,lat -v four_dmn_rec_var --cnk_dmn lat,2 --cnk_dmn lon,4 $in_pth_arg in.nc %tmp_fl_00%";
+ $dsc_sng="Chunking with --rdd -a lon,lat -v four_dmn_rec_var --cnk_plc=xpl --cnk_dmn lat,2 --cnk_dmn lon,4 ";
+ $tst_cmd[0]="ncwa $omp_flg -O -C -4 $nco_D_flg --rdd -a lon,lat -v four_dmn_rec_var --cnk_plc=xpl --cnk_dmn lat,2 --cnk_dmn lon,4 $in_pth_arg in.nc %tmp_fl_00%";
$tst_cmd[1]="ncks --hdn --cdl -v four_dmn_rec_var %tmp_fl_00% | grep 'four_dmn_rec_var:_ChunkSizes'";
$tst_cmd[2]=" four_dmn_rec_var:_ChunkSizes = 1, 1, 3, 1 ;";
$tst_cmd[3]="SS_OK";
@@ -4911,7 +4908,7 @@ if (0){
#################### Attributes
#ncrename #1
-#ncrename -O -a .nothing,new_nothing in_grp.nc ~/foo.nc
+#ncrename -O -a .nothing,new_nothing ~/nco/data/in_grp.nc ~/foo.nc
#optional relative rename nothing to new_nothing (print warning)
$dsc_sng="Attributes: Optional relative rename '.nothing' to 'new_nothing'";
@@ -4922,19 +4919,19 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #2
-#ncrename -O -a history,new_history in_grp.nc ~/foo.nc
+#ncrename -O -h -a .history,new_history ~/nco/data/in_grp.nc ~/foo.nc
#relative rename history to new_history
$dsc_sng="Attributes: Relative rename 'history' to 'new_history'";
- $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -a global\@history,new_history $in_pth_arg in_grp.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks %tmp_fl_00% | grep 'History global attribute'";
- $tst_cmd[2]="Global attribute 3: new_history, size = 26 NC_CHAR, value = History global attribute.";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -h -a .history,new_history $in_pth_arg in_grp.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks %tmp_fl_00% | grep new_history | cut -d ' ' -f 4";
+ $tst_cmd[2]="new_history,";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@tst_cmd=(); # really reset array.
#ncrename #3
-#ncrename -D 1 -O -a /g1 at history,new_history in_grp.nc ~/foo.nc
+#ncrename -D 1 -O -a /g1 at history,new_history ~/nco/data/in_grp.nc ~/foo.nc
#ncks -g g1 ~/foo.nc | grep 'History group attribute'
# absolute rename /g1/history group/global att to /g1/new_history
# NB: use escape in '/g1\@history,new_history'
@@ -4949,19 +4946,19 @@ if (0){
#ncrename #4
-#ncrename -O -a global at history,new_history in_grp.nc ~/foo.nc
+#ncrename -O -h -a global at history,new_history ~/nco/data/in_grp.nc ~/foo.nc
# relative rename history group/global att to new_history
$dsc_sng="Attributes: Relative rename 'global\@history' to 'new_history'";
- $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -a 'global\@history,new_history' $in_pth_arg in_grp.nc %tmp_fl_00%";
- $tst_cmd[1]="ncks %tmp_fl_00% | grep 'History global attribute'";
- $tst_cmd[2]="Global attribute 3: new_history, size = 26 NC_CHAR, value = History global attribute.";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -h -a 'global\@history,new_history' $in_pth_arg in_grp.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks %tmp_fl_00% | grep new_history | cut -d ' ' -f 4";
+ $tst_cmd[2]="new_history,";
$tst_cmd[3]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@tst_cmd=(); # really reset array.
#ncrename #5
-#ncrename -O -a /g1/lon at units,new_units in_grp.nc ~/foo.nc
+#ncrename -O -a /g1/lon at units,new_units ~/nco/data/in_grp.nc ~/foo.nc
# absolute rename /g1/lon at units att to /g1/lon at new_units
$dsc_sng="Attributes: Absolute rename '/g1/lon\@units' to 'new_units'";
@@ -4973,7 +4970,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #6
-#ncrename -D 1 -O -a /g1/lon at units,/g1/lon at new_units in_grp.nc ~/foo.nc
+#ncrename -D 1 -O -a /g1/lon at units,/g1/lon at new_units ~/nco/data/in_grp.nc ~/foo.nc
#absolute rename /g1/lon at units att to /g1/lon at new_units
$dsc_sng="Attributes: Absolute rename '/g1/lon\@units' to '/g1/lon\@new_units'";
@@ -4985,7 +4982,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #7
-#ncrename -O -a /g1/lon at .units,new_units in_grp.nc ~/foo.nc
+#ncrename -O -a /g1/lon at .units,new_units ~/nco/data/in_grp.nc ~/foo.nc
# optional absolute rename /g1/lon at .units att to new_units
$dsc_sng="Attributes: Optional absolute rename '/g1/lon\@.units' to '/g1/lon\@new_units'";
@@ -5001,7 +4998,7 @@ if (0){
if($RUN_NETCDF4_TESTS_VERSION_GE_431 == 1){
#ncrename #8
-#ncrename -O -d lat,new_lat in_grp.nc ~/foo.nc
+#ncrename -O -d lat,new_lat ~/nco/data/in_grp.nc ~/foo.nc
# relative rename lat to new_lat
$dsc_sng="Dimensions: Relative rename 'lat' to 'new_lat' (expect failure with netCDF < 4.3.1)";
@@ -5013,7 +5010,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #9
-#ncrename -O -d /lat,new_lat in_grp.nc ~/foo.nc
+#ncrename -O -d /lat,new_lat ~/nco/data/in_grp.nc ~/foo.nc
# Absolute rename /lat to new_lat
$dsc_sng="Dimensions: Absolute rename '/lat' to 'new_lat' (expect failure with netCDF < 4.3.1)";
@@ -5025,7 +5022,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #10
-#ncrename -O -d .lat,new_lat in_grp.nc ~/foo.nc
+#ncrename -O -d .lat,new_lat ~/nco/data/in_grp.nc ~/foo.nc
# optional relative rename lat to new_lat
$dsc_sng="Dimensions: Optional existing relative rename '.lat' to 'new_lat' (expect failure with netCDF < 4.3.1)";
@@ -5037,7 +5034,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #11
-#ncrename -O -d /lat,new_lat in_grp.nc ~/foo.nc
+#ncrename -O -d /lat,new_lat ~/nco/data/in_grp.nc ~/foo.nc
# Absolute rename /lat to new_lat
$dsc_sng="Dimensions: Optional existing absolute rename './lat' to 'new_lat' (expect failure with netCDF < 4.3.1)";
@@ -5051,7 +5048,7 @@ if (0){
} # RUN_NETCDF4_TESTS_VERSION_GE_431
#ncrename #12
-#ncrename -O -d ./lat_non_existing,new_lat in_grp.nc ~/foo.nc
+#ncrename -O -d ./lat_non_existing,new_lat ~/nco/data/in_grp.nc ~/foo.nc
# Absolute non existing absolute rename
$dsc_sng="Dimensions: Optional non-existing absolute rename './lat_non_existing,new_lat' to 'new_lat'";
@@ -5064,7 +5061,7 @@ if (0){
#################### Variables
#ncrename #13
-#ncrename -D 1 -O -v /g1/v1,new_v1 in_grp.nc ~/foo.nc
+#ncrename -D 1 -O -v /g1/v1,new_v1 ~/nco/data/in_grp.nc ~/foo.nc
#Absolute rename /g1/v1 to /g1/new_v1
$dsc_sng="Variables: Absolute rename '/g1/v1' to '/g1/new_v1'";
@@ -5077,7 +5074,7 @@ if (0){
#ncrename #14
-#ncrename -D 1 -O -v v1,new_v1 in_grp.nc ~/foo.nc
+#ncrename -D 1 -O -v v1,new_v1 ~/nco/data/in_grp.nc ~/foo.nc
#Relative rename v1 to new_v1
$dsc_sng="Variables: Relative rename 'v1' to 'new_v1'";
@@ -5089,7 +5086,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #15
-#ncrename -D 1 -O -v ./g1/v1,new_v1 in_grp.nc ~/foo.nc
+#ncrename -D 1 -O -v ./g1/v1,new_v1 ~/nco/data/in_grp.nc ~/foo.nc
#Absolute rename /g1/v1 to /g1/new_v1
$dsc_sng="Variables: Optional absolute rename '/g1/v1' to '/g1/new_v1'";
@@ -5101,7 +5098,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #16
-#ncrename -D 1 -O -v .v1,new_v1 in_grp.nc ~/foo.nc
+#ncrename -D 1 -O -v .v1,new_v1 ~/nco/data/in_grp.nc ~/foo.nc
#Optional Relative rename v1 to new_v1
$dsc_sng="Variables: Optional relative rename 'v1' to 'new_v1'";
@@ -5126,7 +5123,7 @@ if (0){
#################### Groups
#ncrename #18
-#ncrename -O -g g1,new_g1 in_grp.nc ~/foo.nc
+#ncrename -O -g g1,new_g1 ~/nco/data/in_grp.nc ~/foo.nc
# relative rename g1 to new_g1
if($RUN_NETCDF4_TESTS_VERSION_GE_431 == 1){
@@ -5140,7 +5137,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #19
-#ncrename -O -g g1g1,new_g1g1 in_grp.nc ~/foo.nc
+#ncrename -O -g g1g1,new_g1g1 ~/nco/data/in_grp.nc ~/foo.nc
#relative rename g1g1 to new_g1g1
$dsc_sng="Groups: Relative rename 'g1g1' to 'new_g1g1' (expect failure with netCDF < 4.3.1)";
@@ -5152,7 +5149,7 @@ if (0){
@tst_cmd=(); # really reset array.
#ncrename #20
-#ncrename -D 1 -O -g /g1/g1g1,new_g1g1 in_grp.nc ~/foo.nc
+#ncrename -D 1 -O -g /g1/g1g1,new_g1g1 ~/nco/data/in_grp.nc ~/foo.nc
#Absolute rename -g /g1/g1g1,new_g1g1
$dsc_sng="Groups: Absolute rename '/g1/g1g1' to '/g1/new_g1g1' (expect failure with netCDF < 4.3.1)";
@@ -5166,7 +5163,7 @@ if (0){
} # RUN_NETCDF4_TESTS_VERSION_GE_431
#ncrename #21
-#ncrename -O -g .gfoo,new_g1 in_grp.nc ~/foo.nc
+#ncrename -O -g .gfoo,new_g1 ~/nco/data/in_grp.nc ~/foo.nc
# optional relative rename gfoo to new_g1 (print warning)
$dsc_sng="Groups: Optional relative rename '.gfoo' to 'new_g1'";
@@ -5179,7 +5176,7 @@ if (0){
#################### Variables
#ncrename #22 (same as #13)
-#ncrename -D 1 -O -v /g1/v1,/g1/new_v1 in_grp.nc ~/foo.nc
+#ncrename -D 1 -O -v /g1/v1,/g1/new_v1 ~/nco/data/in_grp.nc ~/foo.nc
#Absolute rename /g1/v1 to /g1/new_v1
$dsc_sng="Variables: Absolute rename '/g1/v1' to '/g1/new_v1' (input absolute name)";
@@ -5236,7 +5233,124 @@ if (0){
$tst_cmd[2]="SS_OK";
NCO_bm::tst_run(\@tst_cmd);
@tst_cmd=(); # really reset array.
- } # endif
+ } # endif 0
+
+#ncrename #28
+#ncrename -O -d time,newrec ~/nco/data/in.nc ~/foo.nc
+#ncks -s %g -H -g // -v time -d newrec,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate dimension in netCDF3 file
+
+ $dsc_sng="netCDF3: Valid values after renaming coordinate dimension in netCDF3 file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -d time,newrec $in_pth_arg in.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v time -d newrec,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
+
+#ncrename #29
+#ncrename -O -v time,newrec ~/nco/data/in.nc ~/foo.nc
+#ncks -s %g -H -g // -v newrec -d time,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate variable in netCDF3 file
+
+ $dsc_sng="netCDF3: Valid values after renaming coordinate variable in netCDF3 file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -v time,newrec $in_pth_arg in.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v newrec -d time,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
+
+#ncrename #30
+#ncrename -O -d time,newrec -v time,newrec ~/nco/data/in.nc ~/foo.nc
+#ncks -s %g -H -g // -v newrec -d newrec,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate dimension and variable in netCDF3 file
+
+ $dsc_sng="netCDF3: Valid values after renaming coordinate dimension and variable in netCDF3 file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -d time,newrec -v time,newrec $in_pth_arg in.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v newrec -d newrec,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
+
+#ncrename #28
+#ncrename -O -d time,newrec ~/nco/data/in_4c.nc ~/foo.nc
+#ncks -s %g -H -g // -v time -d newrec,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate dimension in netCDF4-classic file
+
+ $dsc_sng="netCDF4-classic: Valid values after renaming coordinate dimension in netCDF4-classic file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -d time,newrec $in_pth_arg in_4c.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v time -d newrec,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
+
+#ncrename #29
+#ncrename -O -v time,newrec ~/nco/data/in_4c.nc ~/foo.nc
+#ncks -s %g -H -g // -v newrec -d time,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate variable in netCDF4-classic file
+
+ $dsc_sng="netCDF4-classic: Valid values after renaming coordinate variable in netCDF4-classic file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -v time,newrec $in_pth_arg in_4c.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v newrec -d time,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
+
+#ncrename #30
+#ncrename -O -d time,newrec -v time,newrec ~/nco/data/in_4c.nc ~/foo.nc
+#ncks -s %g -H -g // -v newrec -d newrec,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate dimension and variable in netCDF4-classic file
+
+ $dsc_sng="netCDF4-classic: Valid values after renaming coordinate dimension and variable in netCDF4-classic file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -d time,newrec -v time,newrec $in_pth_arg in_4c.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v newrec -d newrec,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
+
+#ncrename #28
+#ncrename -O -d time,newrec ~/nco/data/in_grp.nc ~/foo.nc
+#ncks -s %g -H -g // -v time -d newrec,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate dimension in netCDF4 file
+
+ $dsc_sng="netCDF4: Valid values after renaming coordinate dimension in netCDF4 file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -d time,newrec $in_pth_arg in_grp.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v time -d newrec,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
+
+#ncrename #29
+#ncrename -O -v time,newrec ~/nco/data/in_grp.nc ~/foo.nc
+#ncks -s %g -H -g // -v newrec -d time,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate variable in netCDF4 file
+
+ $dsc_sng="netCDF4: Valid values after renaming coordinate variable in netCDF4 file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -v time,newrec $in_pth_arg in_grp.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v newrec -d time,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
+
+#ncrename #30
+#ncrename -O -d time,newrec -v time,newrec ~/nco/data/in_grp.nc ~/foo.nc
+#ncks -s %g -H -g // -v newrec -d newrec,0 -C ~/foo.nc
+# Check for valid values after renaming coordinate dimension and variable in netCDF4 file
+
+ $dsc_sng="netCDF4: Valid values after renaming coordinate dimension and variable in netCDF4 file";
+ $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -d time,newrec -v time,newrec $in_pth_arg in_grp.nc %tmp_fl_00%";
+ $tst_cmd[1]="ncks -s %g -H -g // -v newrec -d newrec,0 -C %tmp_fl_00%";
+ $tst_cmd[2]="1";
+ $tst_cmd[3]="SS_OK";
+ NCO_bm::tst_run(\@tst_cmd);
+ @tst_cmd=(); # really reset array.
#print "paused - hit return to continue"; my $wait=<STDIN>;
diff --git a/configure b/configure
index a561992..9e2677b 100755
--- a/configure
+++ b/configure
@@ -1,6 +1,6 @@
#! /bin/sh
# Guess values for system-dependent variables and create Makefiles.
-# Generated by GNU Autoconf 2.69 for NCO netCDF Operators 4.4.6.
+# Generated by GNU Autoconf 2.69 for NCO netCDF Operators 4.4.7.
#
# Report bugs to <nco-bugs at lists.sourceforge.net>.
#
@@ -592,8 +592,8 @@ MAKEFLAGS=
# Identity of this package.
PACKAGE_NAME='NCO netCDF Operators'
PACKAGE_TARNAME='nco'
-PACKAGE_VERSION='4.4.6'
-PACKAGE_STRING='NCO netCDF Operators 4.4.6'
+PACKAGE_VERSION='4.4.7'
+PACKAGE_STRING='NCO netCDF Operators 4.4.7'
PACKAGE_BUGREPORT='nco-bugs at lists.sourceforge.net'
PACKAGE_URL=''
@@ -654,7 +654,7 @@ ANTLR_ROOT
NCO_NEED_GETOPT_LONG_FALSE
NCO_NEED_GETOPT_LONG_TRUE
OPENMP_CFLAGS
-NETCDF4_ROOT
+NETCDF_ROOT
NETCDF_LIB
NETCDF_INC
POW_LIB
@@ -809,7 +809,7 @@ enable_largefile
enable_netcdf4
enable_netcdf_4
enable_openmp
-enable_dap_netcdf
+enable_dap
enable_ncoxx
enable_ncap2
enable_mpi
@@ -841,7 +841,7 @@ YACC
YFLAGS
NETCDF_INC
NETCDF_LIB
-NETCDF4_ROOT
+NETCDF_ROOT
ANTLR_ROOT
I18N_SHARE
UDUNITS2_PATH'
@@ -1385,7 +1385,7 @@ if test "$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 4.4.6 to adapt to many kinds of systems.
+\`configure' configures NCO netCDF Operators 4.4.7 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 $ac_init_help in
- short | recursive ) echo "Configuration of NCO netCDF Operators 4.4.6:";;
+ short | recursive ) echo "Configuration of NCO netCDF Operators 4.4.7:";;
esac
cat <<\_ACEOF
@@ -1542,8 +1542,7 @@ Some influential environment variables:
default value of `-d' given by some make applications.
NETCDF_INC Location of netCDF headers (compile-time)
NETCDF_LIB Location of netCDF library (compile-time)
- NETCDF4_ROOT
- Root of netCDF4 installation (compile-time)
+ NETCDF_ROOT Root of netCDF4 installation (compile-time)
ANTLR_ROOT Location of ANTLR version 2.7.x installation (compile-time)
I18N_SHARE Root of internationalization (i18n) locale directories
(run-time)
@@ -1617,7 +1616,7 @@ fi
test -n "$ac_init_help" && exit $ac_status
if $ac_init_version; then
cat <<\_ACEOF
-NCO netCDF Operators configure 4.4.6
+NCO netCDF Operators configure 4.4.7
generated by GNU Autoconf 2.69
Copyright (C) 2012 Free Software Foundation, Inc.
@@ -2483,7 +2482,7 @@ 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 4.4.6, which was
+It was created by NCO netCDF Operators $as_me 4.4.7, which was
generated by GNU Autoconf 2.69. Invocation command line was
$ $0 $@
@@ -3732,7 +3731,7 @@ fi
# Define the identity of the package.
PACKAGE='nco'
- VERSION='4.4.6'
+ VERSION='4.4.7'
cat >>confdefs.h <<_ACEOF
@@ -17652,7 +17651,7 @@ fi
fi # !netCDF4
-# Test if user set NETCDF4_ROOT and it exists
+# Test if user set NETCDF_ROOT and it exists
if test "x${enable_netcdf4}" = 'xyes'; then
if test -z "${NETCDF_ROOT}"; then
NETCDF_CONFIG='nc-config'
@@ -17823,9 +17822,9 @@ fi
echo "Beginning generic tests for DAP support"
# Store pre-DAP LIBS value to restore from later
nco_LIBS_no_DAP="${LIBS}"
-# Check whether --enable-dap-netcdf was given.
-if test "${enable_dap_netcdf+set}" = set; then :
- enableval=$enable_dap_netcdf; enable_dap=${enableval}
+# Check whether --enable-dap was given.
+if test "${enable_dap+set}" = set; then :
+ enableval=$enable_dap; enable_dap=${enableval}
else
enable_dap=yes
fi
@@ -20975,7 +20974,7 @@ 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 4.4.6, which was
+This file was extended by NCO netCDF Operators $as_me 4.4.7, which was
generated by GNU Autoconf 2.69. Invocation command line was
CONFIG_FILES = $CONFIG_FILES
@@ -21041,7 +21040,7 @@ _ACEOF
cat >>$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 4.4.6
+NCO netCDF Operators config.status 4.4.7
configured by $0, generated by GNU Autoconf 2.69,
with options \\"\$ac_cs_config\\"
@@ -23090,22 +23089,22 @@ echo "CPP.................. ${CPP}"
echo "CPPFLAGS............. ${CPPFLAGS}"
echo "CXX.................. ${CXX}"
echo "CXXFLAGS............. ${CXXFLAGS}"
-echo "OPENMP_CFLAGS........ ${OPENMP_CFLAGS}"
echo "ENABLE_DAP........... ${enable_dap}"
echo "ENABLE_GSL........... ${enable_gsl}"
-echo "HAVE_NETCDF4_H....... ${header_defines_nc_chunked}"
echo "ENABLE_NETCDF4....... ${enable_netcdf4}"
-echo "NETCDF4_ROOT......... ${NETCDF4_ROOT}"
echo "ENABLE_UDUNITS....... ${enable_udunits}"
echo "ENABLE_UDUNITS2...... ${enable_udunits2}"
echo "GSL_ROOT............. ${GSL_ROOT}"
echo "HAVE_ANTLR........... ${HAVE_ANTLR}"
echo "HAVE_MAKEINFO........ ${HAVE_MAKEINFO}"
+echo "HAVE_NETCDF4_H....... ${header_defines_nc_chunked}"
echo "HOST................. ${HOST}"
-echo "host................. ${host}"
echo "HOSTNAME............. ${HOSTNAME}"
echo "LDFLAGS.............. ${LDFLAGS}"
echo "LIBS................. ${LIBS}"
+echo "NETCDF_ROOT.......... ${NETCDF_ROOT}"
+echo "OPENMP_CFLAGS........ ${OPENMP_CFLAGS}"
+echo "host................. ${host}"
echo "install prefix ...... ${prefix}"
# Inform users of the very useful configure.eg
echo "*******************************************************************"
diff --git a/configure.ac b/configure.ac
index 256ceeb..06f4720 100644
--- a/configure.ac
+++ b/configure.ac
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/configure.ac,v 1.49 2014/09/16 23:31:37 zender Exp $ -*-Shell-script-*-
+# $Header: /cvsroot/nco/nco/configure.ac,v 1.52 2014/10/22 18:47:06 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],[4.4.6],[nco-bugs at lists.sourceforge.net],[nco])
+AC_INIT([NCO netCDF Operators],[4.4.7],[nco-bugs at lists.sourceforge.net],[nco])
# Print GNU copyright in configure script
AC_COPYRIGHT
@@ -273,9 +273,9 @@ AC_ARG_ENABLE(netcdf4,AS_HELP_STRING([--enable-netcdf4],[Enable netCDF Version 4
if test "x${enable_netcdf4}" = 'xno' ; then
AC_ARG_ENABLE(netcdf-4,AS_HELP_STRING([--enable-netcdf-4],[Enable netCDF Version 4 features (same as enable-netcdf4) [[default=yes]]]),enable_netcdf4=${enableval},enable_netcdf4=yes)
fi # !netCDF4
-AC_ARG_VAR([NETCDF4_ROOT],[Root of netCDF4 installation] (compile-time))
+AC_ARG_VAR([NETCDF_ROOT],[Root of netCDF4 installation] (compile-time))
-# Test if user set NETCDF4_ROOT and it exists
+# Test if user set NETCDF_ROOT and it exists
if test "x${enable_netcdf4}" = 'xyes'; then
if test -z "${NETCDF_ROOT}"; then
NETCDF_CONFIG='nc-config'
@@ -320,7 +320,7 @@ fi
echo "Beginning generic tests for DAP support"
# Store pre-DAP LIBS value to restore from later
nco_LIBS_no_DAP="${LIBS}"
-AC_ARG_ENABLE(dap-netcdf,AS_HELP_STRING([--enable-dap],[Build DAP-enabled NCO with netCDF-provided DAP [[default=yes]]]),enable_dap=${enableval},enable_dap=yes)
+AC_ARG_ENABLE(dap,AS_HELP_STRING([--enable-dap],[Build DAP-enabled NCO with netCDF-provided DAP [[default=yes]]]),enable_dap=${enableval},enable_dap=yes)
# Check for DAP in netCDF library unless told not to
if test "${enable_dap}" != 'no'; then
echo "Testing for DAP-netCDF support (is DAP in libnetcdf.a?)..."
@@ -1151,22 +1151,22 @@ echo "CPP.................. ${CPP}"
echo "CPPFLAGS............. ${CPPFLAGS}"
echo "CXX.................. ${CXX}"
echo "CXXFLAGS............. ${CXXFLAGS}"
-echo "OPENMP_CFLAGS........ ${OPENMP_CFLAGS}"
echo "ENABLE_DAP........... ${enable_dap}"
echo "ENABLE_GSL........... ${enable_gsl}"
-echo "HAVE_NETCDF4_H....... ${header_defines_nc_chunked}"
echo "ENABLE_NETCDF4....... ${enable_netcdf4}"
-echo "NETCDF4_ROOT......... ${NETCDF4_ROOT}"
echo "ENABLE_UDUNITS....... ${enable_udunits}"
echo "ENABLE_UDUNITS2...... ${enable_udunits2}"
echo "GSL_ROOT............. ${GSL_ROOT}"
echo "HAVE_ANTLR........... ${HAVE_ANTLR}"
echo "HAVE_MAKEINFO........ ${HAVE_MAKEINFO}"
+echo "HAVE_NETCDF4_H....... ${header_defines_nc_chunked}"
echo "HOST................. ${HOST}"
-echo "host................. ${host}"
echo "HOSTNAME............. ${HOSTNAME}"
echo "LDFLAGS.............. ${LDFLAGS}"
echo "LIBS................. ${LIBS}"
+echo "NETCDF_ROOT.......... ${NETCDF_ROOT}"
+echo "OPENMP_CFLAGS........ ${OPENMP_CFLAGS}"
+echo "host................. ${host}"
echo "install prefix ...... ${prefix}"
# Inform users of the very useful configure.eg
echo "*******************************************************************"
diff --git a/data/Makefile.am b/data/Makefile.am
index 453db96..cb7d0c0 100644
--- a/data/Makefile.am
+++ b/data/Makefile.am
@@ -1,13 +1,18 @@
-# $Header: /cvsroot/nco/nco/data/Makefile.am,v 1.38 2014/08/21 18:22:44 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/data/Makefile.am,v 1.40 2014/10/11 00:03:58 zender 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 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 mrd.nc
+test_data_netCDF4 = in_4c.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 cmip5.nc obs.nc mdl_1.nc mdl_2.nc mdl_3.nc hdn.nc mrd.nc
# netCDF build rules
%.nc : %.cdl
- at PATH_TO_NCGEN@ -o $@ $<
+in_4c.nc : in.cdl
+ -ncks -O -7 --cnk_dmn time,10 $< $@
+# ncgen default chunksize for time = 4 MB produces ~200 MB in_4c.nc file. Avoid that!
+# - at PATH_TO_NCGEN@ -k hdf5-nc3 -o $@ $<
+
in_grp.nc : in_grp.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
diff --git a/data/Makefile.in b/data/Makefile.in
index 3e9d0e5..f212c71 100644
--- a/data/Makefile.in
+++ b/data/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/data/Makefile.in,v 1.116 2014/08/15 19:13:35 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/data/Makefile.in,v 1.118 2014/10/22 18:47:06 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
am__is_gnu_make = test -n '$(MAKEFILE_LIST)' && test -n '$(MAKELEVEL)'
am__make_running_with_option = \
@@ -173,9 +173,9 @@ MANIFEST_TOOL = @MANIFEST_TOOL@
MKDIR_P = @MKDIR_P@
NCOXX = @NCOXX@
NCO_CXX = @NCO_CXX@
-NETCDF4_ROOT = @NETCDF4_ROOT@
NETCDF_INC = @NETCDF_INC@
NETCDF_LIB = @NETCDF_LIB@
+NETCDF_ROOT = @NETCDF_ROOT@
NM = @NM@
NMEDIT = @NMEDIT@
OBJDUMP = @OBJDUMP@
@@ -260,7 +260,7 @@ 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 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 mrd.nc
+test_data_netCDF4 = in_4c.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 cmip5.nc obs.nc mdl_1.nc mdl_2.nc mdl_3.nc hdn.nc mrd.nc
EXTRA_DIST = big.cdl dsm.cdl hdn.cdl mrd.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:
@@ -469,6 +469,11 @@ uninstall-am:
%.nc : %.cdl
- at PATH_TO_NCGEN@ -o $@ $<
+in_4c.nc : in.cdl
+ -ncks -O -7 --cnk_dmn time,10 $< $@
+# ncgen default chunksize for time = 4 MB produces ~200 MB in_4c.nc file. Avoid that!
+# - at PATH_TO_NCGEN@ -k hdf5-nc3 -o $@ $<
+
in_grp.nc : in_grp.cdl
- at PATH_TO_NCGEN@ -k netCDF-4 -o $@ $<
diff --git a/data/cnk.cdl b/data/cnk.cdl
new file mode 100644
index 0000000..44b750b
--- /dev/null
+++ b/data/cnk.cdl
@@ -0,0 +1,56 @@
+// -*-C++-*-
+
+// Purpose: Test chunking algorithms
+// Test case is (time,lat,lon) = 98128 x 277 x 349
+// Described by Russ Rew at http://www.unidata.ucar.edu/staff/russ/public/chunk_shape_3D.py
+// http://www.unidata.ucar.edu/blogs/developer/entry/chunking_data_choosing_shapes
+
+// Generate netCDF file with:
+// ncgen -k netCDF-4 -b -o ~/nco/data/cnk.nc ~/nco/data/cnk.cdl
+
+// Create file with one variable containing random numbers in [0.0,1.0)
+// ncap2 -D 3 -O -s "var(:,:,:)=1.0f;var=gsl_rng_uniform(var);" ~/nco/data/cnk.nc ${DATA}/nco_bm/cnk.nc
+// ncap2 -D 3 -O -s "var_128[time_128,lat,lon]=1.0f;var_128=gsl_rng_uniform(var_128);" ~/nco/data/cnk.nc ${DATA}/nco_bm/cnk.nc
+// ls -l ${DATA}/nco_bm/cnk.nc
+// ncks -m --hdn --cdl $DATA/nco_bm/cnk.nc
+
+// Chunking and re-chunking benchmarks
+// ncks -O --cnk_plc=all --cnk_map=rew ${DATA}/nco_bm/cnk.nc ${DATA}/nco_bm/cnk_rew.nc
+// ncks -O -D 5 --cnk_byt=4096 --cnk_plc=all --cnk_map=rew ${DATA}/nco_bm/cnk.nc ${DATA}/nco_bm/cnk_rew.nc
+// ncks -O -D 5 --cnk_byt=8192 --cnk_plc=all --cnk_map=rew ${DATA}/nco_bm/cnk.nc ${DATA}/nco_bm/cnk_rew.nc
+// ncks -m --hdn --cdl $DATA/nco_bm/cnk_rew.nc
+
+// Chunk-off:
+// Produce input dataset chunked as 1x29x35:
+// ncks -O -D 5 -h --cnk_byt=4096 --cnk_dmn=lat,29 --cnk_dmn=lon,35 ${DATA}/nco_bm/cnk.nc ${DATA}/nco_bm/cnk_in.nc
+// Contest to re-pack to 1x20x25
+// time h5repack -v -l var:CHUNK=1x20x25 -i ${DATA}/nco_bm/cnk_in.nc -o ${DATA}/nco_bm/cnk_out_h5repack.nc
+// time nccopy -c time/1,lat/20,lon/25 ${DATA}/nco_bm/cnk_in.nc ${DATA}/nco_bm/cnk_out_nccopy.nc
+// time ncks -O -h --no_tmp_fl --cnk_byt=4096 --cnk_dmn=lat,20 --cnk_dmn=lon,25 ${DATA}/nco_bm/cnk_in.nc ${DATA}/nco_bm/cnk_out_ncks.nc
+// ncks -m --hdn --cdl $DATA/nco_bm/cnk_out.nc
+
+netcdf cnk {
+
+ dimensions:
+ lat=277;
+ lon=349;
+ time=UNLIMITED;
+ time_98128=98128;
+ time_128=128;
+
+ variables:
+
+ float var(time,lat,lon);
+ var:purpose="Test variable with initial dimensions (time,lat,lon)=1,277,349 and chunking=1,277,349";
+ var:note="Type should be float or int since Rew assumes test variable size is 4-bytes";
+ var:_ChunkSizes=1,277,349;
+
+ double time(time);
+ time:long_name = "time";
+ time:units = "days since 1964-03-12 12:09:00 -9:00";
+ time:calendar = "gregorian";
+
+ data:
+ time=0.0;
+
+} // end root group
diff --git a/data/hdn.cdl b/data/hdn.cdl
index 1e02a2c..bbd9825 100644
--- a/data/hdn.cdl
+++ b/data/hdn.cdl
@@ -9,7 +9,19 @@ netcdf hdn {
dimensions:
lat=2;
+ // ncgen in netCDF 4.3.2+ assigns unlimited dimensions a default chunksize of 4 MB (1 million 4-byte integers)
+ // This increases filesize of hdn.nc from 25 kB to 42 MB!
+ // time=2;
+ time=UNLIMITED;
+ variables:
+
+ int time(time);
+
+ data:
+
+ time=1,2;
+
group: g13 { // Level 1
// Purpose: Test hidden attributes
// NB: Hidden attributes not supported by ncgen at least through netCDF 4.1.1 (201111)
@@ -33,6 +45,10 @@ netcdf hdn {
int four(lat);
four:_ChunkSizes=2;
+ int var_chk(lat);
+ var_chk:purpose="Variable with checksumming. Original _Fletcher32 = 1";
+ var_chk:_Fletcher32=1;
+
int var_cmp(lat);
var_cmp:purpose="Variable with compression. Original _DeflateLevel = 1";
var_cmp:_DeflateLevel = 1;
@@ -49,6 +65,22 @@ netcdf hdn {
var_cmp_9:purpose="Variable with compression. Original _DeflateLevel = 9";
var_cmp_9:_DeflateLevel = 9;
+ int var_cnk_1(lat);
+ var_chk:purpose="Variable with chunking. Original _ChunkSizes = 1";
+ var_chk:_ChunkSizes=1;
+
+ int var_cnk_2(lat);
+ var_chk:purpose="Variable with chunking. Original _ChunkSizes = 2";
+ var_chk:_ChunkSizes=2;
+
+ int var_shf(lat);
+ var_shf:purpose="Variable with shuffling. Original _Shuffle = 1";
+ var_shf:_Shuffle=1;
+
+ int var_nofill(lat);
+ var_nofill:purpose="Variable with _NOFILL. Original _NOFILL = 1";
+ var_nofill:_NOFILL=1;
+
data:
one=1,1;
two=2,2;
@@ -58,6 +90,11 @@ netcdf hdn {
var_cmp_0=1,1;
var_cmp_1=1,1;
var_cmp_9=1,1;
+ var_cnk_1=1,1;
+ var_cnk_2=1,1;
+ var_chk=1,1;
+ var_shf=1,1;
+ var_nofill=1,1;
} // end g13
} // end root group
diff --git a/data/in.cdl b/data/in.cdl
index b1f9789..d46f92f 100644
--- a/data/in.cdl
+++ b/data/in.cdl
@@ -8,6 +8,9 @@
// "-k netCDF-4 classic model" for netCDF >= 3.6.3, "-k hdf5-nc3" for netCDF < 3.6.3
// /usr/local/bin/ncgen -k netCDF-4 -b -o in_4.nc in.cdl
// /usr/local/bin/ncgen -k netCDF-4 -b -o ${HOME}/nco/data/in_4.nc ${HOME}/nco/data/in.cdl
+// NB: netCDF-classic files will be enormous unless/until _ChunkSizes attributes added to time
+// /usr/local/bin/ncgen -k hdf5-nc3 -b -o in_4c.nc in.cdl
+// /usr/local/bin/ncgen -k hdf5-nc3 -b -o ${HOME}/nco/data/in_4c.nc ${HOME}/nco/data/in.cdl
// URL:
// http://dust.ess.uci.edu/nco/in.nc
@@ -37,12 +40,17 @@
// In particular, do not change number of elements in record coordinate, time, without simultaneously changing number of data in all record variables
// My (and NCO's) convention is that the _FillValue, if any, of any packed variable should be of the same type as the expanded variable. Hence _FillValue, add_offset, and scale_factor should all be of the same type. Variables that do not adhere to this convention are not supported.
+// Bugs:
+// Some triggering bugs were moved to buggy.cdl to prevent non-builds
+// ncgen 4.0.0--4.3.2 crashes on 'l' or 'L' syntax when generating netCDF4-classic (but not netCDF3 or netCDF4) files until 20141010 (NCF-318)
+
// CDL Data constants:
// http://www.unidata.ucar.edu/software/netcdf/docs/netcdf/CDL-Syntax.html
// byte: 'a'
// char: "a"
// short: 1s
// int: 1 (no decimal point)
+// long: 1 (_not_ 1l;) (long is synonym for int in netCDF3)
// float: 1.f (decimal point is required, f is required to distinguish from double)
// double: 1.0, 1.d, 1.0e-20 (decimal point is required, d is not required)
// CDL complex types:
@@ -55,12 +63,12 @@
netcdf in {
dimensions:
- dgn=1,bnd=2,lat=2,lat_grd=3,lev=3,rlev=3,lon=4,lon_grd=5,char_dmn_lng80=80,char_dmn_lng26=26,char_dmn_lng04=4,date_dmn=5,fl_dmn=3,lsmlev=6,wvl=2,time_udunits=3;lon_T42=128,lat_T42=64,lat_times_lon=8,gds_crd=8,vrt_nbr=2,lon_cal=10,lat_cal=10,Lon=4,Lat=2,time=unlimited;
+ dgn=1,bnd=2,lat=2,lat_grd=3,lev=3,rlev=3,lon=4,lon_grd=5,char_dmn_lng80=80,char_dmn_lng26=26,char_dmn_lng04=4,date_dmn=5,fl_dmn=3,lsmlev=6,wvl=2,time_udunits=3;lon_T42=128,lat_T42=64,lat_times_lon=8,gds_crd=8,gds_ncd=8,vrt_nbr=2,lon_cal=10,lat_cal=10,Lon=4,Lat=2,time=unlimited;
variables:
:Conventions = "CF-1.0";
:history = "History global attribute.\nAttributes like this often have embedded newlines to enhance legibility.\nSuch newlines should serve as linebreaks on the screen, hence,\nfriendly CDL converters print a single NC_CHAR attribute as a comma-separated list of strings\nwhere each embedded delimiter marks a linebreak.\nOtherwise it would be harder for humans to read the CDL.";
:julian_day = 200000.04;
- :RCS_Header = "$Header: /cvsroot/nco/nco/data/in.cdl,v 1.192 2014/09/19 20:38:28 zender Exp $";
+ :RCS_Header = "$Header: /cvsroot/nco/nco/data/in.cdl,v 1.198 2014/11/11 21:20:17 zender Exp $";
int date_int(date_dmn);
date_int:long_name = "Date (as array of ints: YYYY,MM,DD,HH,MM)";
@@ -309,6 +317,24 @@ variables:
gds_3dvar:coordinates = "lat_gds lon_gds";
gds_3dvar:purpose = "Test auxiliary coordinates like those that define geodesic grids";
+ float gds_var_ncd(gds_ncd);
+ gds_var_ncd:long_name = "Geodesic variable on non-coordinate grid";
+ gds_var_ncd:units = "meter";
+ gds_var_ncd:purpose = "Test auxiliary coordinates like those that define geodesic grids but where underlying dimension is a non-coordinate dimension";
+ gds_var_ncd:coordinates = "lat_gds_ncd lon_gds_ncd";
+
+ double lat_gds_ncd(gds_ncd);
+ lat_gds_ncd:long_name = "Latitude";
+ lat_gds_ncd:standard_name = "latitude";
+ lat_gds_ncd:units="degree";
+ lat_gds_ncd:purpose = "1-D latitude coordinate referred to by \"non-coordinate\" (ncd) geodesic grid variables";
+
+ double lon_gds_ncd(gds_ncd);
+ lon_gds_ncd:long_name = "Longitude";
+ lon_gds_ncd:standard_name = "longitude";
+ lon_gds_ncd:units="degree";
+ lon_gds_ncd:purpose = "1-D longitude coordinate referred to by \"non-coordinate\" (ncd) geodesic grid variables";
+
int nbdate;
nbdate:long_name = "base date as 6- or 8-digit integer (YYMMDD or YYYYMMDD)";
@@ -1130,6 +1156,7 @@ data:
P0=100000;
gds_crd=0,1,2,3,4,5,6,7;
gds_var=273.1,273.2,273.3,273.4,273.5,273.6,273.7,273.8;
+ gds_var_ncd=273.1,273.2,273.3,273.4,273.5,273.6,273.7,273.8;
gds_3dvar=273.1,273.2,273.3,273.4,273.5,273.6,273.7,273.8,
274.1,274.2,274.3,274.4,274.5,274.6,274.7,274.8,
275.1,275.2,275.3,275.4,275.5,274.5,275.7,275.8,
@@ -1142,6 +1169,8 @@ data:
282.1,282.2,282.3,282.4,282.5,282.9,282.7,282.8;
lat_gds=-90, -30, -30, 0, 0, 30, 30, 90;
lon_gds= 0, 0, 180, 0, 180, 0, 180, 0;
+ lat_gds_ncd=-90, -30, -30, 0, 0, 30, 30, 90;
+ lon_gds_ncd= 0, 0, 180, 0, 180, 0, 180, 0;
lat=-90,90;
lat_bnd=-90,0,0,90;
lat_cal=1.,2.,3.,4.,5.,6.,7.,8.,9.,10.;
diff --git a/doc/ANNOUNCE b/doc/ANNOUNCE
index 72fb93e..0a9e853 100644
--- a/doc/ANNOUNCE
+++ b/doc/ANNOUNCE
@@ -1,25 +1,21 @@
-$Header: /cvsroot/nco/nco/doc/ANNOUNCE,v 1.747 2014/10/01 17:47:39 zender Exp $ -*-text-*-
+$Header: /cvsroot/nco/nco/doc/ANNOUNCE,v 1.757 2014/11/26 21:11:28 zender Exp $ -*-text-*-
-The netCDF Operators NCO version 4.4.6 are ready.
+The netCDF Operators NCO version 4.4.7 are ready.
http://nco.sf.net (Homepage)
http://dust.ess.uci.edu/nco (Homepage "mirror")
-This is a bugfix, stability, and performance release.
-It fixes an ncra bug that affects packed records with missing values,
-and it fixes an ncwa bug that affects minimization and maximization
-operations on packed variables. Affected users would likely have
-noticed being bit by these bugs since the answers generated were,
-well, noticeable. For these reasons alone, we recommend that users of
-packed datasets upgrade to 4.4.6.
-
-We rewrote ncrename to enhance its group-oriented features.
-We also implemented a performance optimization that dramatically
-improves access times to strided hyperslabs in netCDF4 datasets.
-Minor improvements include new ncks printing and hyperslab options,
-support for HDF4 chunking/compression, and ncap2 argument passing.
-
-Work on NCO 4.4.7 is underway, still focused on stability and speed.
+This stabilization release also contains useful new features that
+assist users with chunking policies, hyperslabbing, and creating
+record variables. First, hyperslab specifications now use
+Python-consistent indexing (negative indices) to indicate the last
+elements of a dimension. Second, chunking behavior has been revamped.
+Overall the chunking algorithms are much more robust and optimized.
+See below for the user-visible changes. Of note is the new balanced
+chunking map named for Russ Rew. Finally, ncap2 can create record
+variables.
+
+Work on NCO 4.4.8 is underway, still focused on stability and speed.
This includes more netCDF4 mop-up and new chunking features.
Enjoy,
@@ -27,117 +23,101 @@ Charlie
NEW FEATURES (full details always in ChangeLog):
-A. ncrename expanded functionality on group-oriented files:
- ncrename now supports group attributes and variable attributes with
- the same syntax, provides distinct options to change only global
- metatdata or metadata in every group, and works with multiple
- instances of the same object, e.g., multiple instances of the same
- variable name in different groups.
- ncrename -a g1 at old_att,new_att in.nc # Rename in g1 only
- ncrename -a group at old_att,new_att in.nc # Rename in all groups
- ncrename -a global at old_att,new_att in.nc # Rename in root only
- http://nco.sf.net/nco.html#ncrename
-
-B. Optimization of strided hyperslab access to netCDF4 data:
- Multiple users complain that access to strided hyperslabs of
- netCDF4 datasets is orders of magnitude slower than expected.
- This occurs with other languages (like NCL) and appears to be
- caused by lower-level libraries. Until the problem is solved at the
- root, we have developed and implemented a transparent workaround
- that fixes the issue for the common case where strides are taken in
- only one dimension, e.g., -d time,0,,12. Strided hyperslabs like this
- ncks -O -d time,0,,12 ~/in.nc4 ~/foo.nc
- now complete in nearly the same amount of time as non-strided.
- This workaround works transparently with any version of netCDF.
- http://nco.sf.net#bug_nc4_srd
-
-C. ncap2 command-line and script arguments can now both be specified
- AND executed. Command-line args are executed before script:
- ncap2 -v -s "lon=${longitude}" -S in_4.nc out.nc
- This is useful for passing shell variables into NCO scripts.
- Pass the shell variables with -s and the -S scripts will use them.
- Thanks to Henry Butowsky for this.
- http://nco.sf.net/nco.html#ncap2
-
-D. ncks -V = --var_val is new switch to print only variable values.
- Compare and contrast -Q, -V, and --no_nm_prn:
- % ncks -v three_dmn_rec_var -C -H in.nc
- time[0]=1 lat[0]=-90 lon[0]=0 three_dmn_rec_var[0]=1
- % ncks --no_nm_prn -v three_dmn_rec_var -C -H in.nc
- 1 -90 0 1
- % ncks -Q -v three_dmn_rec_var -C -H in.nc
- three_dmn_rec_var[0]=1
- % ncks -Q --no_nm_prn -v three_dmn_rec_var -C -H in.nc
- 1
- % ncks -V -v three_dmn_rec_var -C -H in.nc
- 1
- http://nco.sf.net/nco.html#var_val
-
-E. ncks --cdl --hdn now prints extended file format (i.e., the format
- of the file or server supplying the data)as _SOURCE_FORMAT:
- % ncks --hdn --cdl ~/nco/data/cmip5.nc
- ...
- :_Format = "netCDF-4" ;
- :_SOURCE_FORMAT = "NC_FORMAT_HDF5" ;
- ...
- http://nco.sf.net/nco.html#hdn
-
-F. Hyperslabs specifications now accept -0 (negative zero) to indicate
- the last element of a dimension. This is consistent with existing
- (Python) syntax where negative integers indicate the number of
- elements from the last (-1 is penultimate, -0 is ultimate):
- ncks -d lon,1,-0 in.nc out.nc # Second through last longitude
+A. Hyperslab specifications now accept -1 (negative one) to indicate
+ the last element of a dimension. This is consistent with Python
+ syntax, unlike NCO's previous behavior (from 20120709--20141001)
+ where negative integers indicated the number of elements from the
+ last (-1 was penultimate, -0 was ultimate). Now -1 is last element,
+ -2 is penultimate element, and -N is the first element. NCO warns
+ users who may expect the old behavior.
+ ncks -d lon,-1 in.nc out.nc # last longitude
+ ncks -d lon,-3,-1 in.nc out.nc # last three longitudes
http://nco.sf.net/nco.html#hyp
-G. NCO now supports chunking and deflation features of HDF4 datasets
- when compiled with netCDF library 4.3.3-rc1 or later.
- Earlier versions of netCDF do not support these features for HDF4.
- Thanks to Unidata for continuing to improve HDF4 interoperability.
- http://nco.sf.net/nco.html#hdf4
+B. ncap2 creates record dimension when dimension size is negative:
+ ncap2 -s 'defdim("time",10)' in.nc out.nc # Fixed-size dimension
+ ncap2 -s 'defdim("time",-10)' in.nc out.nc # Record dimension
+ Formerly ncap2 had no way to create new record dimensions.
+ http://nco.sf.net/nco.html#ncap2
+
+C. A new chunking map, --cnk_map=rew, implements a chunking strategy
+ that balances common 1-D (e.g., timeseries) and 2-D (e.g.,
+ geographic slices) access patterns to 3-D (time, lat, lon) data.
+ Name in honor of its (and netCDF's) developer Russ Rew:
+ http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_choosing_shapes
+ For now, this map only applies to 3-D variables. We hope to include
+ a version generalized to N-D variables in the next release.
+ ncks --cnk_map=rew in.nc out.nc # Use Rew's balanced chunking
+ http://nco.sf.net/nco.html#cnk
+
+D. A new chunking map, --cnk_map=nc4, implements the netCDF4 default
+ chunking map as implemented in the netCDF library used to build NCO.
+ Formerly, NCO had no way to explicitly resort to netCDF4 defaults.
+ (netCDF4 and NCO chunking defaults differ).
+ This option allows users to change the chunking of a dataset to
+ what it would be if it were created from scratch by ncgen without
+ any specific chunking options.
+ ncks --cnk_map=nc4 in.nc out.nc # Use netCDF4 default chunking
+ http://nco.sf.net/nco.html#cnk
+
+E. NCO's default chunking policy now preserves existing chunking.
+ Previously NCO would use its favorite chunking policy (which
+ variables to chunk) and map (how to chunk those variables) on all
+ input files unless the user explicitly specified other chunking
+ options. Thus a chain of processing commands had to explicitly
+ specify chunking parameters in each command otherwise the
+ chunksizes could be reset to a shape not optimal for the
+ anticipated access patterns. Now once a file is optimally chunked,
+ no further NCO operations on that file need specify chunking
+ options (since they are preserved by default).
+ ncks in.nc out.nc # Defaults to --cnk_plc=xst, --cnk_map=xst
+ ncks --cnk_map=xst --cnk_plc=xst in.nc out.nc # Same effect
+ http://nco.sf.net/nco.html#cnk
+
+F. The minimum size of variables to chunk may now be specified with
+ --cnk_min=var_sz, where var_sz is the minimum size in bytes (not
+ elements) of variables to chunk. This threshold is intended to
+ restrict use of chunking to variables for which it is efficient.
+ By default this minimum variable size for chunking is 8192 B.
+ Formerly, NCO would chunk all arrays of any size.
+ To obtain that behavior now users must specifiy --cnk_min=1, so
+ that arrays of any size will be chunked.
+ To obtain a system-dependent minimum size, set cnk_min=0 and then
+ NCO will compute the minimum size as twice the system blocksize
+ (when available) and 8192 B otherwise.
+ ncks in.nc out.nc # Minimum variable size to chunk is 8192 B
+ ncks --cnk_min=1 in.nc out.nc # Minimum size is 1 B
+ ncks --cnk_min=0 in.nc out.nc # Minimum size is twice blocksize
+ http://nco.sf.net/nco.html#cnk
BUG FIXES:
-A. Fix treatment of packed variables with missing values in ncra.
- Versions 4.3.7-4.4.5 of ncra could produce (wildly) inaccurate
- statistics when promoting (e.g., to double- from single-precision)
- variables that are packed and that have missing values.
- The two workarounds are to remove the scaling or to perform the
- statistics in single precision with the --flt option.
- The solution is to upgrade to NCO 4.4.6.
- Thanks to user John for reporting this.
- http://nco.sf.net#bug_ncra_dbl_pck_mss
-
-B. Fix promotion of packed variables subject to minimization and
- maximization operations in ncwa. Versions 4.3.7-4.4.5 of ncwa
- incorrectly handled packed variables during these operations.
- The two workarounds are to remove the scaling or to perform the
- statistics in single precision with the --flt option.
- The solution is to upgrade to NCO 4.4.6.
- Thanks to user Frederic Laliberte for reporting this.
- http://nco.sf.net#bug_ncwa_pck_min_max
-
-C. ncrename now fails (as intended) when required objects not present.
- Since version 4.3.x, ncrename incorrectly ignored missing objects.
- Now missing objects are ignored only when prefixed with a period.
- A missing object (variable, attribute, dimension, group) not
- prefixed with period now causes an error as intended.
- Thanks to user John for reporting this.
- http://nco.sf.net/nco.html#ncrename
-
-D. NCO now checks correct function to enable DAP with configure.
- NCO has been checking the wrong function to see if netCDF was
- enabled with DAP support since about NCO 4.3.1 (May 2013).
- Thanks to Parker Norton and Filipe Fernandes for reporting this.
-
-E. Fix --file_format switch as synonym for --fl_fmt
- Thanks to Dave Allured for reporting this.
+A. ncrename has known problems when renaming netCDF4 coordinates.
+ These problems will go away when Unidata issues a fix to the
+ underlying netCDF library. Thanks to Parker Allen for reporting.
+ http://nco.sf.net#bug_nc4_rename
+
+B. Auxiliary coordinate hyperslabbing (with -X) was inadvertently
+ turned-off for 1-D variables. Now it works fine with 1-D vars.
+ Fixed by Pedro Vicente.
+ Moreover, files without a "Conventions=CF-1.X" attribute are now
+ treated as if they had the attribute to exploit -X functionality.
+
+C. Auxiliary coordinate hyperslabbing (with -X) was broken for
+ variables with non-coordinate dimensions. Fixed by Pedro Vicente.
+ Thanks to romzie04 for alerting us to these -X issues.
+
+D. Fixed ncks bug when built on netCDF < 4.3.1 due to error in
+ handling NULL arguments to nco_inq_format_extended() stub.
+ Also fix printing problem with strncpy().
+ Only known to affect with strict initialization like clang.
KNOWN PROBLEMS DUE TO NCO:
This section of ANNOUNCE reports and reminds users of the
existence and severity of known, not yet fixed, problems.
- These problems occur with NCO 4.4.6 built/tested with netCDF
- 4.3.3-rc2 on top of HDF5 hdf5-1.8.13 with these methods:
+ These problems occur with NCO 4.4.7 built/tested with netCDF
+ 4.3.3-rc2 (20141112) on top of HDF5 hdf5-1.8.13 with:
cd ~/nco;./configure --enable-netcdf4 # Configure mechanism -or-
cd ~/nco/bld;make dir;make allinone # Old Makefile mechanism
@@ -167,9 +147,25 @@ B. NOT YET FIXED (NCO problem?)
KNOWN PROBLEMS DUE TO BASE LIBRARIES/PROTOCOLS:
-A. NOT YET FIXED (netCDF4 or HDF5 problem?)
- Specifying strided hyperslab on netCDF4 datasets leads
- to enormous slowdown or failure with recent netCDF versions.
+A. NOT YET FIXED (netCDF4 problem)
+ Renaming netCDF4 coordinate variables or dimensions "succeeds" but
+ corrupts (sets to _FillValue) values in the output dataset.
+ Full description here http://nco.sf.net#bug_nc4_rename
+
+ Demonstration with netCDF <= 4.3.2:
+ ncrename -O -v time,newrec ~/nco/data/in_grp.nc ~/foo.nc
+ ncks --cdl -g // -v newrec -d time,0 -C ~/foo.nc
+
+ 20141007: Problem reported by Parker Norton
+ 20141008: Problem reported to Unidata
+ 20141010: Verified by Unidata.
+ 20141112: Verified problem still exists
+ Bug tracking: https://www.unidata.ucar.edu/jira/browse/NCF-177
+ Workaround: Convert to netCDF3, rename, convert back to netCDF4
+
+B. NOT YET FIXED (netCDF4 or HDF5 problem?)
+ Specifying strided hyperslab on large netCDF4 datasets leads
+ to slowdown or failure with recent netCDF versions.
Demonstration with NCO <= 4.4.5:
time ncks -O -d time,0,,12 ~/ET_2000-01_2001-12.nc ~/foo.nc
@@ -182,7 +178,7 @@ A. NOT YET FIXED (netCDF4 or HDF5 problem?)
Workaround #1: Use NCO 4.4.6 or later (avoids nc_var_gets())
Workaround #2: Convert file to netCDF3 first, then use stride
-B. NOT YET FIXED (would require DAP protocol change?)
+C. NOT YET FIXED (would require DAP protocol change?)
Unable to retrieve contents of variables including period '.' in name
Periods are legal characters in netCDF variable names.
Metadata are returned successfully, data are not.
@@ -195,9 +191,9 @@ B. NOT YET FIXED (would require DAP protocol change?)
Stopped testing because inclusion of var_nm.dot broke all test scripts.
NB: Hard to fix since DAP interprets '.' as structure delimiter in HTTP query string.
- Bug report filed: https://www.unidata.ucar.edu/jira/browse/NCF-47
+ Bug tracking: https://www.unidata.ucar.edu/jira/browse/NCF-47
-C. NOT YET FIXED (would require DAP protocol change)
+D. NOT YET FIXED (would require DAP protocol change)
Correctly read scalar characters over DAP.
DAP non-transparency: Works locally, fails through DAP server.
Problem, IMHO, is with DAP definition/protocol
@@ -225,7 +221,7 @@ C. Pre-built Mac binaries:
D. Pre-built Windows (native) and Cygwin binaries:
http://nco.sf.net#windows
-F. Reminder that NCO works on most HDF4 and HDF5 datasets, e.g.,
+E. Reminder that NCO works on most HDF4 and HDF5 datasets, e.g.,
HDF4: AMSR MERRA MODIS ...
HDF5: GLAS ICESat Mabel SBUV ...
HDF-EOS5: AURA HIRDLS OMI ...
diff --git a/doc/ChangeLog b/doc/ChangeLog
index bd579e1..9e9da55 100644
--- a/doc/ChangeLog
+++ b/doc/ChangeLog
@@ -1,3 +1,141 @@
+2014-11-26 Charlie Zender <zender at uci.edu>
+
+ * NCO 4.4.7 release procedure:
+ Changes since nco-4_4_6: -0->-1, rename bug, cnk xst, cnk_min, -X, rew, cnk_in
+ cd ~/nco;cvs tag -d nco-4_4_7;cvs tag -d nco-4_4_7-1
+ cd ~/nco;cvs commit -m "Preparing nco-4.4.7 release"
+ cvs tag -c nco-4_4_7;cvs tag -c nco-4_4_7-1
+
+2014-11-25 Charlie Zender <zender at uci.edu>
+
+ * Regression tests show no failures on gcc and clang Linux and MacOS
+ One non-fatal failure on icc Linux (yellowstone) ncecat#9
+ Output file is chunked differently than expected. Mysterious.
+
+ * Initialize input chunksize defaults correctly for ncwa, ncecat, ncpdq
+
+2014-11-24 Charlie Zender <zender at uci.edu>
+
+ * Replace strncpy() in sng_trm_trl_zro() with explicit loop to prevent valgrind complaining about,
+ and Mac OS X crashing on, overlapping source and destination buffers
+
+ * Support passing (int *)NULL to nc_inq_format_extended() stub
+
+ * Fix GSL and UDUnits flags in Makefile (fixes yellowstone builds)
+
+2014-11-15 Charlie Zender <zender at uci.edu>
+
+ * Use new NC_HAS_HDF4 to report HDF4 support with ncks -r
+
+2014-11-12 Charlie Zender <zender at uci.edu>
+
+ * Document new chunking features
+
+2014-11-11 Charlie Zender <zender at uci.edu>
+
+ * cnk_rew appears to work for rank = 3. Need larger datasets to be sure.
+
+ * Tidy nco_bld_crd_aux()
+
+2014-11-10 Charlie Zender <zender at uci.edu>
+
+ * Add regression test for non-coordinate dimension auxiliary coordinate variables
+
+2014-11-05 Charlie Zender <zender at uci.edu>
+
+ * Almost finished implementing cnk_rew
+
+ * cnk_min=0 sets minimum size of variables to chunk as twice blocksize
+
+ * Using -X now imposes CNV_CCM_CCSM_CF=True regardless of Conventions attribute
+
+2014-11-03 Charlie Zender <zender at uci.edu>
+
+ * Add regression for auxiliary coordinates
+
+ * First regression-free version in three weeks
+
+ * Now that nco_cnk_sz_set_trv() always called, allow it to work when ncecat creates new record dimension
+
+ * Fix long-time bug where nco_cpy_var_dfn_trv() incorrectly sets dmn_cmn[].is_rec_var for record dimensions affected by
+ --fix_rec_dmn or --mk_rec_dmn invocation (always set incorrectly except on first variable affected)
+
+2014-10-31 Charlie Zender <zender at uci.edu>
+
+ * Adjust regression tests to work with --cnk_min. Document --cnk_min.
+
+2014-10-31 Henry Butowsky <henryb at hush.com>
+
+ * ncap_cst_mk() in ncap2_utl.cc checks that record dim is the first dim in list ONLY if nc3 file
+ and nc4 file. This also allows users to define vars with multiple record dims.
+
+2014-10-30 Henry Butowsky <henryb at hush.com>
+
+ * Add hidden feature to defdim(): when dim_sz < 0 then dim is defined as unlimited
+
+2014-10-22 Charlie Zender <zender at uci.edu>
+
+ * Replace NETCDF4_ROOT by NETCDF_ROOT in configure
+
+2014-10-17 Charlie Zender <zender at uci.edu>
+
+ * Add --cnk_min to specify minimum size (default 8kB) in bytes of variable to chunk
+
+2014-10-15 Charlie Zender <zender at uci.edu>
+
+ * Change configure.ac --enable-dap-netcdf to --enable-dap
+
+ * Add cnk.cdl to test chunking algorithms
+
+ * Add cnk_map=nco to assign to current NCO-recommended map
+
+2014-10-13 Charlie Zender <zender at uci.edu>
+
+ * Always call chunking
+
+ * Stubs for cnk_map = nc4 for default netCDF4 chunking (same as unchunking for now?)
+
+ * Change links to online discussion forums from, e.g., https://sf.net/projects/nco/forums/forum/9830 to
+ https://sf.net/p/nco/discussion/9830 to eliminate new circular reference errors from sf webserver
+
+2014-10-12 Charlie Zender <zender at uci.edu>
+
+ * Rationalize regression tests with new chunking defaults (xst, xst)
+
+ * Ensure user-specified full chunking paths take precedence over relative paths
+
+ * Simplify nco_cnk_sz_set_trv()
+
+2014-10-10 Charlie Zender <zender at uci.edu>
+
+ * Fix ncrename regression tests
+
+ * Build in_4.nc from in.nc (not in.cdl due to ncgen chunksize problems and bugs) for regression tests
+
+ * Add numerous regression tests to evaluate nc_rename_var/dim() behavior.
+
+ * Avoid nc_rename_var/dim() bug in netCDF4 files by avoiding nc_redef()/nc_enddef(). No dice.
+
+2014-10-09 Charlie Zender <zender at uci.edu>
+
+ * Improve hdr_pad, ncrename documentation
+
+2014-10-08 Charlie Zender <zender at uci.edu>
+
+ * Add NCO_VERSION for consistency with NC_VERSION
+
+ * Document newly discovered ncrename problems due to netCDF4 bugs http://nco.sf.net/nco.html#bug_nc4_rename
+
+ * Check more error return codes in ncrename.c. Verifies NCO does not ignore any netCDF errors.
+
+2014-10-07 Charlie Zender <zender at uci.edu>
+
+ * Add regression checks for valid values in renamed coordinates in netCDF4 files
+
+2014-10-02 Charlie Zender <zender at uci.edu>
+
+ * Change to real Python convention where -1 is last element, e.g., -2 is penultimate element, -N is first element
+
2014-10-01 Charlie Zender <zender at uci.edu>
* NCO 4.4.6 release procedure:
@@ -23,7 +161,7 @@
2014-09-29 Charlie Zender <zender at uci.edu>
* Implement USE_NC4_SRD_WORKAROUND by default in all applicable cases, i.e.,
- for singly strided hyperslab access to netCDF4 files.
+ for singly strided hyperslab access to netCDCF4 files.
2014-09-26 Charlie Zender <zender at uci.edu>
diff --git a/doc/MANIFEST b/doc/MANIFEST
index e26638a..4278851 100644
--- a/doc/MANIFEST
+++ b/doc/MANIFEST
@@ -1,4 +1,4 @@
-$Header: /cvsroot/nco/nco/doc/MANIFEST,v 1.72 2014/09/22 21:38:34 zender Exp $ -*-text-*-
+$Header: /cvsroot/nco/nco/doc/MANIFEST,v 1.73 2014/10/15 17:20:28 zender Exp $ -*-text-*-
This file enumerates the files in the NCO distribution and, where
appropriate, describes the purpose of the file.
@@ -73,13 +73,17 @@ Data Directory:
nco/data/Makefile(v) Autotools-generated Makefile
nco/data/Makefile.am Automake instructions
nco/data/Makefile.in(v) Autotools-generated Makefile
-nco/data/big.cdl CDL file to huge netCDF test files
-nco/data/big.cdl CDL file to huge netCDF test files
+nco/data/big.cdl CDL file to test huge netCDF files
nco/data/bin_cnt.nco ncap2 sample script that bins wind speeds
+nco/data/cmip5.cdl CDL file to test ncbo functionality on groups
+nco/data/cnk.cdl CDL file to test chunking
nco/data/ddra.nco Sample ncap2 script that computes DDRA statistics
-nco/data/hdr_pad.sh Utility to check size of metadata header
+nco/data/dsm.cdl CDL file to test ncdismember
nco/data/hdn.cdl CDL file to test hidden attributes
+nco/data/hdr_pad.sh Utility to check size of metadata header
nco/data/in.cdl CDL file to generate netCDF test file in.nc
+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/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
@@ -89,22 +93,18 @@ 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/in_rec_zero.cdl CDL file to test zero-record files
nco/data/mdl_1.cdl CDL file to test ensemble operations
nco/data/mdl_2.cdl CDL file to test ensemble operations
nco/data/mrd.cdl CDL file to test multiple record dimensions
-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
-nco/data/ncl.ncl NCL script to compare to NCO scripts for speed
-nco/data/netcdf4.nco Sample input script for netCDF4-enabled ncap2
nco/data/ncap.in2 ncap script to demonstrate #include capabilities
-nco/data/nco_bnch.sh Old (deprecated) NCO benchmark script
nco/data/ncap2.in Sample ncap2 input script
nco/data/ncap2_tst.nco ncap2 self-printing test script
+nco/data/ncl.ncl NCL script to compare to NCO scripts for speed
+nco/data/nco_bnch.sh Old (deprecated) NCO benchmark script
+nco/data/netcdf4.nco Sample input script for netCDF4-enabled ncap2
+nco/data/obs.cdl CDL file to test group broadcasting
nco/data/psd.nco Sample ncap2 script that computes particle size distributions
nco/data/psd_wrf.nco Sample ncap2 script that computes WRF particle size distributions
nco/data/swamp.sh Demonstrate SWAMP usage
diff --git a/doc/Makefile.in b/doc/Makefile.in
index 69b1666..8fd3540 100644
--- a/doc/Makefile.in
+++ b/doc/Makefile.in
@@ -241,9 +241,9 @@ MANIFEST_TOOL = @MANIFEST_TOOL@
MKDIR_P = @MKDIR_P@
NCOXX = @NCOXX@
NCO_CXX = @NCO_CXX@
-NETCDF4_ROOT = @NETCDF4_ROOT@
NETCDF_INC = @NETCDF_INC@
NETCDF_LIB = @NETCDF_LIB@
+NETCDF_ROOT = @NETCDF_ROOT@
NM = @NM@
NMEDIT = @NMEDIT@
OBJDUMP = @OBJDUMP@
diff --git a/doc/TAG b/doc/TAG
index e43f32b..fd30dfa 100644
--- a/doc/TAG
+++ b/doc/TAG
@@ -1 +1 @@
-$Name: nco-4_4_6 $
+$Name: nco-4_4_7 $
diff --git a/doc/VERSION b/doc/VERSION
index b58299c..3401474 100644
--- a/doc/VERSION
+++ b/doc/VERSION
@@ -1 +1 @@
-4.4.6
\ No newline at end of file
+4.4.7
\ No newline at end of file
diff --git a/doc/debian.txt b/doc/debian.txt
index ac3dbed..51dd7ef 100644
--- a/doc/debian.txt
+++ b/doc/debian.txt
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/doc/debian.txt,v 1.204 2014/09/16 23:31:37 zender Exp $ -*-text-*-
+# $Header: /cvsroot/nco/nco/doc/debian.txt,v 1.205 2014/10/08 21:00:45 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-4.4.6
- First we create a clean source distribution of nco and place it in nco-4.4.6
- Once automated, we will use cvs co -rnco-4_4_6 to get source
+ For starters, we wish to create .debs of tagged releases, e.g., nco-4.4.7
+ First we create a clean source distribution of nco and place it in nco-4.4.7
+ Once automated, we will use cvs co -rnco-4_4_7 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-4.4.6
-/bin/rm nco.tar.gz;tar cvzf nco-4.4.6.tar.gz ./nco-4.4.6/*
-cd ~/nco/nco-4.4.6
-dh_make -e zender at uci.edu -f ../nco-4.4.6.tar.gz
+cd ~/nco;tar xvzf nco.tar.gz;mv nco nco-4.4.7
+/bin/rm nco.tar.gz;tar cvzf nco-4.4.7.tar.gz ./nco-4.4.7/*
+cd ~/nco/nco-4.4.7
+dh_make -e zender at uci.edu -f ../nco-4.4.7.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-4.4.6.tar.gz
from previous build
cd ~/nco;/bin/rm *.gz
- cd ~/nco/nco-4.4.6
+ cd ~/nco/nco-4.4.7
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_6 with X_Y_Z+1
-# tags-query replace 4.4.6 with X.Y.Z+1
+# tags-query replace 4_4_7 with X_Y_Z+1
+# tags-query replace 4.4.7 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 4.4.6-1 # Update changelog (-b forces this version number)
+ cd ~/nco/debian;dch -b --force-distribution --distribution=unstable -v 4.4.7-1 # 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-4.4.6 release";cvs tag -c nco-4_4_6
- ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4_4_6
+ cd ~/nco;cvs commit -m "Preparing nco-4.4.7 release";cvs tag -c nco-4_4_7
+ ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4_4_7
# Upload tarball to SF https://sourceforge.net/projects/nco/files
- cd;scp dust.ess.uci.edu:/var/www/html/nco/src/nco-4.4.6.tar.gz .
+ cd;scp dust.ess.uci.edu:/var/www/html/nco/src/nco-4.4.7.tar.gz .
7. Ubuntu PPA
https://help.launchpad.net/Packaging/PPA
-dput NCO nco_4.4.6-2~ppa1_source.changes
+dput NCO nco_4.4.7-2~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_4.4.6-1.dpkg-buildpackage.txt
-http://dust.ess.uci.edu/nco/src/nco_4.4.6-1.dsc
-http://dust.ess.uci.edu/nco/src/nco_4.4.6-1_i386.changes
-http://dust.ess.uci.edu/nco/src/nco_4.4.6-1_i386.deb
-http://dust.ess.uci.edu/nco/src/nco_4.4.6.orig.tar.gz
+http://dust.ess.uci.edu/nco/src/nco_4.4.7-1.dpkg-buildpackage.txt
+http://dust.ess.uci.edu/nco/src/nco_4.4.7-1.dsc
+http://dust.ess.uci.edu/nco/src/nco_4.4.7-1_i386.changes
+http://dust.ess.uci.edu/nco/src/nco_4.4.7-1_i386.deb
+http://dust.ess.uci.edu/nco/src/nco_4.4.7.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-4.4.6 ${DATA}/nco_4.4.6* ${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_6-1 -d nco-4.4.6 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-4.4.6 nco # Export most recent
-tar cvzf ./nco_4.4.6.orig.tar.gz --exclude='nco-4.4.6/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.6
-/bin/rm -rf ${DATA}/nco-4.4.6 # Remove cvs-exported directory
-tar xvzf ./nco_4.4.6.orig.tar.gz # Untar to get directory without excluded files
-mkdir -p ${DATA}/nco-4.4.6/debian/source;cd ~/nco/debian;/bin/cp changelog compat control convert copyright doc-base files info rules ${DATA}/nco-4.4.6/debian;cd ~/nco/debian/source;/bin/cp format ${DATA}/nco-4.4.6/debian/source # Replace debian directory with _CURRENT_ (main trunk) settings
+sudo /bin/rm -rf ${DATA}/nco-4.4.7 ${DATA}/nco_4.4.7* ${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_7-1 -d nco-4.4.7 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-4.4.7 nco # Export most recent
+tar cvzf ./nco_4.4.7.orig.tar.gz --exclude='nco-4.4.7/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.7
+/bin/rm -rf ${DATA}/nco-4.4.7 # Remove cvs-exported directory
+tar xvzf ./nco_4.4.7.orig.tar.gz # Untar to get directory without excluded files
+mkdir -p ${DATA}/nco-4.4.7/debian/source;cd ~/nco/debian;/bin/cp changelog compat control convert copyright doc-base files info rules ${DATA}/nco-4.4.7/debian;cd ~/nco/debian/source;/bin/cp format ${DATA}/nco-4.4.7/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-4.4.6;dpkg-buildpackage -rsudo -uc -us > ~/foo.nco 2>&1 # -uc -us: Do not sign changes or source files
-#cd ${DATA}/nco-4.4.6;dpkg-buildpackage -rsudo -sa > ~/foo.nco 2>&1 # -sa: Include _orig.tar.gz in .changes
-cd ${DATA}/nco-4.4.6;dpkg-buildpackage -rsudo > ~/foo.nco 2>&1
+#cd ${DATA}/nco-4.4.7;dpkg-buildpackage -rsudo -uc -us > ~/foo.nco 2>&1 # -uc -us: Do not sign changes or source files
+#cd ${DATA}/nco-4.4.7;dpkg-buildpackage -rsudo -sa > ~/foo.nco 2>&1 # -sa: Include _orig.tar.gz in .changes
+cd ${DATA}/nco-4.4.7;dpkg-buildpackage -rsudo > ~/foo.nco 2>&1
sudo dpkg --remove nco
-sudo dpkg --install ${DATA}/nco_4.4.6-1_*.deb
+sudo dpkg --install ${DATA}/nco_4.4.7-1_*.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_4.4.6-1_*.deb
-ls -l ${DATA}/nco_4.4.6*
+lintian ${DATA}/nco_4.4.7-1_*.deb
+ls -l ${DATA}/nco_4.4.7*
m ~/foo.nco
# Upload Ubuntu (rather than Debian) packages to websites
-scp ${DATA}/nco_4.4.6* dust.ess.uci.edu:/var/www/html/nco/src
-scp ${DATA}/nco_4.4.6* zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
+scp ${DATA}/nco_4.4.7* dust.ess.uci.edu:/var/www/html/nco/src
+scp ${DATA}/nco_4.4.7* 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_4.4.6-1_*.changes
+# cd ${DATA};dupload -t mentors nco_4.4.7-1_*.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_4.4.6* # Cleanup prior build
+sudo /bin/rm /var/cache/pbuilder/result/nco_4.4.7* # 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_4.4.6-1.dsc > ~/foo.nco.pbuilder 2>&1
-cd /var/cache/pbuilder/result;debsign -k6F635D10 nco_4.4.6-1_*.changes
-lintian /var/cache/pbuilder/result/nco_4.4.6-1_*.deb
+cd ${DATA};DIST=sid sudo pbuilder build nco_4.4.7-1.dsc > ~/foo.nco.pbuilder 2>&1
+cd /var/cache/pbuilder/result;debsign -k6F635D10 nco_4.4.7-1_*.changes
+lintian /var/cache/pbuilder/result/nco_4.4.7-1_*.deb
sudo dpkg --remove nco
-sudo dpkg --install /var/cache/pbuilder/result/nco_4.4.6-1_*.deb
+sudo dpkg --install /var/cache/pbuilder/result/nco_4.4.7-1_*.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_4.4.6-1_*.changes
+cd /var/cache/pbuilder/result;dupload -t mentors nco_4.4.7-1_*.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-4.4.6 ${DATA}/nco-4.4.6* # Cleanup last build
+/bin/rm -rf ${DATA}/nco-4.4.7 ${DATA}/nco-4.4.7* # Cleanup last build
${sudo_sng} /bin/rm -r -f \
-${rpm_root}/BUILD/nco-4.4.6 \
-${rpm_root}/RPMS/i386/nco-4.4.6-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-debuginfo-4.4.6-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-devel-4.4.6-?.i386.rpm \
-${rpm_root}/SOURCES/nco-4.4.6.tar.gz \
-${rpm_root}/SPECS/nco-4.4.6.spec \
-${rpm_root}/SRPMS/nco-4.4.6-?.src.rpm
-cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_6-1 -d nco-4.4.6 nco # Export based on tag
-${sudo_sng} ln -s ${HOME}/nco/bld/nco.spec ${rpm_root}/SPECS/nco-4.4.6.spec
-tar cvzf ./nco-4.4.6.tar.gz --exclude='nco-4.4.6/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.6
-${sudo_sng} /bin/cp ${DATA}/nco-4.4.6.tar.gz ${rpm_root}/SOURCES
+${rpm_root}/BUILD/nco-4.4.7 \
+${rpm_root}/RPMS/i386/nco-4.4.7-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-debuginfo-4.4.7-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-devel-4.4.7-?.i386.rpm \
+${rpm_root}/SOURCES/nco-4.4.7.tar.gz \
+${rpm_root}/SPECS/nco-4.4.7.spec \
+${rpm_root}/SRPMS/nco-4.4.7-?.src.rpm
+cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_7-1 -d nco-4.4.7 nco # Export based on tag
+${sudo_sng} ln -s ${HOME}/nco/bld/nco.spec ${rpm_root}/SPECS/nco-4.4.7.spec
+tar cvzf ./nco-4.4.7.tar.gz --exclude='nco-4.4.7/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.7
+${sudo_sng} /bin/cp ${DATA}/nco-4.4.7.tar.gz ${rpm_root}/SOURCES
cd ${rpm_root}/SPECS
-${sudo_sng} rpmbuild -ba --sign nco-4.4.6.spec > ~/foo.nco 2>&1
+${sudo_sng} rpmbuild -ba --sign nco-4.4.7.spec > ~/foo.nco 2>&1
scp \
-${rpm_root}/RPMS/i386/nco-4.4.6-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-debuginfo-4.4.6-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-devel-4.4.6-?.i386.rpm \
-${rpm_root}/SRPMS/nco-4.4.6-?.src.rpm \
+${rpm_root}/RPMS/i386/nco-4.4.7-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-debuginfo-4.4.7-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-devel-4.4.7-?.i386.rpm \
+${rpm_root}/SRPMS/nco-4.4.7-?.src.rpm \
dust.ess.uci.edu:/var/www/html/nco/src
scp \
-${rpm_root}/RPMS/i386/nco-4.4.6-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-debuginfo-4.4.6-?.i386.rpm \
-${rpm_root}/RPMS/i386/nco-devel-4.4.6-?.i386.rpm \
-${rpm_root}/SRPMS/nco-4.4.6-?.src.rpm \
+${rpm_root}/RPMS/i386/nco-4.4.7-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-debuginfo-4.4.7-?.i386.rpm \
+${rpm_root}/RPMS/i386/nco-devel-4.4.7-?.i386.rpm \
+${rpm_root}/SRPMS/nco-4.4.7-?.src.rpm \
zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
# RPM builds as user
@@ -259,33 +259,33 @@ zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
export rpm_root="${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-4.4.6 ${DATA}/nco-4.4.6* # Cleanup last build
+/bin/rm -rf ${DATA}/nco-4.4.7 ${DATA}/nco-4.4.7* # Cleanup last build
/bin/rm -r -f \
-${rpm_root}/nco-4.4.6-?.src.rpm \
-${rpm_root}/nco-4.4.6.spec \
-${rpm_root}/nco-4.4.6.tar.gz \
-${rpm_root}/*/nco-4.4.6-?.*.rpm \
-${rpm_root}/*/nco-debuginfo-4.4.6-?.*.rpm \
-${rpm_root}/*/nco-devel-4.4.6-?.*.rpm
-# cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_6-1 -d nco-4.4.6 nco # Export based on tag
-cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -D "1 second ago" -dnco-4.4.6 nco # Export most recent and build as 4.4.6-1
-tar cvzf ./nco-4.4.6.tar.gz --exclude='nco-4.4.6/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.6
-/bin/cp ${DATA}/nco-4.4.6.tar.gz ${rpm_root}
+${rpm_root}/nco-4.4.7-?.src.rpm \
+${rpm_root}/nco-4.4.7.spec \
+${rpm_root}/nco-4.4.7.tar.gz \
+${rpm_root}/*/nco-4.4.7-?.*.rpm \
+${rpm_root}/*/nco-debuginfo-4.4.7-?.*.rpm \
+${rpm_root}/*/nco-devel-4.4.7-?.*.rpm
+# cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -r nco-4_4_7-1 -d nco-4.4.7 nco # Export based on tag
+cd ${DATA};cvs -d zender at nco.cvs.sf.net:/cvsroot/nco export -kkv -D "1 second ago" -dnco-4.4.7 nco # Export most recent and build as 4.4.7-1
+tar cvzf ./nco-4.4.7.tar.gz --exclude='nco-4.4.7/debian*' --exclude='.cvsignore' --exclude='ncap_lex.c' --exclude='ncap_yacc.[ch]' ./nco-4.4.7
+/bin/cp ${DATA}/nco-4.4.7.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-4.4.6-?.*.rpm
+rpmlint ${rpm_root}/*/nco-4.4.7-?.*.rpm
sudo yum remove nco
-sudo yum install ${rpm_root}/*/nco-4.4.6-?.*.rpm
+sudo yum install ${rpm_root}/*/nco-4.4.7-?.*.rpm
scp \
-${rpm_root}/*/nco-4.4.6-?.*.rpm \
-${rpm_root}/*/nco-debuginfo-4.4.6-?.*.rpm \
-${rpm_root}/*/nco-devel-4.4.6-?.*.rpm \
-${rpm_root}/nco-4.4.6-?.*.src.rpm \
+${rpm_root}/*/nco-4.4.7-?.*.rpm \
+${rpm_root}/*/nco-debuginfo-4.4.7-?.*.rpm \
+${rpm_root}/*/nco-devel-4.4.7-?.*.rpm \
+${rpm_root}/nco-4.4.7-?.*.src.rpm \
dust.ess.uci.edu:/var/www/html/nco/src
scp \
-${rpm_root}/*/nco-4.4.6-?.*.rpm \
-${rpm_root}/*/nco-debuginfo-4.4.6-?.*.rpm \
-${rpm_root}/*/nco-devel-4.4.6-?.*.rpm \
-${rpm_root}/nco-4.4.6-?.*.src.rpm \
+${rpm_root}/*/nco-4.4.7-?.*.rpm \
+${rpm_root}/*/nco-debuginfo-4.4.7-?.*.rpm \
+${rpm_root}/*/nco-devel-4.4.7-?.*.rpm \
+${rpm_root}/nco-4.4.7-?.*.src.rpm \
zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
diff --git a/doc/doe.jpg b/doc/doe.jpg
new file mode 100644
index 0000000..f30b7e0
Binary files /dev/null and b/doc/doe.jpg differ
diff --git a/doc/index.shtml b/doc/index.shtml
index 56f4ad7..4a2cb91 100644
--- a/doc/index.shtml
+++ b/doc/index.shtml
@@ -1,4 +1,4 @@
-<!-- $Header: /cvsroot/nco/nco/doc/index.shtml,v 1.932 2014/10/01 17:47:40 zender Exp $
+<!-- $Header: /cvsroot/nco/nco/doc/index.shtml,v 1.940 2014/11/26 21:11:28 zender Exp $
Purpose: NCO homepage
URL:
@@ -46,9 +46,9 @@ Try to disable Spammers' machines:
<table width="100%"><tr><td align="left" valign="top">/
<a href="http://lists.sf.net/mailman/listinfo/nco-announce">Announce</a> /
-<a href="http://sf.net/projects/nco/forums/forum/9831">Developer</a> /
-<a href="http://sf.net/projects/nco/forums/forum/9829">Discussion</a> /
-<a href="http://sf.net/projects/nco/forums/forum/9830">Help</a> /
+<a href="http://sf.net/p/nco/discussion/9831">Developer</a> /
+<a href="http://sf.net/p/nco/discussion/9829">Discussion</a> /
+<a href="http://sf.net/p/nco/discussion/9830">Help</a> /
<a href="#RTFM">Manual</a> /
<a href="http://sf.net/projects/nco">Project</a> /
<a href="http://nco.cvs.sf.net/nco/nco/src/nco">Source</a> /
@@ -70,7 +70,7 @@ Try to disable Spammers' machines:
<p><h1 align="center">Welcome to the netCDF Operator (NCO) Homepage</h1>
<p><h2>
-Current NCO version is 4.4.6 last updated on <!--#flastmod file="VERSION"-->
+Current NCO version is 4.4.7 last updated on <!--#flastmod file="VERSION"-->
</h2>
<table border=0 width=100%>
@@ -150,8 +150,8 @@ and
<ul>
<li>2014 Nov ??: 4.4.7 (<i>In progress</i>)
-<li>2014 Oct 01: 4.4.6
-<li>2014 Aug 26: 4.4.5
+<li>2014 Oct 01: 4.4.6 (<tt>ncra, ncwa</tt> packing bugfixes, stride optimization)
+<li>2014 Aug 26: 4.4.5 (Stability)
<li>2014 Jul 01: NASA ACCESS 2013 <a href="#prp_axs">project</a> commences</li>
<li>2014 May 29: 4.4.4 (Stability)
<li>2014 Apr 02: 4.4.3 (Stability)
@@ -638,17 +638,18 @@ Chunking <tt>cnk_map=rew</tt>;
<a href="http://nco.sf.net/nco.html#cnk">Chunking</a> bytes not elements, caching;
Optimize diskless files?</li>
<li><b>NCO 4.4.7</b>: (<i>In Progress, features completed or being worked on include</i>)
-Optimize diskless files?</li>
+Smarter chunking defaults</li>
+<tt>cnk_min</tt> minimum chunksize;
<li><b>NCO 4.4.6</b>: (<i>Current Stable Release</i>)
<tt>-0</tt> hyperslabs;
-<tt>configure</tt> DAP correctly</li>;
+<tt>configure</tt> DAP correctly;
HDF4 chunking and deflation;
-<tt>netCDF4 stride (NC4_SRD) <a href="#bug_nc4_srd">bugfix</a>;
+netCDF4 stride (NC4_SRD) <a href="#bug_nc4_srd">bugfix</a>;
<tt>ncap2</tt> command line args with scripts;
<tt>ncra --dbl</tt> averaging packed variables with missing values <a href="#bug_ncra_dbl_pck_mss">bugfix</a>;
<tt>ncwa --dbl</tt> minimization/maximization of packed variables <a href="#bug_ncwa_pck_min_max">bugfix</a>;
<tt>ncks _SOURCE_FORMAT</tt> and <tt>-V</tt>;
-<tt>ncrename</tt> re-write
+<tt>ncrename</tt> re-write</li>
<li><b>NCO 4.4.5</b>:
DAP on <a href="http://nco.sf.net/nco.html#dap">HTTPS</a>;
<tt>ancillary_variables</tt> for <a href="http://nco.sf.net/nco.html#ncl">CF</a>;
@@ -661,7 +662,7 @@ Correctly parse MS Windows volume names like <tt>C:\foo</tt></li>
<li><b>NCO 4.4.4</b>:
netCDF'ize non-compliant element names;
<tt>-x var</tt> tolerates non-existence;
-<tt>--rad</tt> <a href="http://nso.sf.net/nco.html#rad">orphan dimensions</a>;
+<tt>--rad</tt> <a href="http://nco.sf.net/nco.html#rad">orphan dimensions</a>;
<tt>ncwa --mask_condition</tt> <a href="#bug_ncwa_mask_condition">bugfix</a></li>
<li><b>NCO 4.4.3</b>:
Faster DAP access to strided data;
@@ -735,7 +736,7 @@ Record appending with <tt>ncra/ncrcat --rec_apn</tt>;
<tt>ncflint --fix_rec_crd</tt>;
RX's in full paths;
Correct dimension/coordinate scopes;
-<tt>ncks</tt> MM3 bugfix;</li>
+<tt>ncks</tt> MM3 workaround;</li>
<li><b>NCO 4.2.5</b>:
<tt>ncks --mk_rec_dmn</tt> <a href="#bug_ncks_mk_rec_dmn">bugfix</a>;
<tt>ncks</tt> subsetting <a href="#bug_ncks_sbs">bugfix</a></li>
@@ -782,7 +783,7 @@ 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-4.4.6</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-4.4.7</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.
@@ -790,12 +791,12 @@ 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_4.4.6-1_i386.deb</tt>’):</dt>
-<li><a href="src/nco_4.4.6-1_amd64.deb">nco_4.4.6-1_amd64.deb</a> (<!--#fsize file="src/nco_4.4.6-1_amd64.deb"-->): Executables AMD64-compatible (last updated <!--#flastmod file="src/nco_4.4.6-1_amd64.deb"-->)</li>
-<li><a href="src/nco_4.4.6-1.dsc">nco_4.4.6-1.dsc</a> (<!--#fsize file="src/nco_4.4.6-1.dsc"-->): Description (last updated <!--#flastmod file="src/nco_4.4.6-1.dsc"-->)</li>
-<li><a href="src/nco_4.4.6-1_amd64.changes">nco_4.4.6-1_amd64.changes</a> (<!--#fsize file="src/nco_4.4.6-1_amd64.changes"-->): Changes since last deb package (last updated <!--#flastmod file="src/nco_4.4.6-1_amd64.changes"-->)</li>
-<li><a href="src/nco_4.4.6.orig.tar.gz">nco_4.4.6.orig.tar.gz</a> (<!--#fsize file="src/nco_4.4.6.orig.tar.gz"-->): Upstream Source (last updated <!--#flastmod file="src/nco_4.4.6.orig.tar.gz"-->)</li>
-<li><a href="src/nco_4.4.6-1.diff.gz">nco_4.4.6-1.diff.gz</a> (<!--#fsize file="src/nco_4.4.6-1_amd64.changes"-->): Debian patch to upstream source (last updated <!--#flastmod file="src/nco_4.4.6-1_amd64.changes"-->)</li>
+<dt>Debian package for most recent NCO release (install with, e.g., ‘<tt>dpkg --install nco_4.4.7-1_i386.deb</tt>’):</dt>
+<li><a href="src/nco_4.4.7-1_amd64.deb">nco_4.4.7-1_amd64.deb</a> (<!--#fsize file="src/nco_4.4.7-1_amd64.deb"-->): Executables AMD64-compatible (last updated <!--#flastmod file="src/nco_4.4.7-1_amd64.deb"-->)</li>
+<li><a href="src/nco_4.4.7-1.dsc">nco_4.4.7-1.dsc</a> (<!--#fsize file="src/nco_4.4.7-1.dsc"-->): Description (last updated <!--#flastmod file="src/nco_4.4.7-1.dsc"-->)</li>
+<li><a href="src/nco_4.4.7-1_amd64.changes">nco_4.4.7-1_amd64.changes</a> (<!--#fsize file="src/nco_4.4.7-1_amd64.changes"-->): Changes since last deb package (last updated <!--#flastmod file="src/nco_4.4.7-1_amd64.changes"-->)</li>
+<li><a href="src/nco_4.4.7.orig.tar.gz">nco_4.4.7.orig.tar.gz</a> (<!--#fsize file="src/nco_4.4.7.orig.tar.gz"-->): Upstream Source (last updated <!--#flastmod file="src/nco_4.4.7.orig.tar.gz"-->)</li>
+<li><a href="src/nco_4.4.7-1.diff.gz">nco_4.4.7-1.diff.gz</a> (<!--#fsize file="src/nco_4.4.7-1_amd64.changes"-->): Debian patch to upstream source (last updated <!--#flastmod file="src/nco_4.4.7-1_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.
@@ -841,10 +842,10 @@ Thanks to Gavin Burris and Kyle Wilcox for documenting build procedures for RHEL
<!--
# Mac OS X 10.9 (Mavericks) systems (aerosol):
/usr/bin/scp ~/nco/doc/index.shtml zender,nco at web.sf.net:/home/project-web/nco/htdocs
-cd ~/bin/MACOSX;tar cvzf ${DATA}/nco-4.4.6.macosx.10.9.tar.gz nc*;scp ${DATA}/nco-4.4.6.macosx.10.9.tar.gz zender,nco at web.sf.net:/home/project-web/nco/htdocs/src
+cd ~/bin/MACOSX;tar cvzf ${DATA}/nco-4.4.7.macosx.10.9.tar.gz nc*;scp ${DATA}/nco-4.4.7.macosx.10.9.tar.gz zender,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-4.4.6.macosx.10.9.tar.gz">nco-4.4.6.macosx.10.9.tar.gz</a> (<!--#fsize file="src/nco-4.4.6.macosx.10.9.tar.gz"-->): Executables MacOSX 10.9-compatible (last updated <!--#flastmod file="src/nco-4.4.6.macosx.10.9.tar.gz"-->).
+<li><a href="src/nco-4.4.7.macosx.10.9.tar.gz">nco-4.4.7.macosx.10.9.tar.gz</a> (<!--#fsize file="src/nco-4.4.7.macosx.10.9.tar.gz"-->): Executables MacOSX 10.9-compatible (last updated <!--#flastmod file="src/nco-4.4.7.macosx.10.9.tar.gz"-->).
(NB: These executables require
the <a href="http://trac.macosforge.org/projects/macports/wiki">MacPorts</a>
<a href="#bld_macports">dependencies</a> for <a href="http://svn.macports.org/repository/macports/trunk/dports/science/nco">NCO</a>). Maintained by NCO Project.</li>
@@ -866,10 +867,10 @@ 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-4.4.5.windows.mvs.exe pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
+/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.6.windows.mvs.exe pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
/usr/bin/scp /home/pvicente/windows_setup/nco-4.4.5.win32.cygwin.tar.gz pvicente,nco at web.sf.net:/home/project-web/nco/htdocs/src
-->
-<li><a href="src/nco-4.4.5.windows.mvs.exe">nco-4.4.5.windows.mvs.exe</a> (<!--#fsize file="src/nco-4.4.5.windows.mvs.exe"-->) : Windows Self-Extracting Installer (last updated <!--#flastmod file="src/nco-4.4.5.windows.mvs.exe"-->). Maintained by Pedro Vicente.</li>
+<li><a href="src/nco-4.4.6.windows.mvs.exe">nco-4.4.6.windows.mvs.exe</a> (<!--#fsize file="src/nco-4.4.6.windows.mvs.exe"-->) : Windows Self-Extracting Installer (last updated <!--#flastmod file="src/nco-4.4.6.windows.mvs.exe"-->). Maintained by Pedro Vicente.</li>
</ul>
<a name="cygwin"></a> <!-- http://nco.sf.net#cygwin -->
@@ -1002,13 +1003,13 @@ Please read the Guide's suggestions for productive
<a href="./nco.html#help">Help Requests and Bug Reports</a>.
<ul>
<li><i>Where should I ask my questions on how to use NCO?</i>
-On the <a href="http://sf.net/projects/nco/forums/forum/9830">Help</a> site.
+On the <a href="http://sf.net/p/nco/discussion/9830">Help</a> site.
</li>
<li><i>Where should I post suggestions/comments on NCO features and usage?</i>
-On the <a href="http://sf.net/projects/nco/forums/forum/9829">Discussion</a> site.
+On the <a href="http://sf.net/p/nco/discussion/9829">Discussion</a> site.
</li>
<li><i>Where are NCO development and bug-squashing discussed?</i>
-At the <a href="http://sf.net/projects/nco/forums/forum/9831">Developer</a>
+At the <a href="http://sf.net/p/nco/discussion/9831">Developer</a>
site.</li>
</ul>
<hr></p>
@@ -1034,10 +1035,10 @@ The best way to acquire the source 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-4.4.6.tar.gz">nco-4.4.6.tar.gz</a>
-(<!--#fsize file="src/nco-4.4.6.tar.gz"--> compressed tar-file)<br>
-<!--#exec cmd="openssl dgst -md5 src/nco-4.4.6.tar.gz"--><br>
-<!--#exec cmd="openssl dgst -sha1 src/nco-4.4.6.tar.gz"-->
+<a href="src/nco-4.4.7.tar.gz">nco-4.4.7.tar.gz</a>
+(<!--#fsize file="src/nco-4.4.7.tar.gz"--> compressed tar-file)<br>
+<!--#exec cmd="openssl dgst -md5 src/nco-4.4.7.tar.gz"--><br>
+<!--#exec cmd="openssl dgst -sha1 src/nco-4.4.7.tar.gz"-->
</li>
</ul>
@@ -1060,19 +1061,19 @@ 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>4.4.6</tt> (which is
-tagged as <tt>nco-4_4_6</tt> due to CVS rules) into local directory
-<tt>nco-4.4.6</tt>:
-<p><tt>cvs -z3 -d:pserver:anonymous at nco.cvs.sf.net:/cvsroot/nco co -r nco-4_4_6 -d nco-4.4.6 nco</tt></p>
+This command retrieves and places NCO version <tt>4.4.7</tt> (which is
+tagged as <tt>nco-4_4_7</tt> due to CVS rules) into local directory
+<tt>nco-4.4.7</tt>:
+<p><tt>cvs -z3 -d:pserver:anonymous at nco.cvs.sf.net:/cvsroot/nco co -r nco-4_4_7 -d nco-4.4.7 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_6</tt>) and the development version is that the
+(e.g., <tt>nco-4_4_7</tt>) and the development version is that the
tagged release operators will print a valid version number (e.g.,
-<tt>4.4.6</tt>) when asked to do so with the <tt>-r</tt> flag
+<tt>4.4.7</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.
@@ -1115,7 +1116,7 @@ If pre-built executables do not satisfy you (e.g., are out-of-date)
and you want the latest, greatest features, then the first steps to
build (i.e., compile, for the most part) NCO from source code are to
install the prerequisites:
-<a href="http://www.antlr.org">ANTLR 2.7.x</a> (not version 3.x or 4.x!) (required for <tt>ncap2</tt>),
+<a href="http://www.antlr.org">ANTLR</a> version 2.7.7 (like <a href="http://glace.ess.uci.edu/libs/antlr-2.7.7.tar.gz">this one</a> <i>not</i> version 3.x or 4.x!) (required for <tt>ncap2</tt>),
<a href="http://www.gnu.org/software/gsl">GSL</a> (desirable for <tt>ncap2</tt>),
<a href="http://www.unidata.ucar.edu/packages/netcdf">netCDF</a> (absolutely required),
<a href="http://opendap.org">OPeNDAP</a> (enables network transparency), and
@@ -1196,7 +1197,7 @@ Users should instead first download and install the Antlr found <a href="http://
<tt>
<dt>wget http://dust.ess.uci.edu/nco/nco.tar.gz</dt>
<dt>tar xvzf nco.tar.gz</dt>
-<dt>cd nco-4.4.6</dt>
+<dt>cd nco-4.4.7</dt>
<dt>./configure --prefix=/usr/local</dt>
<dt>make</dt>
<dt>sudo make install</dt>
@@ -1206,7 +1207,7 @@ Users should instead first download and install the Antlr found <a href="http://
<dt><a name="bonobo"></a></dt> <!-- http://nco.sf.net#bonobo -->
<dt><a name="bnb"></a></dt> <!-- http://nco.sf.net#bnb -->
Please post questions about building or installing NCO to the
-<a href="http://sf.net/projects/nco/forums/forum/9830">list</a>
+<a href="http://sf.net/p/nco/discussion/9830">list</a>
only after reading and attempting to follow these instructions.
To indicate you have done this, include the word “bonobo”
in the first sentence of your post.
@@ -1308,6 +1309,23 @@ We are not yet sure that we have fully and correctly diagnosed the
cause nor that our workaround is always effective.
Comments welcome. Updates will be posted right here.
</li>
+
+<!-- http://nco.sf.net#bug_nc4_rename -->
+<a name="bug_nc4_rename"></a>
+<li><i>netCDF4 Renaming bugs:</i>
+Unforunately from 2007–present (October, 2014) the netCDF
+library (versions 4.0.0–4.3.2) contained bugs or limitations
+that prevent <tt>ncrename</tt> (and other netCDF4-based software)
+from correctly renaming coordinate variables, dimensions, and groups
+in netCDF4 files.
+(To our knowledge the netCDF library calls for renaming always work
+well on netCDF3 files so one workaround to netCDF4 bugs is convert to
+netCDF3, rename, then convert back).
+A summary of renaming limitations associated with particular versions
+of netCDF4 is maintained in the online manual
+<a href="http://nco.sf.net/nco.html#bug_nc4_rename">here</a>.
+Important updates will also be posted here on the homepage.
+</li>
</ul>
<ul><b>Recent Operator-specific Run-time Problems:</b>
@@ -1560,9 +1578,9 @@ community.
<table width="100%"><tr><td align="left" valign="top">/
<a href="http://lists.sf.net/mailman/listinfo/nco-announce">Announce</a> /
-<a href="http://sf.net/projects/nco/forums/forum/9831">Developer</a> /
-<a href="http://sf.net/projects/nco/forums/forum/9829">Discussion</a> /
-<a href="http://sf.net/projects/nco/forums/forum/9830">Help</a> /
+<a href="http://sf.net/p/nco/discussion/9831">Developer</a> /
+<a href="http://sf.net/p/nco/discussion/9829">Discussion</a> /
+<a href="http://sf.net/p/nco/discussion/9830">Help</a> /
<a href="#RTFM">Manual</a> /
<a href="http://sf.net/projects/nco">Project</a> /
<a href="http://nco.cvs.sf.net/nco/nco/src/nco/">Source</a> /
diff --git a/doc/nco.dvi b/doc/nco.dvi
index b540cfe..d1ea755 100644
Binary files a/doc/nco.dvi and b/doc/nco.dvi differ
diff --git a/doc/nco.html b/doc/nco.html
index 9007720..b73ced0 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 4.4.6 User Guide</title>
+<title>NCO 4.4.7 User Guide</title>
-<meta name="description" content="NCO 4.4.6 User Guide">
-<meta name="keywords" content="NCO 4.4.6 User Guide">
+<meta name="description" content="NCO 4.4.7 User Guide">
+<meta name="keywords" content="NCO 4.4.7 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> 4.4.6 User Guide</h1>
+<h1 class="settitle" align="center"><acronym>NCO</acronym> 4.4.7 User Guide</h1>
@@ -362,8 +362,8 @@ 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 4.4.6.
-It was last updated 1 October 2014.
+<p>This documentation is for <acronym>NCO</acronym> version 4.4.7.
+It was last updated 26 November 2014.
Corrections, additions, and rewrites of this documentation are very
welcome.
</p>
@@ -645,7 +645,7 @@ 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 (4.4.6).
+<p>There are twelve operators in the current version (4.4.7).
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>).
@@ -1361,7 +1361,7 @@ We usually reply to the forum message, not to the original poster.
see if that feature is already on the <a href="file:./TODO">TODO</a> list.
If it is, why not implement that feature yourself and send us the patch?
If the feature is not yet on the list, then send a note to the
-<a href="http://sf.net/projects/nco/forums/forum/9829">NCO Discussion forum</a>.
+<a href="http://sf.net/p/nco/discussion/9829">NCO Discussion forum</a>.
</p>
<p>Read the manual before reporting a bug or posting a help request.
Sending questions whose answers are not in the manual is the best
@@ -1383,7 +1383,7 @@ 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>NCO</acronym> (with ‘<samp>-r</samp>’).
Post your help request to the
-<a href="http://sf.net/projects/nco/forums/forum/9830">NCO Help forum</a>.
+<a href="http://sf.net/p/nco/discussion/9830">NCO Help forum</a>.
</p>
<p>If you think you used the right command when <acronym>NCO</acronym> misbehaves,
then you might have found a bug.
@@ -2567,6 +2567,9 @@ penalty of copying the entire output file unless the expansion exceeds
the amount of header padding exceeded.
This can be beneficial when it is known that some metadata will be added
at a future date.
+The operators which benefit most from judicious use of header padding
+are <code>ncatted</code> and <code>ncrename</code>, since they only alter
+metadata.
</p>
<p>This optimization exploits the netCDF library <code>nc__enddef()</code>
function, which behaves differently with different versions of netCDF.
@@ -4944,35 +4947,37 @@ the last <var>N</var> elements of a hyperslab.
Negative integers as <var>min</var> or <var>max</var> elements of a hyperslab
specification indicate offsets from the end (Python also uses this
convention).
-Consistent with this convention, the value ‘<samp>-0</samp>’ (negative zero)
-indicates the last element of a dimension, even though negative zero
-is algebraically equivalent to zero.
+Consistent with this convention, the value ‘<samp>-1</samp>’ (negative one)
+indicates the last element of a dimension, and negative zero is
+algebraically equivalent to zero and so indicates the first element of a
+dimension.
Previously, for example, ‘<samp>-d time,-2,-1</samp>’ caused a domain error.
-Now it means select the second-to-last and penultimate timesteps.
-Whereas ‘<samp>-d time,0</samp>’ and ‘<samp>-d time,-0</samp>’ refer to the first and
-last timesteps, respectively.
+Now it means select the penultimate and last timesteps, independent of
+the size of the <code>time</code> dimension.
+Select only the first and last timesteps, respectively, with
+‘<samp>-d time,0</samp>’ and ‘<samp>-d time,-1</samp>’.
Negative integers work for <var>min</var> and <var>max</var> indices, though not
for <var>stride</var>.
</p><div class="example">
-<pre class="example"># Second through second-to-last longitudes
+<pre class="example"># Second through penultimate longitudes
ncks -d lon,1,-2 in.nc out.nc
# Second through last longitude
-ncks -d lon,1,-0 in.nc out.nc
-# Third-to-last to penultimate longitude
+ncks -d lon,1,-1 in.nc out.nc
+# Second-to-last to last longitude
ncks -d lon,-3,-1 in.nc out.nc
-# Third-to-last to last longitude
+# Second-to-last to last longitude
ncks -d lon,-3, in.nc out.nc
</pre></div>
<p>The ‘<samp>-F</samp>’ argument, if any, applies the Fortran index convention
-only to indices specified as positive integers (including zero).
+only to indices specified as positive integers:
</p><div class="example">
-<pre class="example"># First through second-to-last longitudes
+<pre class="example"># First through penultimate longitudes
ncks -F -d lon,1,-2 in.nc out.nc (-F affects only start index)
# First through last longitude
-ncks -F -d lon,1,-0 in.nc out.nc
-# Third-to-last to penultimate longitude (-F has no effect)
+ncks -F -d lon,1,-1 in.nc out.nc
+# Second-to-last to penultimate longitude (-F has no effect)
ncks -F -d lon,-3,-1 in.nc out.nc
-# Third-to-last to last longitude (-F has no effect)
+# Second-to-last to last longitude (-F has no effect)
ncks -F -d lon,-3, in.nc out.nc
</pre></div>
@@ -6261,11 +6266,13 @@ Next: <a href="#Deflation" accesskey="n" rel="next">Deflation</a>, Previous: <a
<a name="index-_002d_002dcnk_005fbyt"></a>
<a name="index-_002d_002dcnk_005fdmn"></a>
<a name="index-_002d_002dcnk_005fmap"></a>
+<a name="index-_002d_002dcnk_005fmin"></a>
<a name="index-_002d_002dcnk_005fplc"></a>
<a name="index-_002d_002dcnk_005fscl"></a>
<a name="index-_002d_002dchunk_005fbyte"></a>
<a name="index-_002d_002dchunk_005fdimension"></a>
<a name="index-_002d_002dchunk_005fmap"></a>
+<a name="index-_002d_002dchunk_005fmin"></a>
<a name="index-_002d_002dchunk_005fpolicy"></a>
<a name="index-_002d_002dchunk_005fscalar"></a>
<a name="index-chunking-1"></a>
@@ -6279,6 +6286,7 @@ Long options:
‘<samp>--cnk_dmn <var>dmn_nm</var>,<var>cnk_sz</var></samp>’,
‘<samp>--chunk_dimension <var>dmn_nm</var>,<var>cnk_sz</var></samp>’<br>,
‘<samp>--cnk_map <var>cnk_map</var></samp>’, ‘<samp>--chunk_map <var>cnk_map</var></samp>’,<br>
+‘<samp>--cnk_min <var>var_sz</var></samp>’, ‘<samp>--chunk_min <var>var_sz</var></samp>’,<br>
‘<samp>--cnk_plc <var>cnk_plc</var></samp>’, ‘<samp>--chunk_policy <var>cnk_plc</var></samp>’,<br>
‘<samp>--cnk_scl <var>cnk_sz</var></samp>’, ‘<samp>--chunk_scalar <var>cnk_sz</var></samp>’<br>
</p></td></tr></table>
@@ -6287,34 +6295,57 @@ Long options:
support a plethora of chunksize options.
Chunking can significantly accelerate or degrade read/write access
to large datasets.
-Dataset chunking issues are described in detail
+Dataset chunking issues are described by <acronym>THG</acronym> and Unidata
<a href="http://www.hdfgroup.org/HDF5/doc/H5.user/Chunking.html">here</a>,
<a href="http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_why_it_matters">here</a>,
and
<a href="http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_choosing_shapes">here</a>.
+<acronym>NCO</acronym> authors are working on generalized algorithms and
+applications of chunking strategies (stay tuned for more in 2015).
</p>
<a name="index-chunking-policy"></a>
<a name="index-chunking-map"></a>
<a name="index-chunksize"></a>
+<a name="index-blocksize"></a>
<p>The <acronym>NCO</acronym> chunking implementation is designed to be flexible.
-Users control three aspects of the chunking implementation.
-These are known as the <em>chunking policy</em>, <em>chunking map</em>,
-and <em>chunksize</em>.
-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.
+Users control four aspects of the chunking implementation.
+These are the <em>chunking policy</em>, <em>chunking map</em>,
+<em>chunksize</em>, and <em>minimum chunksize</em>.
+The chunking policy determines <em>which</em> variables to chunk, and
+the chunking map determines how (with what exact sizes) to chunk
+those variables.
+These are high-level mechanisms that apply to an entire file and all
+variables and dimensions.
+The chunksize option allows per-dimension specification of sizes that
+will override the selected (or default) chunking map.
+</p>
+<p>The <var>var_sz</var> parameter is the minimum size in bytes (not elements)
+of variables to chunk.
+This threshold is intended to restrict use of chunking to variables
+for which it is efficient.
+By default this minimum variable size for chunking is twice the system
+blocksize (when available) and is 8192 bytes<!-- /@w --> otherwise.
+Users may set this to any value with the ‘<samp>--cnk_min</samp>’ switch.
+</p>
<a name="index-hyperslab-1"></a>
<a name="index-ncpdq-2"></a>
<a name="index-packing-1"></a>
-The implementation is a hybrid of the <code>ncpdq</code> packing policies
-(see <a href="#ncpdq-netCDF-Permute-Dimensions-Quickly">ncpdq netCDF Permute Dimensions Quickly</a>), and the hyperslab
-specifications (see <a href="#Hyperslabs">Hyperslabs</a>).
-Each aspect is intended to have a sensible default, so that most users
-will only need to set one switch to obtain sensible chunking.
-Power users can tune the three switches in tandem to obtain optimal
-performance.
-</p>
-<p>The user specifies the desired chunking policy with the ‘<samp>-P</samp>’ switch
+<p>The chunking implementation is similar to a hybrid of the
+<code>ncpdq</code> packing policies
+(see <a href="#ncpdq-netCDF-Permute-Dimensions-Quickly">ncpdq netCDF Permute Dimensions Quickly</a>) and hyperslab
+specifications (see <a href="#Hyperslabs">Hyperslabs</a>).
+Each aspect is intended to have a sensible default, so that many users
+only need to set one switch to obtain sensible chunking.
+Power users can tune chunking with the three switches in tandem to
+obtain optimal performance.
+</p>
+<p>By default, <acronym>NCO</acronym> preserves the chunking characteristics
+of the input file in the output file
+<a name="DOCF37" href="#FOOT37"><sup>37</sup></a>.
+In other words, preserving chunking requires no switches or user
+intervention.
+</p>
+<p>Users specify the desired chunking policy with the ‘<samp>-P</samp>’ switch
(or its long option equivalents, ‘<samp>--cnk_plc</samp>’ and
‘<samp>--chunk_policy</samp>’) and its <var>cnk_plc</var> argument.
As of August, 2014, six chunking policies are implemented:<br>
@@ -6360,7 +6391,7 @@ Mnemonic: <em>G</em>reater than or equal to <em>3</em> <em>D</em>imensions<br>
<dd><p>Definition: Chunk all 1-D record variables<br>
Alternate invocation: none<br>
Any specified (with ‘<samp>--cnk_dmn</samp>’) record dimension chunksizes will
-be applied to 1-D record variables (and to no other variables).
+be applied only to 1-D record variables (and to no other variables).
Other dimensions may be chunked with their own ‘<samp>--cnk_dmn</samp>’ options
that will apply to all variables.
<var>cnk_plc</var> key values: ‘<samp>r1d</samp>’, ‘<samp>cnk_r1d</samp>’, ‘<samp>plc_r1d</samp>’<br>
@@ -6373,14 +6404,14 @@ Alternate invocation: none<br>
<var>cnk_plc</var> key values: ‘<samp>xpl</samp>’, ‘<samp>cnk_xpl</samp>’, ‘<samp>plc_xpl</samp>’<br>
Mnemonic: E<em>XPL</em>icitly specified dimensions<br>
</p></dd>
-<dt><em>Chunk Variables with Existing Chunk Sizes</em></dt>
-<dd><p>Definition: Chunk all variables possible that are already chunked in the
-input file.
+<dt><em>Chunk Variables that are already Chunked</em></dt>
+<dd><p>Definition: Chunk only variables that are already chunked in the input
+file.
When used in conjunction with ‘<samp>cnk_map=xst</samp>’ this option preserves
and copies the chunking parameters from the input to the output file.
Alternate invocation: none<br>
<var>cnk_plc</var> key values: ‘<samp>xst</samp>’, ‘<samp>cnk_xst</samp>’, ‘<samp>plc_xst</samp>’<br>
-Mnemonic: E<em>X</em>i<em>ST</em>ing chunk sizes<br>
+Mnemonic: E<em>X</em>i<em>ST</em>ing chunked variables<br>
</p></dd>
<dt><em>Unchunking</em></dt>
<dd><p>Definition: Unchunk all variables possible.
@@ -6411,7 +6442,7 @@ is called the <em>chunking map</em>.
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:<br>
+Eight chunking maps are currently implemented:<br>
<a name="index-dmn"></a>
<a name="index-scl"></a>
<a name="index-prd"></a>
@@ -6419,18 +6450,23 @@ Four chunking maps are currently implemented:<br>
<a name="index-rd1"></a>
<a name="index-xst-1"></a>
<a name="index-rew"></a>
+<a name="index-nc4"></a>
<a name="index-cnk_005fdmn"></a>
<a name="index-cnk_005fscl"></a>
<a name="index-cnk_005fprd"></a>
<a name="index-cnk_005flfp"></a>
<a name="index-cnk_005frd1"></a>
<a name="index-cnk_005fxst-1"></a>
+<a name="index-cnk_005frew"></a>
+<a name="index-cnk_005fnc4"></a>
<a name="index-map_005fdmn"></a>
<a name="index-map_005fscl"></a>
<a name="index-map_005fprd"></a>
<a name="index-map_005flfp"></a>
<a name="index-map_005frd1"></a>
<a name="index-map_005fxst"></a>
+<a name="index-map_005frew"></a>
+<a name="index-map_005fnc4"></a>
<a name="index-Chris-Barker"></a>
</p><dl compact="compact">
<dt><em>Chunksize Equals Dimension Size [<em>default</em>]</em></dt>
@@ -6497,6 +6533,17 @@ Russ Rew explains the motivation and derivation for this strategy
<var>cnk_map</var> key values: ‘<samp>rew</samp>’, ‘<samp>cnk_rew</samp>’, ‘<samp>map_rew</samp>’<br>
Mnemonic: Russ <em>REW</em><br>
</p></dd>
+<dt><em>Chunksizes use netCDF4 defaults</em></dt>
+<dd><p>Definition: Chunksizes are determined by the underlying netCDF library.
+All variables selected by the current chunking policy have their
+chunksizes determined by netCDF library defaults.
+The default algorithm netCDF uses to determine chunksizes has changed
+through the years, and thus depends on the netCDF library version.
+This map can be used to reset (portions of) previously chunked files to
+default chunking values.<br>
+<var>cnk_map</var> key values: ‘<samp>nc4</samp>’, ‘<samp>cnk_nc4</samp>’, ‘<samp>map_nc4</samp>’<br>
+Mnemonic: <em>N</em>et<em>C</em>DF<em>4</em><br>
+</p></dd>
</dl>
<p>It is possible to combine the above chunking map algorithms with
user-specified per-dimension (though not per-variable) chunksizes that
@@ -6509,12 +6556,29 @@ chunksize, respectively.
The ‘<samp>--cnk_dmn</samp>’ option may be used as many times as necessary.
</p>
<p>The default behavior of chunking depends on several factors.
-When no chunking options are explicitly specified by the user, then
+As mentioned above, when no chunking options are explicitly specified by
+the user, then <acronym>NCO</acronym> preserves the chunking characteristics of
+the input file in the output file.
+This is equivalent to specifying both <var>cnk_plc</var> and <var>cnk_map</var>
+as “existing”, i.e., ‘<samp>--cnk_plc=xst --cnk_map=xst</samp>’.
+If
output netCDF4 files are chunked with the default behavior of the
netCDF4 library.
-When any chunking option <em>except</em> ‘<samp>cnk_plc</samp>’ or ‘<samp>cnk_map</samp>’
-is specified, then ‘<samp>cnk_plc</samp>’ and ‘<samp>cnk_map</samp>’ are set to
-‘<samp>g2d</samp>’ and ‘<samp>rd1</samp>’, respectively.
+</p>
+<p>When any chunking parameter <em>except</em> ‘<samp>cnk_plc</samp>’ or
+‘<samp>cnk_map</samp>’ is specified (such as ‘<samp>cnk_dmn</samp>’ or
+‘<samp>cnk_sz_scl</samp>’), then the “existing” policy and map are
+retained and the output chunksizes are modified where necessary in
+accord with the user-specified parameter.
+When ‘<samp>cnk_map</samp>’ is specified and ‘<samp>cnk_plc</samp>’ is not, then
+<acronym>NCO</acronym> picks (what it thinks is) the optimal chunking policy.
+This has always been policy ‘<samp>map_g2d</samp>’.
+When ‘<samp>cnk_plc</samp>’ is specified and ‘<samp>cnk_map</samp>’ is not, then
+<acronym>NCO</acronym> picks (what it thinks is) the optimal chunking map.
+This has always been map ‘<samp>map_rd1</samp>’.
+</p>
+<p>To start afresh and return to netCDF4 chunking defaults, select
+‘<samp>cnk_map=nc4</samp>’.
</p>
<a name="xmp_cnk"></a> <!-- http://nco.sf.net/nco.html#xmp_cnk -->
<a name="xmp_chunk"></a> <!-- http://nco.sf.net/nco.html#xmp_chunk --><div class="example">
@@ -6785,7 +6849,7 @@ 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="DOCF37" href="#FOOT37"><sup>37</sup></a>.
+<a name="DOCF38" href="#FOOT38"><sup>38</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.
@@ -6976,7 +7040,7 @@ 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="DOCF38" href="#FOOT38"><sup>38</sup></a>.
+<a name="DOCF39" href="#FOOT39"><sup>39</sup></a>.
Let <var>min</var> and <var>max</var> be the minimum and maximum values
of <var>x</var>.<!-- /@w -->
</p><br>
@@ -7421,14 +7485,14 @@ 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="DOCF39" href="#FOOT39"><sup>39</sup></a>.
+<a name="DOCF40" href="#FOOT40"><sup>40</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="DOCF40" href="#FOOT40"><sup>40</sup></a>:
+<a name="DOCF41" href="#FOOT41"><sup>41</sup></a>:
</p><ol>
<li> The requested operation is arithmetic.
This is why type conversion is limited to the operators <code>ncap2</code>,
@@ -7478,7 +7542,7 @@ 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="DOCF41" href="#FOOT41"><sup>41</sup></a>.
+<a name="DOCF42" href="#FOOT42"><sup>42</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
@@ -7551,10 +7615,10 @@ 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="DOCF42" href="#FOOT42"><sup>42</sup></a>.
+<a name="DOCF43" href="#FOOT43"><sup>43</sup></a>.
And the <acronym>IEEE</acronym> double-precision representation
gives from 15 to 17<!-- /@w --> significant decimal digits precision
-<a name="DOCF43" href="#FOOT43"><sup>43</sup></a>.
+<a name="DOCF44" href="#FOOT44"><sup>44</sup></a>.
Hence double-precision numbers represent about nine digits more
precision than single-precision numbers.
</p>
@@ -7589,7 +7653,7 @@ 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="DOCF44" href="#FOOT44"><sup>44</sup></a>.
+<a name="DOCF45" href="#FOOT45"><sup>45</sup></a>.
That said, such promotion is warranted in some circumstances.
</p>
<p>For example, rounding errors can accumulate to worrisome levels during
@@ -7621,7 +7685,7 @@ 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="DOCF45" href="#FOOT45"><sup>45</sup></a>.
+<a name="DOCF46" href="#FOOT46"><sup>46</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">
@@ -7814,7 +7878,7 @@ 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="DOCF46" href="#FOOT46"><sup>46</sup></a>.
+<a name="DOCF47" href="#FOOT47"><sup>47</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>
@@ -8130,10 +8194,10 @@ Skip this section if you never work with <acronym>CF</acronym> metadata.
<p>The latest <acronym>CF</acronym> netCDF conventions are described
<a href="http://cfconventions.org/1.6.html">here</a>.
Most <acronym>CF</acronym> netCDF conventions are transparent to <acronym>NCO</acronym>
-<a name="DOCF47" href="#FOOT47"><sup>47</sup></a>.
+<a name="DOCF48" href="#FOOT48"><sup>48</sup></a>.
There are no known pitfalls associated with using any <acronym>NCO</acronym>
operator on files adhering to these conventions
-<a name="DOCF48" href="#FOOT48"><sup>48</sup></a>.
+<a name="DOCF49" href="#FOOT49"><sup>49</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
@@ -8465,7 +8529,7 @@ in-depth examples of <code>ncap2</code> solutions to complex problems.
<p>DESCRIPTION
</p>
<p><code>ncap2</code> arithmetically processes netCDF files
-<a name="DOCF49" href="#FOOT49"><sup>49</sup></a>.
+<a name="DOCF50" href="#FOOT50"><sup>50</sup></a>.
<a name="index-script-file"></a>
<a name="index-_002d_002dscript_002dfile"></a>
<a name="index-_002d_002dfl_005fspt"></a>
@@ -10601,7 +10665,7 @@ 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="DOCF50" href="#FOOT50"><sup>50</sup></a>.
+<a name="DOCF51" href="#FOOT51"><sup>51</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.
@@ -11842,7 +11906,7 @@ 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="DOCF51" href="#FOOT51"><sup>51</sup></a>.
+<a name="DOCF52" href="#FOOT52"><sup>52</sup></a>.
and are indicated with an asterisk.
<a name="index-_002df"></a>
<a name="index-_002d_002dprn_005ffnc_005ftbl"></a>
@@ -11850,7 +11914,7 @@ 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="DOCF52" href="#FOOT52"><sup>52</sup></a>
+<a name="DOCF53" href="#FOOT53"><sup>53</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 -->
@@ -12016,6 +12080,20 @@ of the <code>history</code> global attribute (see <a href="#History-Attribute">H
‘<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>.
</p>
+<a name="index-performance-6"></a>
+<a name="index-operator-speed-5"></a>
+<a name="index-speed-6"></a>
+<a name="index-execution-time-5"></a>
+<p>According to the <cite>netCDF User Guide</cite>, altering metadata in
+netCDF files does not incur the penalty of recopying the entire file
+when the new metadata occupies less space than the old metadata.
+Thus <code>ncatted</code> may run much faster (at least on netCDF3 files)
+if judicious use of header padding (see <a href="#Metadata-Optimization">Metadata Optimization</a>) was
+made when producing the <var>input-file</var>.
+Similarly, using the ‘<samp>--hdr_pad</samp>’ option with <code>ncatted</code>
+helps ensure that future metadata changes to <var>output-file</var> occur
+as swiftly as possible.
+</p>
<a name="index-missing-values-1"></a>
<a name="index-data_002c-missing-1"></a>
<a name="index-_005fFillValue-2"></a>
@@ -12341,7 +12419,7 @@ from whatever it currently is to “temperature”:
<p><acronym>NCO</acronym> arithmetic operators may not work as expected on
<acronym>IEEE</acronym> NaN (short for Not-a-Number) and NaN-like numbers such as
positive infinity and negative infinity
-<a name="DOCF53" href="#FOOT53"><sup>53</sup></a>.
+<a name="DOCF54" href="#FOOT54"><sup>54</sup></a>.
One way to work-around this problem is to change <acronym>IEEE</acronym> NaNs to
normal missing values.
As of <acronym>NCO</acronym> 4.1.0 (March, 2012), <code>ncatted</code> works with
@@ -12484,7 +12562,7 @@ Next: <a href="#nces-netCDF-Ensemble-Statistics" accesskey="n" rel="next">nces n
<p>SYNTAX
</p><div class="example">
<pre class="example">ncbo [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [-h] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [--no_tmp_fl]
@@ -12549,11 +12627,11 @@ 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="DOCF54" href="#FOOT54"><sup>54</sup></a>.
+<a name="DOCF55" href="#FOOT55"><sup>55</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="DOCF55" href="#FOOT55"><sup>55</sup></a>.
+<a name="DOCF56" href="#FOOT56"><sup>56</sup></a>.
<a name="index-globbing-4"></a>
<a name="index-shell-4"></a>
<a name="index-quotes-2"></a>
@@ -12598,12 +12676,12 @@ 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="DOCF56" href="#FOOT56"><sup>56</sup></a>.
+<a name="DOCF57" href="#FOOT57"><sup>57</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="DOCF57" href="#FOOT57"><sup>57</sup></a>.
+<a name="DOCF58" href="#FOOT58"><sup>58</sup></a>.
</p>
<p>It is important to maintain portability in <acronym>NCO</acronym> scripts.
Therefore we recommend that site-specfic invocations (e.g.,
@@ -12621,7 +12699,7 @@ 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="DOCF58" href="#FOOT58"><sup>58</sup></a>.
+necessary<a name="DOCF59" href="#FOOT59"><sup>59</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>.
@@ -12657,7 +12735,7 @@ 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="DOCF59" href="#FOOT59"><sup>59</sup></a>.
+<a name="DOCF60" href="#FOOT60"><sup>60</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.
@@ -12851,7 +12929,7 @@ Next: <a href="#ncecat-netCDF-Ensemble-Concatenator" accesskey="n" rel="next">nc
<p>SYNTAX
</p><div class="example">
<pre class="example">nces [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [-h] [--hdf] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-n <var>loop</var>] [--no_tmp_fl] [--nsm_fl|grp] [--nsm_sfx sfx]
@@ -12868,7 +12946,7 @@ 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="DOCF60" href="#FOOT60"><sup>60</sup></a>.
+Averager)<a name="DOCF61" href="#FOOT61"><sup>61</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.
@@ -12890,7 +12968,7 @@ 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="DOCF61" href="#FOOT61"><sup>61</sup></a>
+<a name="DOCF62" href="#FOOT62"><sup>62</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
@@ -13053,7 +13131,7 @@ Next: <a href="#ncflint-netCDF-File-Interpolator" accesskey="n" rel="next">ncfli
<p>SYNTAX
</p><div class="example">
<pre class="example">ncecat [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [--gag] [-h] [--hdf] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-M] [--md5_digest] [--mrd] [-n <var>loop</var>] [--no_tmp_fl]
@@ -13292,7 +13370,7 @@ Next: <a href="#ncks-netCDF-Kitchen-Sink" accesskey="n" rel="next">ncks netCDF K
<p>SYNTAX
</p><div class="example">
<pre class="example">ncflint [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]
[-F] [--fix_rec_crd] [-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [-h] [--hdr_pad <var>nbr</var>]
[-i <var>var</var>,<var>val3</var>] [-L <var>dfl_lvl</var>] [-l <var>path</var>] [--no_tmp_fl]
@@ -13507,13 +13585,13 @@ Next: <a href="#ncpdq-netCDF-Permute-Dimensions-Quickly" accesskey="n" rel="next
<p>SYNTAX
</p><div class="example">
<pre class="example">ncks [-3] [-4] [-5] [-6] [-7] [-A] [-a] [-b <var>binary-file</var>] [-C] [-c] [--cdl]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F] [--fix_rec_dmn <var>dim</var>]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [--grp_xtr_var_xcl] [-H] [-h] [--hdn] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-M] [-m] [--mk_rec_dmn <var>dim</var>] [--md5_digest]
[--no_blank] [--no_tmp_fl] [-O] [-o <var>output-file</var>] [-P] [-p <var>path</var>]
[-Q] [-q] [-R] [-r] [--rad] [--ram_all] [-s <var>format</var>]
-[-u] [--unn] [-v <var>var</var>[,…]] [-X ...] [-x] [--xml]
+[-u] [--unn] [-V] [-v <var>var</var>[,…]] [-X ...] [-x] [--xml]
<var>input-file</var> [[<var>output-file</var>]]
</pre></div>
@@ -13545,8 +13623,8 @@ including <acronym>CDL</acronym> and <acronym>NcML</acronym>.
</p>
<p>Options ‘<samp>-5</samp>’, ‘<samp>-a</samp>’, ‘<samp>--cdl</samp>’, ‘<samp>-F</samp>’ , ‘<samp>-H</samp>’,
‘<samp>--hdn</samp>’, ‘<samp>-M</samp>’, ‘<samp>-m</samp>’, ‘<samp>-P</samp>’, ‘<samp>-Q</samp>’, ‘<samp>-q</samp>’,
-‘<samp>-s</samp>’, ‘<samp>-u</samp>’, ‘<samp>--xml</samp>’ (and their long option counterparts)
-control the formatted appearance of the data.
+‘<samp>-s</samp>’, ‘<samp>-u</samp>’, ‘<samp>-V</samp>’, and ‘<samp>--xml</samp>’ (and their long option
+counterparts) control the formatted appearance of the data.
</p>
<a name="index-global-attributes-6"></a>
<a name="index-attributes_002c-global-6"></a>
@@ -13605,7 +13683,7 @@ 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="DOCF62" href="#FOOT62"><sup>62</sup></a>.
+<a name="DOCF63" href="#FOOT63"><sup>63</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
@@ -14618,7 +14696,7 @@ Next: <a href="#ncra-netCDF-Record-Averager" accesskey="n" rel="next">ncra netCD
<p>SYNTAX
</p><div class="example">
<pre class="example">ncpdq [-3] [-4] [-6] [-7] [-A] [-a [-]<var>dim</var>[,…]] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]
[-F] [-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [-h] [--hdf] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-M <var>pck_map</var>] [--mrd] [--no_tmp_fl]
@@ -14867,7 +14945,7 @@ 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="DOCF63" href="#FOOT63"><sup>63</sup></a>.
+<a name="DOCF64" href="#FOOT64"><sup>64</sup></a>.
</p>
<p>Two special cases of dimension re-ordering and reversal deserve special
mention.
@@ -14943,7 +15021,7 @@ ncl_convert2nc modis.hdf
ncpdq --hdf_upk -P xst_new modis.nc modis.nc
</pre></div>
<p><acronym>NCO</acronym> now
-<a name="DOCF64" href="#FOOT64"><sup>64</sup></a>
+<a name="DOCF65" href="#FOOT65"><sup>65</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.
@@ -14954,7 +15032,7 @@ 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="DOCF65" href="#FOOT65"><sup>65</sup></a>.
+<a name="DOCF66" href="#FOOT66"><sup>66</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
@@ -15110,7 +15188,7 @@ Next: <a href="#ncrcat-netCDF-Record-Concatenator" accesskey="n" rel="next">ncrc
<p>SYNTAX
</p><div class="example">
<pre class="example">ncra [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>][,[<var>subcycle</var>]]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [-h] [--hdf] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [--mro] [-n <var>loop</var>] [--no_tmp_fl]
@@ -15219,7 +15297,7 @@ Next: <a href="#ncrename-netCDF-Renamer" accesskey="n" rel="next">ncrename netCD
<p>SYNTAX
</p><div class="example">
<pre class="example">ncrcat [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>][,[<var>subcycle</var>]]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [-h] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [--md5_digest] [-n <var>loop</var>] [--no_tmp_fl]
@@ -15375,9 +15453,25 @@ indicates the presence of <var>old_name</var> is optional, and <var>old_name</va
is not present in <var>input-file</var>, then <code>ncrename</code> will abort.
The <var>new_name</var> should never be prefixed by a ‘<samp>.</samp>’ (or else the
period will be included as part of the new name).
+As of <acronym>NCO</acronym> version 4.4.6 (released October, 2014), the
+<var>old_name</var> and <var>new_name</var> arguments may include (or be, for
+groups) partial or full group paths.
The OPTIONS and EXAMPLES show how to select specific variables
whose attributes are to be renamed.
</p>
+<a name="bug_nc4_rename"></a> <!-- http://nco.sf.net/nco.html#bug_nc4_rename --><table class="cartouche" border="1"><tr><td>
+<p>Caveat lector: Unforunately from 2007–present (October, 2014) the
+netCDF library (versions 4.0.0–4.3.2) contained bugs or limitations
+that sometimes prevent <acronym>NCO</acronym> from correctly renaming coordinate
+variables, dimensions, and groups in netCDF4 files.
+(To our knowledge the netCDF library calls for renaming always work
+well on netCDF3 files so one workaround to some netCDF4 issues is
+convert to netCDF3, rename, then convert back).
+To understand the renaming limitations associated with particular
+netCDF versions, read the <code>ncrename</code> documentation below in
+its entirety.
+</p></td></tr></table>
+
<p>Although <code>ncrename</code> supports full pathnames for both
<var>old_name</var> and <var>new_name</var>, this is really “window dressing”.
The full-path to <var>new_name</var> must be identical to the full-path to
@@ -15399,8 +15493,8 @@ the user will be interactively prompted before an existing file is
changed, and that a temporary copy of an output file is constructed
during the operation.
If only <var>input-file</var> is specified, then <code>ncrename</code> changes
-the names of the <var>input-file</var> in place without prompting and without
-creating a temporary copy of <code>input-file</code>.
+object names in the <var>input-file</var> in place without prompting and
+without creating a temporary copy of <code>input-file</code>.
This is because the renaming operation is considered reversible if the
user makes a mistake.
The <var>new_name</var> can easily be changed back to <var>old_name</var> by using
@@ -15413,13 +15507,19 @@ 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.
</p>
-<a name="index-performance-6"></a>
-<a name="index-operator-speed-5"></a>
-<a name="index-speed-6"></a>
-<a name="index-execution-time-5"></a>
-<p>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>.
+<a name="index-performance-7"></a>
+<a name="index-operator-speed-6"></a>
+<a name="index-speed-7"></a>
+<a name="index-execution-time-6"></a>
+<p>According to the <cite>netCDF User Guide</cite>, renaming objects 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>.
+Thus <code>ncrename</code> may run much faster (at least on netCDF3 files)
+if judicious use of header padding (see <a href="#Metadata-Optimization">Metadata Optimization</a>) was
+made when producing the <var>input-file</var>.
+Similarly, using the ‘<samp>--hdr_pad</samp>’ option with <code>ncrename</code>
+helps ensure that future metadata changes to <var>output-file</var> occur
+as swifly as possible.
</p>
<p>OPTIONS
</p>
@@ -15442,11 +15542,12 @@ The ‘<samp>@</samp>’ symbol delimits the variable from the attribute
If the attribute is uniquely named (no other variables contain the
attribute) then the <var>old_var_name at old_att_name</var> syntax is
redundant.
-The <var>var_nm</var> <code>global</code> has special significance—it indicates
-that <var>att_nm</var> refers to a global or group attribute, and not to a
-variable named <code>global</code>.
-In other words, a <var>var_nm</var> of <code>global</code> is syntactically
-equivalent to a <var>var_nm</var> that is empty.
+The <var>old_var_name</var> variable names <code>global</code> and <code>group</code>
+have special significance.
+They indicate that <var>old_att_nm</var> should only be renamed where it
+occurs as a global (i.e., root group) metadata attribute (for
+<code>global</code>), or (for <code>group</code>) as <em>any</em> group attribute, and
+not where it occurs as a variable attribute.
The <var>var_name at att_name</var> syntax is accepted, though not required,
for the <var>new_name</var>.
</p>
@@ -15520,8 +15621,8 @@ the variable:
<pre class="example">ncrename -d lon,longitude -v lon,longitude in.nc
</pre></div>
<p>Unfortunately, the netCDF4 library had a longstanding bug (all versions
-until 4.3.1-rc5 released in December, 2013) that caused <acronym>NCO</acronym> to
-crash when performing this operation.
+until 4.3.1-rc5 released in December, 2013) that crashed <acronym>NCO</acronym>
+when performing this operation.
Simultaneously renaming variables and dimensions in netCDF4 files with
earlier versions of netCDF is impossible; it must instead be done in two
separate <code>ncrename</code> invocations (e.g., first rename the
@@ -15532,7 +15633,7 @@ bug.
also built with all versions of the netCDF4 library until 4.3.1-rc5
released in December, 2013):
This bug caused renaming <em>either</em> a dimension <em>or</em> its
-assosiated coordinate variable (not both, which would fail as above) in
+associated coordinate variable (not both, which would fail as above) in
a netCDF4 file to inadvertently rename both:
</p><div class="example">
<pre class="example"># Demonstate bug in netCDF4/HDF5 library prior to netCDF-4.3.1-rc5
@@ -15543,8 +15644,37 @@ ncrename -O -d lat_T42,lat ~/foo.nc ~/foo2.nc # Also renames variable
<p>To avoid this faulty behavior, either build <acronym>NCO</acronym> with netCDF
version 4.3.1-rc5 or later, or convert the file to netCDF3 first,
then rename as intended, then convert back.
+Unforunately while this bug and the related coordinate renaming bug
+were fixed in 4.3.1-rc5 (released in December, 2013), a new and related
+bug was discovered in October 2014.
+</p>
+<p>The final known netCDF bug that causes unintended side-effects with
+<code>ncrename</code> affects (at least) versions 4.3.1–4.3.2 of the
+netCDF4 library (and snapshots at least until October, 2014):
+This bug corrupts values or renamed netCDF4 coordinate variables
+(i.e., variables with underlying dimensions of the same name) and
+other (non-coordinate) variables that include an underlying dimension
+that was renamed.
+In other words, <em>renaming</em> coordinate variables and dimensions
+succeeds yet it corrupts the values contained by the affected array
+variables.
+This bug corrupts affected variables by replacing their values with the
+default <code>_FillValue</code> for that variable’s type:
+</p><div class="example">
+<pre class="example"># Demonstate bug in netCDF4/HDF5 library prior to netCDF-4.3.3
+ncks -O -4 -C -M -v lat ~/nco/data/in.nc ~/bug.nc
+ncrename -O -v lat,tal ~/bug.nc ~/foo.nc # Broken until netCDF-4.3.3
+ncrename -O -d lat,tal ~/bug.nc ~/foo.nc # Broken until netCDF-4.3.3
+ncrename -O -d lat,tal -v lat,tal ~/bug.nc ~/foo.nc # Broken too
+ncks --cdl ~/foo.nc
+</pre></div>
+<p>To avoid this faulty behavior, either build <acronym>NCO</acronym> with netCDF
+version 4.3.3 (TBD) or later, or convert the file to netCDF3 first, then
+rename as intended, then convert back.
+This bug does not affect renaming of groups or of attributes.
</p>
<a name="index-global-attributes-10"></a>
+<a name="index-group-attributes"></a>
<a name="index-attributes_002c-global-10"></a>
<a name="index-_005fFillValue-6"></a>
<a name="index-missing_005fvalue-2"></a>
@@ -15573,10 +15703,12 @@ The variable <code>prs_sfc</code> need not exist, and need not contain the
<p>Rename the global or group attribute <code>Convention</code> to
<code>Conventions</code>
</p><div class="example">
-<pre class="verbatim">ncrename -a Convention,Conventions in.nc # Variable and global atts.
-ncrename -a .Convention,Conventions in.nc # Variable and global atts.
-ncrename -a @Convention,Conventions in.nc # Global atts. only
-ncrename -a @.Convention,Conventions in.nc # Global atts. only
+<pre class="verbatim">ncrename -a Convention,Conventions in.nc # Variable and group atts.
+ncrename -a .Convention,Conventions in.nc # Variable and group atts.
+ncrename -a @Convention,Conventions in.nc # Group atts. only
+ncrename -a @.Convention,Conventions in.nc # Group atts. only
+ncrename -a global at Convention,Conventions in.nc # Group atts. only
+ncrename -a .global at .Convention,Conventions in.nc # Group atts. only
ncrename -a global at Convention,Conventions in.nc # Global atts. only
ncrename -a .global at .Convention,Conventions in.nc # Global atts. only
</pre></div>
@@ -15610,7 +15742,7 @@ Previous: <a href="#ncrename-netCDF-Renamer" accesskey="p" rel="previous">ncrena
<p>SYNTAX
</p><div class="example">
<pre class="example">ncwa [-3] [-4] [-6] [-7] [-A] [-a <var>dim</var>[,…]] [-B <var>mask_cond</var>] [-b] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,…]] [-h] [--hdr_pad <var>nbr</var>] [-I]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-M <var>mask_val</var>] [-m <var>mask_var</var>] [-N] [--no_tmp_fl]
@@ -15710,7 +15842,7 @@ 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="DOCF66" href="#FOOT66"><sup>66</sup></a>.
+<a name="DOCF67" href="#FOOT67"><sup>67</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
@@ -15718,7 +15850,7 @@ 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="DOCF67" href="#FOOT67"><sup>67</sup></a>.
+<a name="DOCF68" href="#FOOT68"><sup>68</sup></a>.
</p>
<a name="index-average-1"></a>
<a name="index-operation-types-2"></a>
@@ -15762,7 +15894,7 @@ 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="DOCF68" href="#FOOT68"><sup>68</sup></a>.
+<a name="DOCF69" href="#FOOT69"><sup>69</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>
@@ -15892,7 +16024,7 @@ 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="DOCF69" href="#FOOT69"><sup>69</sup></a>:
+<a name="DOCF70" href="#FOOT70"><sup>70</sup></a>:
</p><div class="example">
<pre class="example">ncwa -w gw -a lat in.nc out.nc
</pre></div>
@@ -15910,7 +16042,7 @@ 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="DOCF70" href="#FOOT70"><sup>70</sup></a>:
+<a name="DOCF71" href="#FOOT71"><sup>71</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
@@ -15918,7 +16050,7 @@ 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="DOCF71" href="#FOOT71"><sup>71</sup></a>.
+<a name="DOCF72" href="#FOOT72"><sup>72</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>
@@ -15985,7 +16117,7 @@ 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="DOCF72" href="#FOOT72"><sup>72</sup></a>.
+<a name="DOCF73" href="#FOOT73"><sup>73</sup></a>.
So you could be the third!
</p>
<a name="dvl"></a> <!-- http://nco.sf.net/nco.html#dvl -->
@@ -16721,15 +16853,13 @@ mv ${drc_out}${var[0]}_${rlm}_${mdl[0]}_${xpt[0]}_all-nsm_${tms}.${flt} \
# Remove temporary files
rm ${drc_out}sn?_${rlm}*.nc
-#!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
-# Coming soon!
-#- Group names:
+#- Rename Group:
# E.g., file snc_LImon_CESM1-CAM5_historical_r1i1p1_199001-200512.nc
-# will be group /historical/CESM1-CAM5/00
-#- You can rename groups on the last level to be more meaningful by
-#ncrename -g ${xpt}/${mdl}/02,${xpt}/${mdl}/r3i1p1 \
-# ${drc_out}${var}_${rlm}_${mdl}_all-nsm_${tms}.${flt}
-#!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
+# is now group /historical/CESM1-CAM5/CESM1-CAM5_00.
+# You can rename it to /historical/CESM1-CAM5/r1i1p1 to make more sense.
+# Note: You don't need to write the full path of the new name.
+ncrename -g ${xpt}/${mdl}/${mdl}_00,r1i1p1 \
+ ${drc_out}${var}_${rlm}_${mdl}_all-nsm_${tms}.${flt}
#------------------------------------------------------------
# Output file structure
@@ -16769,7 +16899,7 @@ rm ${drc_out}sn?_${rlm}*.nc
# }
# CESM1-CAM5
# {
-# CESM1-CAM5_00 { ... }
+# r1i1p1 { ... }
# CESM1-CAM5_01 { ... }
# CESM1-CAM5_02 { ... }
# }
@@ -18190,6 +18320,7 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-_002d_002dchunk_005fbyte"><code>--chunk_byte</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dchunk_005fdimension"><code>--chunk_dimension</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dchunk_005fmap"><code>--chunk_map</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-_002d_002dchunk_005fmin"><code>--chunk_min</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dchunk_005fpolicy"><code>--chunk_policy</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dchunk_005fscalar"><code>--chunk_scalar</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dcll_005fmth"><code>--cll_mth</code></a>:</td><td> </td><td valign="top"><a href="#CF-Conventions">CF Conventions</a></td></tr>
@@ -18197,6 +18328,7 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-_002d_002dcnk_005fdmn"><code>--cnk_dmn</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dcnk_005fmap"><code>--cnk_map</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dcnk_005fmap-cnk_005fmap"><code>--cnk_map <var>cnk_map</var></code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-_002d_002dcnk_005fmin"><code>--cnk_min</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dcnk_005fplc"><code>--cnk_plc</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dcnk_005fscl"><code>--cnk_scl</code></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-_002d_002dcoords"><code>--coords</code></a>:</td><td> </td><td valign="top"><a href="#Subsetting-Coordinate-Variables">Subsetting Coordinate Variables</a></td></tr>
@@ -18738,6 +18870,7 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-binary-operations-1">binary operations</a>:</td><td> </td><td valign="top"><a href="#ncbo-netCDF-Binary-Operator">ncbo netCDF Binary Operator</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-binary-Operators">binary Operators</a>:</td><td> </td><td valign="top"><a href="#Expressions">Expressions</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-blank">blank</a>:</td><td> </td><td valign="top"><a href="#ncks-netCDF-Kitchen-Sink">ncks netCDF Kitchen Sink</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-blocksize">blocksize</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-bounds"><code>bounds</code></a>:</td><td> </td><td valign="top"><a href="#CF-Conventions">CF Conventions</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-bounds-convention">bounds convention</a>:</td><td> </td><td valign="top"><a href="#CF-Conventions">CF Conventions</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Bourne-Shell">Bourne Shell</a>:</td><td> </td><td valign="top"><a href="#Stride">Stride</a></td></tr>
@@ -18835,9 +18968,11 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-cnk_005fg3d">‘<samp>cnk_g3d</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-cnk_005flfp">‘<samp>cnk_lfp</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-cnk_005fmap"><var>cnk_map</var></a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-cnk_005fnc4">‘<samp>cnk_nc4</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-cnk_005fprd">‘<samp>cnk_prd</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-cnk_005fr1d">‘<samp>cnk_r1d</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-cnk_005frd1">‘<samp>cnk_rd1</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-cnk_005frew">‘<samp>cnk_rew</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-cnk_005fscl">‘<samp>cnk_scl</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-cnk_005fxpl">‘<samp>cnk_xpl</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-cnk_005fxst">‘<samp>cnk_xst</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
@@ -18997,7 +19132,8 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-execution-time-2">execution time</a>:</td><td> </td><td valign="top"><a href="#Performance">Performance</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-execution-time-3">execution time</a>:</td><td> </td><td valign="top"><a href="#Metadata-Optimization">Metadata Optimization</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-execution-time-4">execution time</a>:</td><td> </td><td valign="top"><a href="#Missing-Values">Missing Values</a></td></tr>
-<tr><td></td><td valign="top"><a href="#index-execution-time-5">execution time</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-execution-time-5">execution time</a>:</td><td> </td><td valign="top"><a href="#ncatted-netCDF-Attribute-Editor">ncatted netCDF Attribute Editor</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-execution-time-6">execution time</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-exp"><var>exp</var></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-exponent">exponent</a>:</td><td> </td><td valign="top"><a href="#Promoting-Single_002dprecision-to-Double">Promoting Single-precision to Double</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-exponentiation">exponentiation</a>:</td><td> </td><td valign="top"><a href="#Intrinsic-mathematical-methods">Intrinsic mathematical methods</a></td></tr>
@@ -19117,6 +19253,7 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-grep-_002dE"><code>grep -E</code></a>:</td><td> </td><td valign="top"><a href="#Subsetting-Files">Subsetting Files</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-group-aggregation">group aggregation</a>:</td><td> </td><td valign="top"><a href="#ncecat-netCDF-Ensemble-Concatenator">ncecat netCDF Ensemble Concatenator</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-group-aggregation-1">group aggregation</a>:</td><td> </td><td valign="top"><a href="#Combine-Files">Combine Files</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-group-attributes">group attributes</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-group-names">group names</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-group-path">group path</a>:</td><td> </td><td valign="top"><a href="#Group-Path-Editing">Group Path Editing</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-group_002c-aggregation">group, aggregation</a>:</td><td> </td><td valign="top"><a href="#Annual-Average-over-Regions">Annual Average over Regions</a></td></tr>
@@ -19310,8 +19447,10 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-manual-type-conversion">manual type conversion</a>:</td><td> </td><td valign="top"><a href="#Type-Conversion">Type Conversion</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-map_005fdmn">‘<samp>map_dmn</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-map_005flfp">‘<samp>map_lfp</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-map_005fnc4">‘<samp>map_nc4</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-map_005fprd">‘<samp>map_prd</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-map_005frd1">‘<samp>map_rd1</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-map_005frew">‘<samp>map_rew</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-map_005fscl">‘<samp>map_scl</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-map_005fxst">‘<samp>map_xst</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Mark-Flanner">Mark Flanner</a>:</td><td> </td><td valign="top"><a href="#Contributors">Contributors</a></td></tr>
@@ -19411,6 +19550,7 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-NASA"><acronym>NASA</acronym></a>:</td><td> </td><td valign="top"><a href="#Proposals-for-Institutional-Funding">Proposals for Institutional Funding</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-NASA-EOSDIS"><acronym>NASA EOSDIS</acronym></a>:</td><td> </td><td valign="top"><a href="#Large-Numbers-of-Files">Large Numbers of Files</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-National-Virtual-Ocean-Data-System">National Virtual Ocean Data System</a>:</td><td> </td><td valign="top"><a href="#OPeNDAP">OPeNDAP</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-nc4">‘<samp>nc4</samp>’</a>:</td><td> </td><td valign="top"><a href="#Chunking">Chunking</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-ncadd"><code>ncadd</code></a>:</td><td> </td><td valign="top"><a href="#ncbo-netCDF-Binary-Operator">ncbo netCDF Binary Operator</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-ncap"><code>ncap</code></a>:</td><td> </td><td valign="top"><a href="#ncap2-netCDF-Arithmetic-Processor">ncap2 netCDF Arithmetic Processor</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-ncap2-4"><code>ncap2</code></a>:</td><td> </td><td valign="top"><a href="#Compatability">Compatability</a></td></tr>
@@ -19602,7 +19742,8 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-operator-speed-2">operator speed</a>:</td><td> </td><td valign="top"><a href="#Performance">Performance</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-operator-speed-3">operator speed</a>:</td><td> </td><td valign="top"><a href="#Metadata-Optimization">Metadata Optimization</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-operator-speed-4">operator speed</a>:</td><td> </td><td valign="top"><a href="#Missing-Values">Missing Values</a></td></tr>
-<tr><td></td><td valign="top"><a href="#index-operator-speed-5">operator speed</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-operator-speed-5">operator speed</a>:</td><td> </td><td valign="top"><a href="#ncatted-netCDF-Attribute-Editor">ncatted netCDF Attribute Editor</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-operator-speed-6">operator speed</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-operators">operators</a>:</td><td> </td><td valign="top"><a href="#Summary">Summary</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-OptIPuter">OptIPuter</a>:</td><td> </td><td valign="top"><a href="#Proposals-for-Institutional-Funding">Proposals for Institutional Funding</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Orion-Powlawski">Orion Powlawski</a>:</td><td> </td><td valign="top"><a href="#Contributors">Contributors</a></td></tr>
@@ -19658,7 +19799,8 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-performance-3">performance</a>:</td><td> </td><td valign="top"><a href="#Performance">Performance</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-performance-4">performance</a>:</td><td> </td><td valign="top"><a href="#Metadata-Optimization">Metadata Optimization</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-performance-5">performance</a>:</td><td> </td><td valign="top"><a href="#Missing-Values">Missing Values</a></td></tr>
-<tr><td></td><td valign="top"><a href="#index-performance-6">performance</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-performance-6">performance</a>:</td><td> </td><td valign="top"><a href="#ncatted-netCDF-Attribute-Editor">ncatted netCDF Attribute Editor</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-performance-7">performance</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Perl">Perl</a>:</td><td> </td><td valign="top"><a href="#Philosophy">Philosophy</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Perl-1">Perl</a>:</td><td> </td><td valign="top"><a href="#Large-Numbers-of-Files">Large Numbers of Files</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-Perl-2">Perl</a>:</td><td> </td><td valign="top"><a href="#ncatted-netCDF-Attribute-Editor">ncatted netCDF Attribute Editor</a></td></tr>
@@ -19874,7 +20016,8 @@ Previous: <a href="#mybibnode" accesskey="p" rel="previous">mybibnode</a>, Up: <
<tr><td></td><td valign="top"><a href="#index-speed-3">speed</a>:</td><td> </td><td valign="top"><a href="#Performance">Performance</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-speed-4">speed</a>:</td><td> </td><td valign="top"><a href="#Metadata-Optimization">Metadata Optimization</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-speed-5">speed</a>:</td><td> </td><td valign="top"><a href="#Missing-Values">Missing Values</a></td></tr>
-<tr><td></td><td valign="top"><a href="#index-speed-6">speed</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-speed-6">speed</a>:</td><td> </td><td valign="top"><a href="#ncatted-netCDF-Attribute-Editor">ncatted netCDF Attribute Editor</a></td></tr>
+<tr><td></td><td valign="top"><a href="#index-speed-7">speed</a>:</td><td> </td><td valign="top"><a href="#ncrename-netCDF-Renamer">ncrename netCDF Renamer</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-sqravg"><code>sqravg</code></a>:</td><td> </td><td valign="top"><a href="#Operation-Types">Operation Types</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-sqravg_0028_0029">sqravg()</a>:</td><td> </td><td valign="top"><a href="#Methods-and-functions">Methods and functions</a></td></tr>
<tr><td></td><td valign="top"><a href="#index-sqrt"><code>sqrt</code></a>:</td><td> </td><td valign="top"><a href="#Operation-Types">Operation Types</a></td></tr>
@@ -20394,7 +20537,9 @@ files include great features of both netCDF3 (compatibility) and
netCDF4 (compression, chunking) and, well, <em>3+4=7</em>.</p>
<h3><a name="FOOT29" href="#DOCF29">(29)</a></h3>
<p>The switches ‘<samp>-5</samp>’, ‘<samp>--5</samp>’, and ‘<samp>pnetcdf</samp>’ are
-reserved for PnetCDF files, i.e., <code>NC_FORMAT_PNETCDF</code>.</p>
+reserved for PnetCDF files, i.e., <code>NC_FORMAT_PNETCDF</code>.
+Such files are similar to netCDF3 classic files, yet also support
+64-bit offsets and the additional netCDF4 atomic types.</p>
<h3><a name="FOOT30" href="#DOCF30">(30)</a></h3>
<p>Linux and <acronym>AIX</acronym> do support <acronym>LFS</acronym>.</p>
<h3><a name="FOOT31" href="#DOCF31">(31)</a></h3>
@@ -20427,26 +20572,32 @@ uses <var>att_type</var> = <code>NC_CHAR</code> and <var>_FillValue</var> =
‘<samp>-99999.</samp>’.
</p>
<h3><a name="FOOT37" href="#DOCF37">(37)</a></h3>
+<p>This behavior became the default in November 2014 with
+<acronym>NCO</acronym> version 4.4.7.
+Prior versions would always use netCDF default chunking in the output
+file when no <acronym>NCO</acronym> chunking switches were activated, regardless
+of the chunking in the input file.</p>
+<h3><a name="FOOT38" href="#DOCF38">(38)</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="FOOT38" href="#DOCF38">(38)</a></h3>
+<h3><a name="FOOT39" href="#DOCF39">(39)</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="FOOT39" href="#DOCF39">(39)</a></h3>
+<h3><a name="FOOT40" href="#DOCF40">(40)</a></h3>
<p><em>32767 = 2^15-1</em>
</p>
-<h3><a name="FOOT40" href="#DOCF40">(40)</a></h3>
+<h3><a name="FOOT41" href="#DOCF41">(41)</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="FOOT41" href="#DOCF41">(41)</a></h3>
+<h3><a name="FOOT42" href="#DOCF42">(42)</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="FOOT42" href="#DOCF42">(42)</a></h3>
+<h3><a name="FOOT43" href="#DOCF43">(43)</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 <acronym>IEEE</acronym> 754 single-precision and then converted back to the
@@ -20454,7 +20605,7 @@ same number of significant decimal, then the final string should match
the original; and if an <acronym>IEEE</acronym> 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="FOOT43" href="#DOCF43">(43)</a></h3>
+<h3><a name="FOOT44" href="#DOCF44">(44)</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 <acronym>IEEE</acronym> 754 double-precision representation and then converted
@@ -20463,7 +20614,7 @@ final string should match the original; and if an <acronym>IEEE</acronym> 754 do
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="FOOT44" href="#DOCF44">(44)</a></h3>
+<h3><a name="FOOT45" href="#DOCF45">(45)</a></h3>
<p>See page 21<!-- /@w --> in Section 1.2 of the First edition for this
gem:
</p><blockquote>
@@ -20472,19 +20623,19 @@ 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="FOOT45" href="#DOCF45">(45)</a></h3>
+<h3><a name="FOOT46" href="#DOCF46">(46)</a></h3>
<p>For example, the <acronym>CMIP5</acronym> archive tends to distribute
monthly average timeseries in 50-year chunks.</p>
-<h3><a name="FOOT46" href="#DOCF46">(46)</a></h3>
+<h3><a name="FOOT47" href="#DOCF47">(47)</a></h3>
<a name="index-Michael-Prather"></a>
<p>Thanks to Michael J.<!-- /@w --> Prather for explaining this to me.</p>
-<h3><a name="FOOT47" href="#DOCF47">(47)</a></h3>
+<h3><a name="FOOT48" href="#DOCF48">(48)</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="FOOT48" href="#DOCF48">(48)</a></h3>
+<h3><a name="FOOT49" href="#DOCF49">(49)</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
@@ -20499,21 +20650,21 @@ 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="FOOT49" href="#DOCF49">(49)</a></h3>
+<h3><a name="FOOT50" href="#DOCF50">(50)</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="FOOT50" href="#DOCF50">(50)</a></h3>
+<h3><a name="FOOT51" href="#DOCF51">(51)</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="FOOT51" href="#DOCF51">(51)</a></h3>
+<h3><a name="FOOT52" href="#DOCF52">(52)</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>
@@ -20530,22 +20681,22 @@ 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="FOOT52" href="#DOCF52">(52)</a></h3>
+<h3><a name="FOOT53" href="#DOCF53">(53)</a></h3>
<p>Linux supports more of these intrinsic functions than
other OSs.</p>
-<h3><a name="FOOT53" href="#DOCF53">(53)</a></h3>
+<h3><a name="FOOT54" href="#DOCF54">(54)</a></h3>
<p>Arithmetic comparisons to NaN and NaN-like numbers always
return False, contrary to the behavior of all other numbers.
This is difficult to inuit, yet is the behavior defined for NaN by
<acronym>IEEE</acronym> 754.
Using NaN for the missing value in datasets is legal.
We strongly discourage it.</p>
-<h3><a name="FOOT54" href="#DOCF54">(54)</a></h3>
+<h3><a name="FOOT55" href="#DOCF55">(55)</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="FOOT55" href="#DOCF55">(55)</a></h3>
+<h3><a name="FOOT56" href="#DOCF56">(56)</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
@@ -20553,30 +20704,30 @@ 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="FOOT56" href="#DOCF56">(56)</a></h3>
-<p>The command to do this is ‘<samp>ln -s -f ncbo ncadd</samp>’</p>
<h3><a name="FOOT57" href="#DOCF57">(57)</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="FOOT58" href="#DOCF58">(58)</a></h3>
+<p>The command to do this is ‘<samp>alias ncadd='ncbo --op_typ=add'</samp>’</p>
+<h3><a name="FOOT59" href="#DOCF59">(59)</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="FOOT59" href="#DOCF59">(59)</a></h3>
+<h3><a name="FOOT60" href="#DOCF60">(60)</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="FOOT60" href="#DOCF60">(60)</a></h3>
+<h3><a name="FOOT61" href="#DOCF61">(61)</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="FOOT61" href="#DOCF61">(61)</a></h3>
+<h3><a name="FOOT62" href="#DOCF62">(62)</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.
@@ -20586,7 +20737,7 @@ 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="FOOT62" href="#DOCF62">(62)</a></h3>
+<h3><a name="FOOT63" href="#DOCF63">(63)</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>,
@@ -20594,10 +20745,10 @@ 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="FOOT63" href="#DOCF63">(63)</a></h3>
+<h3><a name="FOOT64" href="#DOCF64">(64)</a></h3>
<p>This limitation, imposed by the netCDF storage layer,
may be relaxed in the future with netCDF4.</p>
-<h3><a name="FOOT64" href="#DOCF64">(64)</a></h3>
+<h3><a name="FOOT65" href="#DOCF65">(65)</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.
@@ -20609,38 +20760,38 @@ 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="FOOT65" href="#DOCF65">(65)</a></h3>
+<h3><a name="FOOT66" href="#DOCF66">(66)</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="FOOT66" href="#DOCF66">(66)</a></h3>
+<h3><a name="FOOT67" href="#DOCF67">(67)</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="FOOT67" href="#DOCF67">(67)</a></h3>
+<h3><a name="FOOT68" href="#DOCF68">(68)</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="FOOT68" href="#DOCF68">(68)</a></h3>
+<h3><a name="FOOT69" href="#DOCF69">(69)</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="FOOT69" href="#DOCF69">(69)</a></h3>
+<h3><a name="FOOT70" href="#DOCF70">(70)</a></h3>
<p><code>gw</code> stands for <em>Gaussian weight</em> in many
climate models.</p>
-<h3><a name="FOOT70" href="#DOCF70">(70)</a></h3>
+<h3><a name="FOOT71" href="#DOCF71">(71)</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="FOOT71" href="#DOCF71">(71)</a></h3>
+<h3><a name="FOOT72" href="#DOCF72">(72)</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="FOOT72" href="#DOCF72">(72)</a></h3>
+<h3><a name="FOOT73" href="#DOCF73">(73)</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 dce101b..517408d 100644
Binary files a/doc/nco.pdf and b/doc/nco.pdf differ
diff --git a/doc/nco.ps b/doc/nco.ps
index bc616a5..37b1286 100644
--- a/doc/nco.ps
+++ b/doc/nco.ps
@@ -1,7 +1,7 @@
%!PS-Adobe-2.0
%%Creator: dvips(k) 5.993 Copyright 2013 Radical Eye Software
%%Title: nco.dvi
-%%CreationDate: Wed Oct 1 09:05:43 2014
+%%CreationDate: Wed Nov 26 13:06:25 2014
%%Pages: 274
%%PageOrder: Ascend
%%BoundingBox: 0 0 596 842
@@ -13,7 +13,7 @@
%DVIPSWebPage: (www.radicaleye.com)
%DVIPSCommandLine: dvips -o nco.ps nco.dvi
%DVIPSParameters: dpi=600
-%DVIPSSource: TeX output 2014.10.01:0905
+%DVIPSSource: TeX output 2014.11.26:1306
%%BeginProcSet: tex.pro 0 0
%!
/TeXDict 300 dict def TeXDict begin/N{def}def/B{bind def}N/S{exch}N/X{S
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dup 50 /two put
dup 51 /three put
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dup 58 /colon put
dup 61 /equal put
dup 63 /question put
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%%Page: 34 40
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eop end
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%%Page: 158 164
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b Fa(:)h(:)h(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)
g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)38 b Fs(226)2025
-473 y(v)l(ariance)14 b Fa(:)f(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g
+683 y(v)l(ariance)14 b Fa(:)f(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g
(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)
g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)41 b Fs(84)2025
-560 y(v)n(ersion)15 b Fa(:)e(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)
+771 y(v)n(ersion)15 b Fa(:)e(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)
f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g
-(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)42 b Fs(101)2025
-648 y(Vista)26 b(\(Microsoft)i(op)r(erating)e(system\))9
+(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)42 b Fs(102)2025
+859 y(Vista)26 b(\(Microsoft)i(op)r(erating)e(system\))9
b Fa(:)k(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)36
-b Fs(7)2025 901 y FB(W)2025 1017 y Fs(W)-6 b(eather)25
+b Fs(7)2025 1119 y FB(W)2025 1238 y Fs(W)-6 b(eather)25
b(and)g(Researc)n(h)h(F)-6 b(orecast)27 b(\()p Fp(WRF)p
-Fs(\))f(Mo)r(del)2200 1104 y Fa(:)13 b(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g
+Fs(\))f(Mo)r(del)2200 1325 y Fa(:)13 b(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g
(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)
f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)49
-b Fs(123)2025 1191 y(w)n(eigh)n(ted)26 b(a)n(v)n(erage)d
+b Fs(123)2025 1413 y(w)n(eigh)n(ted)26 b(a)n(v)n(erage)d
Fa(:)13 b(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g
(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)50 b Fs(206,)27 b(233)2025
-1279 y(W)-6 b(enshan)25 b(W)-6 b(ang)9 b Fa(:)k(:)g(:)g(:)g(:)g(:)g(:)g
+1502 y(W)-6 b(enshan)25 b(W)-6 b(ang)9 b Fa(:)k(:)g(:)g(:)g(:)g(:)g(:)g
(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)
-f(:)g(:)g(:)g(:)g(:)g(:)36 b Fs(213)2025 1366 y Fr(wget)23
+f(:)g(:)g(:)g(:)g(:)g(:)36 b Fs(213)2025 1590 y Fr(wget)23
b Fa(:)13 b(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g
(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)
-g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)49 b Fs(30)2025 1453
+g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)49 b Fs(30)2025 1679
y(where\(\))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(:)f(:)g(:)g(:)g(:)g(:)g(:)
-h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)49 b Fs(122)2025 1540
+h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)49 b Fs(122)2025 1767
y(while\(\))15 b Fa(:)f(:)f(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g
(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)
-g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)42 b Fs(124)2025 1627
+g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)42 b Fs(124)2025 1856
y(whitespace)22 b Fa(:)14 b(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g
(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)
-g(:)g(:)h(:)f(:)g(:)g(:)48 b Fs(67)2025 1714 y(wildcards)9
+g(:)g(:)h(:)f(:)g(:)g(:)48 b Fs(67)2025 1944 y(wildcards)9
b Fa(:)14 b(:)f(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g
(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)35 b Fs(28,)27 b(43,)g(156,)g(160)
-2025 1802 y Fr(WIN32)c Fa(:)13 b(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)
+2025 2032 y Fr(WIN32)c Fa(:)13 b(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)
g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g
(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)49
-b Fs(8)2025 1889 y(Windo)n(ws)9 b Fa(:)k(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)
+b Fs(8)2025 2121 y(Windo)n(ws)9 b Fa(:)k(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)
g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g
(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)35 b Fs(6,)27
-b(7)2025 1976 y(wrapp)r(ed)f(co)r(ordinates)6 b Fa(:)15
+b(7)2025 2209 y(wrapp)r(ed)f(co)r(ordinates)6 b Fa(:)15
b(:)e(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)33
-b Fs(56,)27 b(63,)g(130,)g(189)2025 2063 y(wrapp)r(ed)f(\014lenames)12
+b Fs(56,)27 b(63,)g(130,)g(189)2025 2298 y(wrapp)r(ed)f(\014lenames)12
b Fa(:)h(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)
g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)38 b
-Fs(29)2025 2150 y Fp(WRF)13 b Fa(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)
+Fs(29)2025 2386 y Fp(WRF)13 b Fa(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)
g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g
(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)40
-b Fs(131)2025 2237 y Fp(WRF)26 b Fs(\(W)-6 b(eather)25
+b Fs(131)2025 2474 y Fp(WRF)26 b Fs(\(W)-6 b(eather)25
b(and)g(Researc)n(h)h(F)-6 b(orecast)27 b(Mo)r(del\))2200
-2325 y Fa(:)13 b(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)
+2562 y Fa(:)13 b(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)
g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g
-(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)49 b Fs(123)2025 2412
+(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)49 b Fs(123)2025 2650
y Fp(WWW)27 b Fs(do)r(cumen)n(tation)22 b Fa(:)13 b(:)g(:)g(:)g(:)g(:)h
(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)
-g(:)g(:)49 b Fs(5)2025 2645 y FB(X)2025 2761 y Fr(xargs)9
+g(:)g(:)49 b Fs(5)2025 2889 y FB(X)2025 3008 y Fr(xargs)9
b Fa(:)14 b(:)f(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g
(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)
-g(:)g(:)h(:)f(:)35 b Fs(20,)27 b(30)2025 2848 y Fr(xlc)10
+g(:)g(:)h(:)f(:)35 b Fs(20,)27 b(30)2025 3096 y Fr(xlc)10
b Fa(:)j(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)
h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f
(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)37 b Fs(6)2025
-2935 y Fr(xlC)10 b Fa(:)j(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g
+3185 y Fr(xlC)10 b Fa(:)j(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g
(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)
g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)37
-b Fs(6)2025 3022 y Fp(XML)17 b Fa(:)c(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g
+b Fs(6)2025 3273 y Fp(XML)17 b Fa(:)c(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g
(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)
h(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)45
-b Fs(182)2025 3109 y Fp(XP)25 b Fs(\(Microsoft)j(op)r(erating)f
+b Fs(183)2025 3361 y Fp(XP)25 b Fs(\(Microsoft)j(op)r(erating)f
(system\))13 b Fa(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g
-(:)h(:)f(:)40 b Fs(7)2025 3196 y(`)p Fr(xpl)p Fs(')22
+(:)h(:)f(:)40 b Fs(7)2025 3450 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(:)f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)
-g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)47 b Fs(73)2025 3284
+g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)47 b Fs(73)2025 3538
y(`)p Fr(xst)p Fs(')10 b Fa(:)k(:)f(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g
(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)
f(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)36 b Fs(73,)27
-b(74)2025 3533 y FB(Y)2025 3649 y Fs(Y)-6 b(oric)n(k)17
+b(75)2025 3794 y FB(Y)2025 3912 y Fs(Y)-6 b(oric)n(k)17
b Fa(:)c(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)f(:)
g(:)g(:)g(:)g(:)g(:)h(:)f(:)g(:)g(:)g(:)g(:)g(:)g(:)h(:)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 0ad30b4..d11b6be 100644
--- a/doc/nco.texi
+++ b/doc/nco.texi
@@ -7,7 +7,7 @@
@ignore
-$Header: /cvsroot/nco/nco/doc/nco.texi,v 1.1032 2014/10/01 16:05:12 zender Exp $
+$Header: /cvsroot/nco/nco/doc/nco.texi,v 1.1049 2014/11/26 21:11:28 zender Exp $
Purpose: TeXInfo documentation for netCDF Operators (NCO)
@@ -114,12 +114,12 @@ Octave TeXInfo manual shows clean TeXInfo structure
@setfilename nco.info
@c Define edition, date, ...
- at set nco-edition 4.4.6
- at set doc-edition 4.4.6
+ at set nco-edition 4.4.7
+ at set doc-edition 4.4.7
@set copyright-years 1995--2014
@set update-year 2014
- at set update-date 1 October 2014
- at set update-month October 2014
+ at set update-date 26 November 2014
+ at set update-month November 2014
@settitle @acronym{NCO} @value{nco-edition} User Guide
@@ -1438,7 +1438,7 @@ If you want us to include a new feature in @acronym{NCO}, check first to
see if that feature is already on the @uref{file:./TODO,TODO} list.
If it is, why not implement that feature yourself and send us the patch?
If the feature is not yet on the list, then send a note to the
- at uref{http://sf.net/projects/nco/forums/forum/9829, NCO Discussion forum}.
+ at uref{http://sf.net/p/nco/discussion/9829, NCO Discussion forum}.
Read the manual before reporting a bug or posting a help request.
Sending questions whose answers are not in the manual is the best
@@ -1460,7 +1460,7 @@ That is, describe what you are trying to do, and include the complete
commands (run with @samp{-D 5}), error messages, and version of
@acronym{NCO} (with @samp{-r}).
Post your help request to the
- at uref{http://sf.net/projects/nco/forums/forum/9830, NCO Help forum}.
+ at uref{http://sf.net/p/nco/discussion/9830, NCO Help forum}.
If you think you used the right command when @acronym{NCO} misbehaves,
then you might have found a bug.
@@ -2589,6 +2589,9 @@ penalty of copying the entire output file unless the expansion exceeds
the amount of header padding exceeded.
This can be beneficial when it is known that some metadata will be added
at a future date.
+The operators which benefit most from judicious use of header padding
+are @command{ncatted} and @command{ncrename}, since they only alter
+metadata.
This optimization exploits the netCDF library @code{nc__enddef()}
function, which behaves differently with different versions of netCDF.
@@ -3754,7 +3757,9 @@ netCDF3 (classic and 64bit), netCDF4 (classic and extended), HDF4, HDF5,
HDF-EOS (version 2 or 5), and DAP.
The switch determines the output format written in the comment:
@footnote{The switches @samp{-5}, @samp{--5}, and @samp{pnetcdf} are
-reserved for PnetCDF files, i.e., @code{NC_FORMAT_PNETCDF}.}
+reserved for PnetCDF files, i.e., @code{NC_FORMAT_PNETCDF}.
+Such files are similar to netCDF3 classic files, yet also support
+64-bit offsets and the additional netCDF4 atomic types.}
@example
ncks --fl_fmt=classic in.nc foo_3c.nc # netCDF3 classic
ncks --fl_fmt=64bit in.nc foo_364.nc # netCDF3 64bit
@@ -5025,36 +5030,38 @@ the last @var{N} elements of a hyperslab.
Negative integers as @var{min} or @var{max} elements of a hyperslab
specification indicate offsets from the end (Python also uses this
convention).
-Consistent with this convention, the value @samp{-0} (negative zero)
-indicates the last element of a dimension, even though negative zero
-is algebraically equivalent to zero.
+Consistent with this convention, the value @samp{-1} (negative one)
+indicates the last element of a dimension, and negative zero is
+algebraically equivalent to zero and so indicates the first element of a
+dimension.
Previously, for example, @samp{-d time,-2,-1} caused a domain error.
-Now it means select the second-to-last and penultimate timesteps.
-Whereas @samp{-d time,0} and @samp{-d time,-0} refer to the first and
-last timesteps, respectively.
+Now it means select the penultimate and last timesteps, independent of
+the size of the @code{time} dimension.
+Select only the first and last timesteps, respectively, with
+ at samp{-d time,0} and @samp{-d time,-1}.
Negative integers work for @var{min} and @var{max} indices, though not
for @var{stride}.
@example
-# Second through second-to-last longitudes
+# Second through penultimate longitudes
ncks -d lon,1,-2 in.nc out.nc
# Second through last longitude
-ncks -d lon,1,-0 in.nc out.nc
-# Third-to-last to penultimate longitude
+ncks -d lon,1,-1 in.nc out.nc
+# Second-to-last to last longitude
ncks -d lon,-3,-1 in.nc out.nc
-# Third-to-last to last longitude
+# Second-to-last to last longitude
ncks -d lon,-3, in.nc out.nc
@end example
@noindent
The @samp{-F} argument, if any, applies the Fortran index convention
-only to indices specified as positive integers (including zero).
+only to indices specified as positive integers:
@example
-# First through second-to-last longitudes
+# First through penultimate longitudes
ncks -F -d lon,1,-2 in.nc out.nc (-F affects only start index)
# First through last longitude
-ncks -F -d lon,1,-0 in.nc out.nc
-# Third-to-last to penultimate longitude (-F has no effect)
+ncks -F -d lon,1,-1 in.nc out.nc
+# Second-to-last to penultimate longitude (-F has no effect)
ncks -F -d lon,-3,-1 in.nc out.nc
-# Third-to-last to last longitude (-F has no effect)
+# Second-to-last to last longitude (-F has no effect)
ncks -F -d lon,-3, in.nc out.nc
@end example
@@ -6349,11 +6356,13 @@ important information from being lost.
@cindex @code{--cnk_byt}
@cindex @code{--cnk_dmn}
@cindex @code{--cnk_map}
+ at cindex @code{--cnk_min}
@cindex @code{--cnk_plc}
@cindex @code{--cnk_scl}
@cindex @code{--chunk_byte}
@cindex @code{--chunk_dimension}
@cindex @code{--chunk_map}
+ at cindex @code{--chunk_min}
@cindex @code{--chunk_policy}
@cindex @code{--chunk_scalar}
@cindex chunking
@@ -6367,6 +6376,7 @@ Long options:
@samp{--cnk_dmn @var{dmn_nm}, at var{cnk_sz}},
@samp{--chunk_dimension @var{dmn_nm}, at var{cnk_sz}}@*,
@samp{--cnk_map @var{cnk_map}}, @samp{--chunk_map @var{cnk_map}},@*
+ at samp{--cnk_min @var{var_sz}}, @samp{--chunk_min @var{var_sz}},@*
@samp{--cnk_plc @var{cnk_plc}}, @samp{--chunk_policy @var{cnk_plc}},@*
@samp{--cnk_scl @var{cnk_sz}}, @samp{--chunk_scalar @var{cnk_sz}}@*
@end cartouche
@@ -6375,34 +6385,61 @@ All netCDF4-enabled @acronym{NCO} operators that define variables
support a plethora of chunksize options.
Chunking can significantly accelerate or degrade read/write access
to large datasets.
-Dataset chunking issues are described in detail
+Dataset chunking issues are described by @acronym{THG} and Unidata
@uref{http://www.hdfgroup.org/HDF5/doc/H5.user/Chunking.html,here},
@uref{http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_why_it_matters,here},
and
@uref{http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_choosing_shapes,here}.
+ at acronym{NCO} authors are working on generalized algorithms and
+applications of chunking strategies (stay tuned for more in 2015).
@cindex chunking policy
@cindex chunking map
@cindex chunksize
+ at cindex blocksize
The @acronym{NCO} chunking implementation is designed to be flexible.
-Users control three aspects of the chunking implementation.
-These are known as the @dfn{chunking policy}, @dfn{chunking map},
-and @dfn{chunksize}.
-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.
+Users control four aspects of the chunking implementation.
+These are the @dfn{chunking policy}, @dfn{chunking map},
+ at dfn{chunksize}, and @dfn{minimum chunksize}.
+The chunking policy determines @emph{which} variables to chunk, and
+the chunking map determines how (with what exact sizes) to chunk
+those variables.
+These are high-level mechanisms that apply to an entire file and all
+variables and dimensions.
+The chunksize option allows per-dimension specification of sizes that
+will override the selected (or default) chunking map.
+
+The @var{var_sz} parameter is the minimum size in bytes (not elements)
+of variables to chunk.
+This threshold is intended to restrict use of chunking to variables
+for which it is efficient.
+By default this minimum variable size for chunking is twice the system
+blocksize (when available) and is @w{8192 bytes} otherwise.
+Users may set this to any value with the @samp{--cnk_min} switch.
+
@cindex hyperslab
@findex ncpdq
@cindex packing
-The implementation is a hybrid of the @command{ncpdq} packing policies
-(@pxref{ncpdq netCDF Permute Dimensions Quickly}), and the hyperslab
-specifications (@pxref{Hyperslabs}).
-Each aspect is intended to have a sensible default, so that most users
-will only need to set one switch to obtain sensible chunking.
-Power users can tune the three switches in tandem to obtain optimal
-performance.
-
-The user specifies the desired chunking policy with the @samp{-P} switch
+The chunking implementation is similar to a hybrid of the
+ at command{ncpdq} packing policies
+(@pxref{ncpdq netCDF Permute Dimensions Quickly}) and hyperslab
+specifications (@pxref{Hyperslabs}).
+Each aspect is intended to have a sensible default, so that many users
+only need to set one switch to obtain sensible chunking.
+Power users can tune chunking with the three switches in tandem to
+obtain optimal performance.
+
+By default, @acronym{NCO} preserves the chunking characteristics
+of the input file in the output file
+ at footnote{This behavior became the default in November 2014 with
+ at acronym{NCO} version 4.4.7.
+Prior versions would always use netCDF default chunking in the output
+file when no @acronym{NCO} chunking switches were activated, regardless
+of the chunking in the input file.}.
+In other words, preserving chunking requires no switches or user
+intervention.
+
+Users specify the desired chunking policy with the @samp{-P} switch
(or its long option equivalents, @samp{--cnk_plc} and
@samp{--chunk_policy}) and its @var{cnk_plc} argument.
As of August, 2014, six chunking policies are implemented:@*
@@ -6445,7 +6482,7 @@ Mnemonic: @emph{G}reater than or equal to @emph{3} @emph{D}imensions@*
Definition: Chunk all 1-D record variables@*
Alternate invocation: none@*
Any specified (with @samp{--cnk_dmn}) record dimension chunksizes will
-be applied to 1-D record variables (and to no other variables).
+be applied only to 1-D record variables (and to no other variables).
Other dimensions may be chunked with their own @samp{--cnk_dmn} options
that will apply to all variables.
@var{cnk_plc} key values: @samp{r1d}, @samp{cnk_r1d}, @samp{plc_r1d}@*
@@ -6456,14 +6493,14 @@ dimension whose chunksize was explicitly set with the @samp{--cnk_dmn} option.
Alternate invocation: none@*
@var{cnk_plc} key values: @samp{xpl}, @samp{cnk_xpl}, @samp{plc_xpl}@*
Mnemonic: E at emph{XPL}icitly specified dimensions@*
- at item Chunk Variables with Existing Chunk Sizes
-Definition: Chunk all variables possible that are already chunked in the
-input file.
+ at item Chunk Variables that are already Chunked
+Definition: Chunk only variables that are already chunked in the input
+file.
When used in conjunction with @samp{cnk_map=xst} this option preserves
and copies the chunking parameters from the input to the output file.
Alternate invocation: none@*
@var{cnk_plc} key values: @samp{xst}, @samp{cnk_xst}, @samp{plc_xst}@*
-Mnemonic: E at emph{X}i at emph{ST}ing chunk sizes@*
+Mnemonic: E at emph{X}i at emph{ST}ing chunked variables@*
@item Unchunking
Definition: Unchunk all variables possible.
The @acronym{HDF5} storge layer requires that record variables (i.e.,
@@ -6493,7 +6530,7 @@ is called the @dfn{chunking map}.
The user specifies the desired chunking map with the @samp{-M} switch
(or its long option equivalents, @samp{--cnk_map} and
@samp{--chunk_map}) and its @var{cnk_map} argument.
-Four chunking maps are currently implemented:@*
+Eight chunking maps are currently implemented:@*
@cindex @samp{dmn}
@cindex @samp{scl}
@cindex @samp{prd}
@@ -6501,18 +6538,23 @@ Four chunking maps are currently implemented:@*
@cindex @samp{rd1}
@cindex @samp{xst}
@cindex @samp{rew}
+ at cindex @samp{nc4}
@cindex @samp{cnk_dmn}
@cindex @samp{cnk_scl}
@cindex @samp{cnk_prd}
@cindex @samp{cnk_lfp}
@cindex @samp{cnk_rd1}
@cindex @samp{cnk_xst}
+ at cindex @samp{cnk_rew}
+ at cindex @samp{cnk_nc4}
@cindex @samp{map_dmn}
@cindex @samp{map_scl}
@cindex @samp{map_prd}
@cindex @samp{map_lfp}
@cindex @samp{map_rd1}
@cindex @samp{map_xst}
+ at cindex @samp{map_rew}
+ at cindex @samp{map_nc4}
@cindex Chris Barker
@table @dfn
@item Chunksize Equals Dimension Size [@emph{default}]
@@ -6573,6 +6615,16 @@ Russ Rew explains the motivation and derivation for this strategy
here}.@*
@var{cnk_map} key values: @samp{rew}, @samp{cnk_rew}, @samp{map_rew}@*
Mnemonic: Russ @emph{REW}@*
+ at item Chunksizes use netCDF4 defaults
+Definition: Chunksizes are determined by the underlying netCDF library.
+All variables selected by the current chunking policy have their
+chunksizes determined by netCDF library defaults.
+The default algorithm netCDF uses to determine chunksizes has changed
+through the years, and thus depends on the netCDF library version.
+This map can be used to reset (portions of) previously chunked files to
+default chunking values.@*
+ at var{cnk_map} key values: @samp{nc4}, @samp{cnk_nc4}, @samp{map_nc4}@*
+Mnemonic: @emph{N}et at emph{C}DF at emph{4}@*
@end table
@noindent
It is possible to combine the above chunking map algorithms with
@@ -6586,12 +6638,29 @@ chunksize, respectively.
The @samp{--cnk_dmn} option may be used as many times as necessary.
The default behavior of chunking depends on several factors.
-When no chunking options are explicitly specified by the user, then
+As mentioned above, when no chunking options are explicitly specified by
+the user, then @acronym{NCO} preserves the chunking characteristics of
+the input file in the output file.
+This is equivalent to specifying both @var{cnk_plc} and @var{cnk_map}
+as ``existing'', i.e., @samp{--cnk_plc=xst --cnk_map=xst}.
+If
output netCDF4 files are chunked with the default behavior of the
netCDF4 library.
-When any chunking option @emph{except} @samp{cnk_plc} or @samp{cnk_map}
-is specified, then @samp{cnk_plc} and @samp{cnk_map} are set to
- at samp{g2d} and @samp{rd1}, respectively.
+
+When any chunking parameter @emph{except} @samp{cnk_plc} or
+ at samp{cnk_map} is specified (such as @samp{cnk_dmn} or
+ at samp{cnk_sz_scl}), then the ``existing'' policy and map are
+retained and the output chunksizes are modified where necessary in
+accord with the user-specified parameter.
+When @samp{cnk_map} is specified and @samp{cnk_plc} is not, then
+ at acronym{NCO} picks (what it thinks is) the optimal chunking policy.
+This has always been policy @samp{map_g2d}.
+When @samp{cnk_plc} is specified and @samp{cnk_map} is not, then
+ at acronym{NCO} picks (what it thinks is) the optimal chunking map.
+This has always been map @samp{map_rd1}.
+
+To start afresh and return to netCDF4 chunking defaults, select
+ at samp{cnk_map=nc4}.
@html
<a name="xmp_cnk"></a> <!-- http://nco.sf.net/nco.html#xmp_cnk -->
@@ -12506,6 +12575,20 @@ of the @code{history} global attribute (@pxref{History Attribute}), the
@samp{-h} switch is provided to override automatically appending the
command to the @code{history} global attribute in the @var{output-file}.
+ at cindex performance
+ at cindex operator speed
+ at cindex speed
+ at cindex execution time
+According to the @cite{netCDF User Guide}, altering metadata in
+netCDF files does not incur the penalty of recopying the entire file
+when the new metadata occupies less space than the old metadata.
+Thus @command{ncatted} may run much faster (at least on netCDF3 files)
+if judicious use of header padding (@pxref{Metadata Optimization}) was
+made when producing the @var{input-file}.
+Similarly, using the @samp{--hdr_pad} option with @command{ncatted}
+helps ensure that future metadata changes to @var{output-file} occur
+as swiftly as possible.
+
@cindex missing values
@cindex data, missing
@cindex @code{_FillValue}
@@ -12978,7 +13061,7 @@ omitted in batch scripts.
SYNTAX
@example
ncbo [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}]]] [-F]
[-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [-h] [--hdr_pad @var{nbr}]
[-L @var{dfl_lvl}] [-l @var{path}] [--no_tmp_fl]
@@ -13405,7 +13488,7 @@ ncrcat t_anm_8589_??.nc t_anm_8589_0112.nc
SYNTAX
@example
nces [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}]]] [-F]
[-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [-h] [--hdf] [--hdr_pad @var{nbr}]
[-L @var{dfl_lvl}] [-l @var{path}] [-n @var{loop}] [--no_tmp_fl] [--nsm_fl|grp] [--nsm_sfx sfx]
@@ -13629,7 +13712,7 @@ member in the first file.
SYNTAX
@example
ncecat [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}]]] [-F]
[-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [--gag] [-h] [--hdf] [--hdr_pad @var{nbr}]
[-L @var{dfl_lvl}] [-l @var{path}] [-M] [--md5_digest] [--mrd] [-n @var{loop}] [--no_tmp_fl]
@@ -13887,7 +13970,7 @@ of changing variable dimensionality, including the record dimension.
SYNTAX
@example
ncflint [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}]]]
[-F] [--fix_rec_crd] [-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [-h] [--hdr_pad @var{nbr}]
[-i @var{var}, at var{val3}] [-L @var{dfl_lvl}] [-l @var{path}] [--no_tmp_fl]
@@ -14149,13 +14232,13 @@ ncatted -a units,prs_sfc,o,c,millibar out.nc
SYNTAX
@example
ncks [-3] [-4] [-5] [-6] [-7] [-A] [-a] [-b @var{binary-file}] [-C] [-c] [--cdl]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}]]] [-F] [--fix_rec_dmn @var{dim}]
[-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [--grp_xtr_var_xcl] [-H] [-h] [--hdn] [--hdr_pad @var{nbr}]
[-L @var{dfl_lvl}] [-l @var{path}] [-M] [-m] [--mk_rec_dmn @var{dim}] [--md5_digest]
[--no_blank] [--no_tmp_fl] [-O] [-o @var{output-file}] [-P] [-p @var{path}]
[-Q] [-q] [-R] [-r] [--rad] [--ram_all] [-s @var{format}]
-[-u] [--unn] [-v @var{var}[, at dots{}]] [-X ...] [-x] [--xml]
+[-u] [--unn] [-V] [-v @var{var}[, at dots{}]] [-X ...] [-x] [--xml]
@var{input-file} [[@var{output-file}]]
@end example
@@ -14188,8 +14271,8 @@ including @acronym{CDL} and @acronym{NcML}.
Options @samp{-5}, @samp{-a}, @samp{--cdl}, @samp{-F} , @samp{-H},
@samp{--hdn}, @samp{-M}, @samp{-m}, @samp{-P}, @samp{-Q}, @samp{-q},
- at samp{-s}, @samp{-u}, @samp{--xml} (and their long option counterparts)
-control the formatted appearance of the data.
+ at samp{-s}, @samp{-u}, @samp{-V}, and @samp{--xml} (and their long option
+counterparts) control the formatted appearance of the data.
@cindex global attributes
@cindex attributes, global
@@ -15336,7 +15419,7 @@ For more details @xref{Wrapped Coordinates}.
SYNTAX
@example
ncpdq [-3] [-4] [-6] [-7] [-A] [-a [-]@var{dim}[, at dots{}]] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}]]]
[-F] [-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [-h] [--hdf] [--hdr_pad @var{nbr}]
[-L @var{dfl_lvl}] [-l @var{path}] [-M @var{pck_map}] [--mrd] [--no_tmp_fl]
@@ -15927,7 +16010,7 @@ changing variable dimensionality, including the record dimension.
SYNTAX
@example
ncra [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}][,[@var{subcycle}]]]] [-F]
[-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [-h] [--hdf] [--hdr_pad @var{nbr}]
[-L @var{dfl_lvl}] [-l @var{path}] [--mro] [-n @var{loop}] [--no_tmp_fl]
@@ -16041,7 +16124,7 @@ ncra -d time,6.,54. ??.nc 8506_8906.nc
SYNTAX
@example
ncrcat [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}][,[@var{subcycle}]]]] [-F]
[-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [-h] [--hdr_pad @var{nbr}]
[-L @var{dfl_lvl}] [-l @var{path}] [--md5_digest] [-n @var{loop}] [--no_tmp_fl]
@@ -16204,9 +16287,28 @@ indicates the presence of @var{old_name} is optional, and @var{old_name}
is not present in @var{input-file}, then @command{ncrename} will abort.
The @var{new_name} should never be prefixed by a @samp{.} (or else the
period will be included as part of the new name).
+As of @acronym{NCO} version 4.4.6 (released October, 2014), the
+ at var{old_name} and @var{new_name} arguments may include (or be, for
+groups) partial or full group paths.
The OPTIONS and EXAMPLES show how to select specific variables
whose attributes are to be renamed.
+ at html
+<a name="bug_nc4_rename"></a> <!-- http://nco.sf.net/nco.html#bug_nc4_rename -->
+ at end html
+ at cartouche
+Caveat lector: Unforunately from 2007--present (October, 2014) the
+netCDF library (versions 4.0.0--4.3.2) contained bugs or limitations
+that sometimes prevent @acronym{NCO} from correctly renaming coordinate
+variables, dimensions, and groups in netCDF4 files.
+(To our knowledge the netCDF library calls for renaming always work
+well on netCDF3 files so one workaround to some netCDF4 issues is
+convert to netCDF3, rename, then convert back).
+To understand the renaming limitations associated with particular
+netCDF versions, read the @command{ncrename} documentation below in
+its entirety.
+ at end cartouche
+
Although @command{ncrename} supports full pathnames for both
@var{old_name} and @var{new_name}, this is really ``window dressing''.
The full-path to @var{new_name} must be identical to the full-path to
@@ -16228,8 +16330,8 @@ the user will be interactively prompted before an existing file is
changed, and that a temporary copy of an output file is constructed
during the operation.
If only @var{input-file} is specified, then @command{ncrename} changes
-the names of the @var{input-file} in place without prompting and without
-creating a temporary copy of @code{input-file}.
+object names in the @var{input-file} in place without prompting and
+without creating a temporary copy of @code{input-file}.
This is because the renaming operation is considered reversible if the
user makes a mistake.
The @var{new_name} can easily be changed back to @var{old_name} by using
@@ -16246,9 +16348,15 @@ Such a variable will become a coordinate variable.
@cindex operator speed
@cindex speed
@cindex execution time
-According to the @cite{netCDF User Guide}, renaming properties in
-netCDF files does not incur the penalty of recopying the entire file
-when the @var{new_name} is shorter than the @var{old_name}.
+According to the @cite{netCDF User Guide}, renaming objects in netCDF
+files does not incur the penalty of recopying the entire file when the
+ at var{new_name} is shorter than the @var{old_name}.
+Thus @command{ncrename} may run much faster (at least on netCDF3 files)
+if judicious use of header padding (@pxref{Metadata Optimization}) was
+made when producing the @var{input-file}.
+Similarly, using the @samp{--hdr_pad} option with @command{ncrename}
+helps ensure that future metadata changes to @var{output-file} occur
+as swifly as possible.
@noindent
OPTIONS
@@ -16272,11 +16380,12 @@ The @samp{@@} symbol delimits the variable from the attribute name.
If the attribute is uniquely named (no other variables contain the
attribute) then the @var{old_var_name@@old_att_name} syntax is
redundant.
-The @var{var_nm} @code{global} has special significance---it indicates
-that @var{att_nm} refers to a global or group attribute, and not to a
-variable named @code{global}.
-In other words, a @var{var_nm} of @code{global} is syntactically
-equivalent to a @var{var_nm} that is empty.
+The @var{old_var_name} variable names @code{global} and @code{group}
+have special significance.
+They indicate that @var{old_att_nm} should only be renamed where it
+occurs as a global (i.e., root group) metadata attribute (for
+ at code{global}), or (for @code{group}) as @emph{any} group attribute, and
+not where it occurs as a variable attribute.
The @var{var_name@@att_name} syntax is accepted, though not required,
for the @var{new_name}.
@@ -16355,8 +16464,8 @@ the variable:
ncrename -d lon,longitude -v lon,longitude in.nc
@end example
Unfortunately, the netCDF4 library had a longstanding bug (all versions
-until 4.3.1-rc5 released in December, 2013) that caused @acronym{NCO} to
-crash when performing this operation.
+until 4.3.1-rc5 released in December, 2013) that crashed @acronym{NCO}
+when performing this operation.
Simultaneously renaming variables and dimensions in netCDF4 files with
earlier versions of netCDF is impossible; it must instead be done in two
separate @command{ncrename} invocations (e.g., first rename the
@@ -16367,7 +16476,7 @@ A related bug causes unintended side-effects with @command{ncrename}
also built with all versions of the netCDF4 library until 4.3.1-rc5
released in December, 2013):
This bug caused renaming @emph{either} a dimension @emph{or} its
-assosiated coordinate variable (not both, which would fail as above) in
+associated coordinate variable (not both, which would fail as above) in
a netCDF4 file to inadvertently rename both:
@example
# Demonstate bug in netCDF4/HDF5 library prior to netCDF-4.3.1-rc5
@@ -16378,8 +16487,37 @@ ncrename -O -d lat_T42,lat ~/foo.nc ~/foo2.nc # Also renames variable
To avoid this faulty behavior, either build @acronym{NCO} with netCDF
version 4.3.1-rc5 or later, or convert the file to netCDF3 first,
then rename as intended, then convert back.
+Unforunately while this bug and the related coordinate renaming bug
+were fixed in 4.3.1-rc5 (released in December, 2013), a new and related
+bug was discovered in October 2014.
+
+The final known netCDF bug that causes unintended side-effects with
+ at command{ncrename} affects (at least) versions 4.3.1--4.3.2 of the
+netCDF4 library (and snapshots at least until October, 2014):
+This bug corrupts values or renamed netCDF4 coordinate variables
+(i.e., variables with underlying dimensions of the same name) and
+other (non-coordinate) variables that include an underlying dimension
+that was renamed.
+In other words, @emph{renaming} coordinate variables and dimensions
+succeeds yet it corrupts the values contained by the affected array
+variables.
+This bug corrupts affected variables by replacing their values with the
+default @code{_FillValue} for that variable's type:
+ at example
+# Demonstate bug in netCDF4/HDF5 library prior to netCDF-4.3.3
+ncks -O -4 -C -M -v lat ~/nco/data/in.nc ~/bug.nc
+ncrename -O -v lat,tal ~/bug.nc ~/foo.nc # Broken until netCDF-4.3.3
+ncrename -O -d lat,tal ~/bug.nc ~/foo.nc # Broken until netCDF-4.3.3
+ncrename -O -d lat,tal -v lat,tal ~/bug.nc ~/foo.nc # Broken too
+ncks --cdl ~/foo.nc
+ at end example
+To avoid this faulty behavior, either build @acronym{NCO} with netCDF
+version 4.3.3 (TBD) or later, or convert the file to netCDF3 first, then
+rename as intended, then convert back.
+This bug does not affect renaming of groups or of attributes.
@cindex global attributes
+ at cindex group attributes
@cindex attributes, global
@cindex @code{_FillValue}
@cindex @code{missing_value}
@@ -16411,10 +16549,12 @@ Rename the global or group attribute @code{Convention} to
@code{Conventions}
@example
@verbatim
-ncrename -a Convention,Conventions in.nc # Variable and global atts.
-ncrename -a .Convention,Conventions in.nc # Variable and global atts.
-ncrename -a @Convention,Conventions in.nc # Global atts. only
-ncrename -a @.Convention,Conventions in.nc # Global atts. only
+ncrename -a Convention,Conventions in.nc # Variable and group atts.
+ncrename -a .Convention,Conventions in.nc # Variable and group atts.
+ncrename -a @Convention,Conventions in.nc # Group atts. only
+ncrename -a @.Convention,Conventions in.nc # Group atts. only
+ncrename -a global at Convention,Conventions in.nc # Group atts. only
+ncrename -a .global at .Convention,Conventions in.nc # Group atts. only
ncrename -a global at Convention,Conventions in.nc # Global atts. only
ncrename -a .global at .Convention,Conventions in.nc # Global atts. only
@end verbatim
@@ -16448,7 +16588,7 @@ Variables not prefixed with a period (@code{global}) must be present.
SYNTAX
@example
ncwa [-3] [-4] [-6] [-7] [-A] [-a @var{dim}[, at dots{}]] [-B @var{mask_cond}] [-b] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D @var{dbg}] [-d @var{dim},[@var{min}][,[@var{max}][,[@var{stride}]]] [-F]
[-G @var{gpe_dsc}] [-g @var{grp}[, at dots{}]] [-h] [--hdr_pad @var{nbr}] [-I]
[-L @var{dfl_lvl}] [-l @var{path}] [-M @var{mask_val}] [-m @var{mask_var}] [-N] [--no_tmp_fl]
diff --git a/doc/nco.txt b/doc/nco.txt
index 3a8d0d5..74c50b1 100644
--- a/doc/nco.txt
+++ b/doc/nco.txt
@@ -196,8 +196,8 @@ 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 4.4.6. It was last updated 1
-October 2014. Corrections, additions, and rewrites of this
+ This documentation is for NCO version 4.4.7. It was last updated 26
+November 2014. Corrections, additions, and rewrites of this
documentation are very welcome.
Enjoy,
@@ -358,7 +358,7 @@ 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 (4.4.6). The
+ There are twelve operators in the current version (4.4.7). 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
@@ -834,7 +834,7 @@ message, not to the original poster.
that feature is already on the TODO (file:./TODO) list. If it is, why
not implement that feature yourself and send us the patch? If the
feature is not yet on the list, then send a note to the NCO Discussion
-forum (http://sf.net/projects/nco/forums/forum/9829).
+forum (http://sf.net/p/nco/discussion/9829).
Read the manual before reporting a bug or posting a help request.
Sending questions whose answers are not in the manual is the best way to
@@ -851,7 +851,7 @@ procedure as described below for reporting bugs (after all, it might be
a bug). That is, describe what you are trying to do, and include the
complete commands (run with '-D 5'), error messages, and version of NCO
(with '-r'). Post your help request to the NCO Help forum
-(http://sf.net/projects/nco/forums/forum/9830).
+(http://sf.net/p/nco/discussion/9830).
If you think you used the right command when NCO misbehaves, then you
might have found a bug. Incorrect numerical answers are the highest
@@ -1517,7 +1517,9 @@ that HDR_PAD bytes be inserted into the metadata section of the output
file. Future metadata expansions will not incur the netCDF3 performance
penalty of copying the entire output file unless the expansion exceeds
the amount of header padding exceeded. This can be beneficial when it
-is known that some metadata will be added at a future date.
+is known that some metadata will be added at a future date. The
+operators which benefit most from judicious use of header padding are
+'ncatted' and 'ncrename', since they only alter metadata.
This optimization exploits the netCDF library 'nc__enddef()'
function, which behaves differently with different versions of netCDF.
@@ -2269,7 +2271,9 @@ work.
---------- Footnotes ----------
(1) The switches '-5', '--5', and 'pnetcdf' are reserved for PnetCDF
-files, i.e., 'NC_FORMAT_PNETCDF'.
+files, i.e., 'NC_FORMAT_PNETCDF'. Such files are similar to netCDF3
+classic files, yet also support 64-bit offsets and the additional
+netCDF4 atomic types.
3.9.4 Autoconversion
--------------------
@@ -3160,30 +3164,31 @@ cross-section, the size of the constant dimension will be one).
last N elements of a hyperslab. Negative integers as MIN or MAX
elements of a hyperslab specification indicate offsets from the end
(Python also uses this convention). Consistent with this convention,
-the value '-0' (negative zero) indicates the last element of a
-dimension, even though negative zero is algebraically equivalent to
-zero. Previously, for example, '-d time,-2,-1' caused a domain error.
-Now it means select the second-to-last and penultimate timesteps.
-Whereas '-d time,0' and '-d time,-0' refer to the first and last
-timesteps, respectively. Negative integers work for MIN and MAX
-indices, though not for STRIDE.
- # Second through second-to-last longitudes
+the value '-1' (negative one) indicates the last element of a dimension,
+and negative zero is algebraically equivalent to zero and so indicates
+the first element of a dimension. Previously, for example, '-d
+time,-2,-1' caused a domain error. Now it means select the penultimate
+and last timesteps, independent of the size of the 'time' dimension.
+Select only the first and last timesteps, respectively, with '-d time,0'
+and '-d time,-1'. Negative integers work for MIN and MAX indices,
+though not for STRIDE.
+ # Second through penultimate longitudes
ncks -d lon,1,-2 in.nc out.nc
# Second through last longitude
- ncks -d lon,1,-0 in.nc out.nc
- # Third-to-last to penultimate longitude
+ ncks -d lon,1,-1 in.nc out.nc
+ # Second-to-last to last longitude
ncks -d lon,-3,-1 in.nc out.nc
- # Third-to-last to last longitude
+ # Second-to-last to last longitude
ncks -d lon,-3, in.nc out.nc
The '-F' argument, if any, applies the Fortran index convention only to
-indices specified as positive integers (including zero).
- # First through second-to-last longitudes
+indices specified as positive integers:
+ # First through penultimate longitudes
ncks -F -d lon,1,-2 in.nc out.nc (-F affects only start index)
# First through last longitude
- ncks -F -d lon,1,-0 in.nc out.nc
- # Third-to-last to penultimate longitude (-F has no effect)
+ ncks -F -d lon,1,-1 in.nc out.nc
+ # Second-to-last to penultimate longitude (-F has no effect)
ncks -F -d lon,-3,-1 in.nc out.nc
- # Third-to-last to last longitude (-F has no effect)
+ # Second-to-last to last longitude (-F has no effect)
ncks -F -d lon,-3, in.nc out.nc
Coordinate values should be specified using real notation with a
@@ -4094,33 +4099,52 @@ Short options: none
Long options: '--cnk_byt CNK_SZ', '--chunk_byte CNK_SZ'
'--cnk_dmn DMN_NM,CNK_SZ', '--chunk_dimension DMN_NM,CNK_SZ'
, '--cnk_map CNK_MAP', '--chunk_map CNK_MAP',
+'--cnk_min VAR_SZ', '--chunk_min VAR_SZ',
'--cnk_plc CNK_PLC', '--chunk_policy CNK_PLC',
'--cnk_scl CNK_SZ', '--chunk_scalar CNK_SZ'
All netCDF4-enabled NCO operators that define variables support a
plethora of chunksize options. Chunking can significantly accelerate or
degrade read/write access to large datasets. Dataset chunking issues
-are described in detail here
+are described by THG and Unidata here
(http://www.hdfgroup.org/HDF5/doc/H5.user/Chunking.html), here
(http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_why_it_matters),
and here
(http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_choosing_shapes).
+NCO authors are working on generalized algorithms and applications of
+chunking strategies (stay tuned for more in 2015).
The NCO chunking implementation is designed to be flexible. Users
-control three aspects of the chunking implementation. These are known
-as the "chunking policy", "chunking map", and "chunksize". 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. The implementation is a hybrid of the
-'ncpdq' packing policies (*note ncpdq netCDF Permute Dimensions
-Quickly::), and the hyperslab specifications (*note Hyperslabs::). Each
-aspect is intended to have a sensible default, so that most users will
-only need to set one switch to obtain sensible chunking. Power users
-can tune the three switches in tandem to obtain optimal performance.
-
- The user specifies the desired chunking policy with the '-P' switch
-(or its long option equivalents, '--cnk_plc' and '--chunk_policy') and
-its CNK_PLC argument. As of August, 2014, six chunking policies are
+control four aspects of the chunking implementation. These are the
+"chunking policy", "chunking map", "chunksize", and "minimum chunksize".
+The chunking policy determines _which_ variables to chunk, and the
+chunking map determines how (with what exact sizes) to chunk those
+variables. These are high-level mechanisms that apply to an entire file
+and all variables and dimensions. The chunksize option allows
+per-dimension specification of sizes that will override the selected (or
+default) chunking map.
+
+ The VAR_SZ parameter is the minimum size in bytes (not elements) of
+variables to chunk. This threshold is intended to restrict use of
+chunking to variables for which it is efficient. By default this
+minimum variable size for chunking is twice the system blocksize (when
+available) and is 8192 bytes otherwise. Users may set this to any value
+with the '--cnk_min' switch.
+
+ The chunking implementation is similar to a hybrid of the 'ncpdq'
+packing policies (*note ncpdq netCDF Permute Dimensions Quickly::) and
+hyperslab specifications (*note Hyperslabs::). Each aspect is intended
+to have a sensible default, so that many users only need to set one
+switch to obtain sensible chunking. Power users can tune chunking with
+the three switches in tandem to obtain optimal performance.
+
+ By default, NCO preserves the chunking characteristics of the input
+file in the output file (1). In other words, preserving chunking
+requires no switches or user intervention.
+
+ Users specify the desired chunking policy with the '-P' switch (or
+its long option equivalents, '--cnk_plc' and '--chunk_policy') and its
+CNK_PLC argument. As of August, 2014, six chunking policies are
implemented:
"Chunk All Variables"
Definition: Chunk all variables possible. For obvious reasons,
@@ -4144,10 +4168,10 @@ implemented:
Definition: Chunk all 1-D record variables
Alternate invocation: none
Any specified (with '--cnk_dmn') record dimension chunksizes will
- be applied to 1-D record variables (and to no other variables).
- Other dimensions may be chunked with their own '--cnk_dmn' options
- that will apply to all variables. CNK_PLC key values: 'r1d',
- 'cnk_r1d', 'plc_r1d'
+ be applied only to 1-D record variables (and to no other
+ variables). Other dimensions may be chunked with their own
+ '--cnk_dmn' options that will apply to all variables. CNK_PLC key
+ values: 'r1d', 'cnk_r1d', 'plc_r1d'
Mnemonic: _R_ecord _1_-_D_ variables
"Chunk Variables Containing Explicitly Chunked Dimensions"
Definition: Chunk all variables possible that contain at least one
@@ -4155,13 +4179,13 @@ implemented:
option. Alternate invocation: none
CNK_PLC key values: 'xpl', 'cnk_xpl', 'plc_xpl'
Mnemonic: E_XPL_icitly specified dimensions
-"Chunk Variables with Existing Chunk Sizes"
- Definition: Chunk all variables possible that are already chunked
- in the input file. When used in conjunction with 'cnk_map=xst'
- this option preserves and copies the chunking parameters from the
- input to the output file. Alternate invocation: none
+"Chunk Variables that are already Chunked"
+ Definition: Chunk only variables that are already chunked in the
+ input file. When used in conjunction with 'cnk_map=xst' this
+ option preserves and copies the chunking parameters from the input
+ to the output file. Alternate invocation: none
CNK_PLC key values: 'xst', 'cnk_xst', 'plc_xst'
- Mnemonic: E_X_i_ST_ing chunk sizes
+ Mnemonic: E_X_i_ST_ing chunked variables
"Unchunking"
Definition: Unchunk all variables possible. The HDF5 storge layer
requires that record variables (i.e., variables that contain at
@@ -4180,7 +4204,7 @@ each variable to be chunked. The correspondence between the input
variable shape and the chunksizes is called the "chunking map". The
user specifies the desired chunking map with the '-M' switch (or its
long option equivalents, '--cnk_map' and '--chunk_map') and its CNK_MAP
-argument. Four chunking maps are currently implemented:
+argument. Eight chunking maps are currently implemented:
"Chunksize Equals Dimension Size [_default_]"
Definition: Chunksize defaults to dimension size. Explicitly
specify chunksizes for particular dimensions with '--cnk_dmn'
@@ -4236,6 +4260,16 @@ argument. Four chunking maps are currently implemented:
(http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_choosing_shapes).
CNK_MAP key values: 'rew', 'cnk_rew', 'map_rew'
Mnemonic: Russ _REW_
+"Chunksizes use netCDF4 defaults"
+ Definition: Chunksizes are determined by the underlying netCDF
+ library. All variables selected by the current chunking policy
+ have their chunksizes determined by netCDF library defaults. The
+ default algorithm netCDF uses to determine chunksizes has changed
+ through the years, and thus depends on the netCDF library version.
+ This map can be used to reset (portions of) previously chunked
+ files to default chunking values.
+ CNK_MAP key values: 'nc4', 'cnk_nc4', 'map_nc4'
+ Mnemonic: _N_et_C_DF_4_
It is possible to combine the above chunking map algorithms with
user-specified per-dimension (though not per-variable) chunksizes that
override specific chunksizes determined by the maps above. The user
@@ -4245,12 +4279,26 @@ comma-separated arguments, DMN_NM,CNK_SZ, which are the dimension name
and its chunksize, respectively. The '--cnk_dmn' option may be used as
many times as necessary.
- The default behavior of chunking depends on several factors. When no
-chunking options are explicitly specified by the user, then output
-netCDF4 files are chunked with the default behavior of the netCDF4
-library. When any chunking option _except_ 'cnk_plc' or 'cnk_map' is
-specified, then 'cnk_plc' and 'cnk_map' are set to 'g2d' and 'rd1',
-respectively.
+ The default behavior of chunking depends on several factors. As
+mentioned above, when no chunking options are explicitly specified by
+the user, then NCO preserves the chunking characteristics of the input
+file in the output file. This is equivalent to specifying both CNK_PLC
+and CNK_MAP as "existing", i.e., '--cnk_plc=xst --cnk_map=xst'. If
+output netCDF4 files are chunked with the default behavior of the
+netCDF4 library.
+
+ When any chunking parameter _except_ 'cnk_plc' or 'cnk_map' is
+specified (such as 'cnk_dmn' or 'cnk_sz_scl'), then the "existing"
+policy and map are retained and the output chunksizes are modified where
+necessary in accord with the user-specified parameter. When 'cnk_map'
+is specified and 'cnk_plc' is not, then NCO picks (what it thinks is)
+the optimal chunking policy. This has always been policy 'map_g2d'.
+When 'cnk_plc' is specified and 'cnk_map' is not, then NCO picks (what
+it thinks is) the optimal chunking map. This has always been map
+'map_rd1'.
+
+ To start afresh and return to netCDF4 chunking defaults, select
+'cnk_map=nc4'.
# Simple chunking and unchunking
ncks -O -4 --cnk_plc=all in.nc out.nc # Chunk in.nc
@@ -4307,6 +4355,13 @@ Do not be surprised to learn that files created without any explicit
instructions to activate chunking nevertheless contain chunked
variables.
+ ---------- Footnotes ----------
+
+ (1) This behavior became the default in November 2014 with NCO
+version 4.4.7. Prior versions would always use netCDF default chunking
+in the output file when no NCO chunking switches were activated,
+regardless of the chunking in the input file.
+
3.27 Deflation
==============
@@ -8283,6 +8338,15 @@ of the 'history' global attribute (*note History Attribute::), the '-h'
switch is provided to override automatically appending the command to
the 'history' global attribute in the OUTPUT-FILE.
+ According to the 'netCDF User Guide', altering metadata in netCDF
+files does not incur the penalty of recopying the entire file when the
+new metadata occupies less space than the old metadata. Thus 'ncatted'
+may run much faster (at least on netCDF3 files) if judicious use of
+header padding (*note Metadata Optimization::) was made when producing
+the INPUT-FILE. Similarly, using the '--hdr_pad' option with 'ncatted'
+helps ensure that future metadata changes to OUTPUT-FILE occur as
+swiftly as possible.
+
When 'ncatted' is used to change the '_FillValue' attribute, it
changes the associated missing data self-consistently. If the internal
floating point representation of a missing value, e.g., 1.0e36, differs
@@ -8558,7 +8622,7 @@ for the missing value in datasets is legal. We strongly discourage it.
SYNTAX
ncbo [-3] [-4] [-6] [-7] [-A] [-C] [-c]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE]]] [-F]
[-G GPE_DSC] [-g GRP[,...]] [-h] [--hdr_pad NBR]
[-L DFL_LVL] [-l PATH] [--no_tmp_fl]
@@ -8825,7 +8889,7 @@ words, by default 'ncra' changes variable size though not rank, while,
SYNTAX
nces [-3] [-4] [-6] [-7] [-A] [-C] [-c]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE]]] [-F]
[-G GPE_DSC] [-g GRP[,...]] [-h] [--hdf] [--hdr_pad NBR]
[-L DFL_LVL] [-l PATH] [-n LOOP] [--no_tmp_fl] [--nsm_fl|grp] [--nsm_sfx sfx]
@@ -8980,7 +9044,7 @@ resolved to the same size.
SYNTAX
ncecat [-3] [-4] [-6] [-7] [-A] [-C] [-c]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE]]] [-F]
[-G GPE_DSC] [-g GRP[,...]] [--gag] [-h] [--hdf] [--hdr_pad NBR]
[-L DFL_LVL] [-l PATH] [-M] [--md5_digest] [--mrd] [-n LOOP] [--no_tmp_fl]
@@ -9139,7 +9203,7 @@ including the record dimension.
SYNTAX
ncflint [-3] [-4] [-6] [-7] [-A] [-C] [-c]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE]]]
[-F] [--fix_rec_crd] [-G GPE_DSC] [-g GRP[,...]] [-h] [--hdr_pad NBR]
[-i VAR,VAL3] [-L DFL_LVL] [-l PATH] [--no_tmp_fl]
@@ -9290,13 +9354,13 @@ Pascals to hectopascals (millibars)
SYNTAX
ncks [-3] [-4] [-5] [-6] [-7] [-A] [-a] [-b BINARY-FILE] [-C] [-c] [--cdl]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE]]] [-F] [--fix_rec_dmn DIM]
[-G GPE_DSC] [-g GRP[,...]] [--grp_xtr_var_xcl] [-H] [-h] [--hdn] [--hdr_pad NBR]
[-L DFL_LVL] [-l PATH] [-M] [-m] [--mk_rec_dmn DIM] [--md5_digest]
[--no_blank] [--no_tmp_fl] [-O] [-o OUTPUT-FILE] [-P] [-p PATH]
[-Q] [-q] [-R] [-r] [--rad] [--ram_all] [-s FORMAT]
- [-u] [--unn] [-v VAR[,...]] [-X ...] [-x] [--xml]
+ [-u] [--unn] [-V] [-v VAR[,...]] [-X ...] [-x] [--xml]
INPUT-FILE [[OUTPUT-FILE]]
DESCRIPTION
@@ -9320,8 +9384,8 @@ option '--xml' outputs NcML. 'ncks' exposes many flexible controls over
printed output, including CDL and NcML.
Options '-5', '-a', '--cdl', '-F' , '-H', '--hdn', '-M', '-m', '-P',
-'-Q', '-q', '-s', '-u', '--xml' (and their long option counterparts)
-control the formatted appearance of the data.
+'-Q', '-q', '-s', '-u', '-V', and '--xml' (and their long option
+counterparts) control the formatted appearance of the data.
'ncks' extracts (and optionally creates a new netCDF file comprised
of) only selected variables from the input file (similar to the old
@@ -10009,7 +10073,7 @@ and the easternmost longitude as MAX, as follows:
SYNTAX
ncpdq [-3] [-4] [-6] [-7] [-A] [-a [-]DIM[,...]] [-C] [-c]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE]]]
[-F] [-G GPE_DSC] [-g GRP[,...]] [-h] [--hdf] [--hdr_pad NBR]
[-L DFL_LVL] [-l PATH] [-M PCK_MAP] [--mrd] [--no_tmp_fl]
@@ -10375,7 +10439,7 @@ like NCO to support packing data with HDF algorithm.
SYNTAX
ncra [-3] [-4] [-6] [-7] [-A] [-C] [-c]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE][,[SUBCYCLE]]]] [-F]
[-G GPE_DSC] [-g GRP[,...]] [-h] [--hdf] [--hdr_pad NBR]
[-L DFL_LVL] [-l PATH] [--mro] [-n LOOP] [--no_tmp_fl]
@@ -10444,7 +10508,7 @@ to the five desired files, the following averages June, 1985-June, 1989:
SYNTAX
ncrcat [-3] [-4] [-6] [-7] [-A] [-C] [-c]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE][,[SUBCYCLE]]]] [-F]
[-G GPE_DSC] [-g GRP[,...]] [-h] [--hdr_pad NBR]
[-L DFL_LVL] [-l PATH] [--md5_digest] [-n LOOP] [--no_tmp_fl]
@@ -10541,10 +10605,22 @@ The validity of OLD_NAME is not checked prior to the renaming. Thus, if
OLD_NAME is specified without the '.' prefix that indicates the presence
of OLD_NAME is optional, and OLD_NAME is not present in INPUT-FILE, then
'ncrename' will abort. The NEW_NAME should never be prefixed by a '.'
-(or else the period will be included as part of the new name). The
-OPTIONS and EXAMPLES show how to select specific variables whose
+(or else the period will be included as part of the new name). As of
+NCO version 4.4.6 (released October, 2014), the OLD_NAME and NEW_NAME
+arguments may include (or be, for groups) partial or full group paths.
+The OPTIONS and EXAMPLES show how to select specific variables whose
attributes are to be renamed.
+ Caveat lector: Unforunately from 2007-present (October, 2014) the
+netCDF library (versions 4.0.0-4.3.2) contained bugs or limitations that
+sometimes prevent NCO from correctly renaming coordinate variables,
+dimensions, and groups in netCDF4 files. (To our knowledge the netCDF
+library calls for renaming always work well on netCDF3 files so one
+workaround to some netCDF4 issues is convert to netCDF3, rename, then
+convert back). To understand the renaming limitations associated with
+particular netCDF versions, read the 'ncrename' documentation below in
+its entirety.
+
Although 'ncrename' supports full pathnames for both OLD_NAME and
NEW_NAME, this is really "window dressing". The full-path to NEW_NAME
must be identical to the full-path to OLD_NAME in all classes of objects
@@ -10558,7 +10634,7 @@ exist in the group specified by the OLD_NAME path.
'ncrename' is an exception to the normal NCO 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 during the operation.
-If only INPUT-FILE is specified, then 'ncrename' changes the names of
+If only INPUT-FILE is specified, then 'ncrename' changes object names in
the INPUT-FILE in place without prompting and without creating a
temporary copy of 'input-file'. This is because the renaming operation
is considered reversible if the user makes a mistake. The NEW_NAME can
@@ -10570,9 +10646,13 @@ variable and a dependent variable. 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.
- According to the 'netCDF User Guide', renaming properties in netCDF
+ According to the 'netCDF User Guide', renaming objects in netCDF
files does not incur the penalty of recopying the entire file when the
-NEW_NAME is shorter than the OLD_NAME.
+NEW_NAME is shorter than the OLD_NAME. Thus 'ncrename' may run much
+faster (at least on netCDF3 files) if judicious use of header padding
+(*note Metadata Optimization::) was made when producing the INPUT-FILE.
+Similarly, using the '--hdr_pad' option with 'ncrename' helps ensure
+that future metadata changes to OUTPUT-FILE occur as swifly as possible.
OPTIONS
@@ -10588,12 +10668,12 @@ OPTIONS
'@' symbol delimits the variable from the attribute name. If the
attribute is uniquely named (no other variables contain the
attribute) then the OLD_VAR_NAME at OLD_ATT_NAME syntax is redundant.
- The VAR_NM 'global' has special significance--it indicates that
- ATT_NM refers to a global or group attribute, and not to a variable
- named 'global'. In other words, a VAR_NM of 'global' is
- syntactically equivalent to a VAR_NM that is empty. The
- VAR_NAME at ATT_NAME syntax is accepted, though not required, for the
- NEW_NAME.
+ The OLD_VAR_NAME variable names 'global' and 'group' have special
+ significance. They indicate that OLD_ATT_NM should only be renamed
+ where it occurs as a global (i.e., root group) metadata attribute
+ (for 'global'), or (for 'group') as _any_ group attribute, and not
+ where it occurs as a variable attribute. The VAR_NAME at ATT_NAME
+ syntax is accepted, though not required, for the NEW_NAME.
'-d OLD_NAME,NEW_NAME'
Dimension renaming. The old and new names of the dimension are
@@ -10639,9 +10719,9 @@ variable so that it remains a coordinate variable, you must separately
rename both the dimension and the variable:
ncrename -d lon,longitude -v lon,longitude in.nc
Unfortunately, the netCDF4 library had a longstanding bug (all
-versions until 4.3.1-rc5 released in December, 2013) that caused NCO to
-crash when performing this operation. Simultaneously renaming variables
-and dimensions in netCDF4 files with earlier versions of netCDF is
+versions until 4.3.1-rc5 released in December, 2013) that crashed NCO
+when performing this operation. Simultaneously renaming variables and
+dimensions in netCDF4 files with earlier versions of netCDF is
impossible; it must instead be done in two separate 'ncrename'
invocations (e.g., first rename the variable, then rename the dimension)
to avoid triggering the libary bug.
@@ -10649,7 +10729,7 @@ to avoid triggering the libary bug.
A related bug causes unintended side-effects with 'ncrename' also
built with all versions of the netCDF4 library until 4.3.1-rc5 released
in December, 2013): This bug caused renaming _either_ a dimension _or_
-its assosiated coordinate variable (not both, which would fail as above)
+its associated coordinate variable (not both, which would fail as above)
in a netCDF4 file to inadvertently rename both:
# Demonstate bug in netCDF4/HDF5 library prior to netCDF-4.3.1-rc5
ncks -O -h -m -M -4 -v lat_T42 ~/nco/data/in.nc ~/foo.nc
@@ -10657,7 +10737,30 @@ in a netCDF4 file to inadvertently rename both:
ncrename -O -d lat_T42,lat ~/foo.nc ~/foo2.nc # Also renames variable
To avoid this faulty behavior, either build NCO with netCDF version
4.3.1-rc5 or later, or convert the file to netCDF3 first, then rename as
-intended, then convert back.
+intended, then convert back. Unforunately while this bug and the
+related coordinate renaming bug were fixed in 4.3.1-rc5 (released in
+December, 2013), a new and related bug was discovered in October 2014.
+
+ The final known netCDF bug that causes unintended side-effects with
+'ncrename' affects (at least) versions 4.3.1-4.3.2 of the netCDF4
+library (and snapshots at least until October, 2014): This bug corrupts
+values or renamed netCDF4 coordinate variables (i.e., variables with
+underlying dimensions of the same name) and other (non-coordinate)
+variables that include an underlying dimension that was renamed. In
+other words, _renaming_ coordinate variables and dimensions succeeds yet
+it corrupts the values contained by the affected array variables. This
+bug corrupts affected variables by replacing their values with the
+default '_FillValue' for that variable's type:
+ # Demonstate bug in netCDF4/HDF5 library prior to netCDF-4.3.3
+ ncks -O -4 -C -M -v lat ~/nco/data/in.nc ~/bug.nc
+ ncrename -O -v lat,tal ~/bug.nc ~/foo.nc # Broken until netCDF-4.3.3
+ ncrename -O -d lat,tal ~/bug.nc ~/foo.nc # Broken until netCDF-4.3.3
+ ncrename -O -d lat,tal -v lat,tal ~/bug.nc ~/foo.nc # Broken too
+ ncks --cdl ~/foo.nc
+ To avoid this faulty behavior, either build NCO with netCDF version
+4.3.3 (TBD) or later, or convert the file to netCDF3 first, then rename
+as intended, then convert back. This bug does not affect renaming of
+groups or of attributes.
Create netCDF 'out.nc' identical to 'in.nc' except the attribute
'_FillValue' is changed to 'missing_value', the attribute 'units' is
@@ -10677,10 +10780,12 @@ The variable 'prs_sfc' need not exist, and need not contain the 'hieght'
attribute.
Rename the global or group attribute 'Convention' to 'Conventions'
- ncrename -a Convention,Conventions in.nc # Variable and global atts.
- ncrename -a .Convention,Conventions in.nc # Variable and global atts.
- ncrename -a @Convention,Conventions in.nc # Global atts. only
- ncrename -a @.Convention,Conventions in.nc # Global atts. only
+ ncrename -a Convention,Conventions in.nc # Variable and group atts.
+ ncrename -a .Convention,Conventions in.nc # Variable and group atts.
+ ncrename -a @Convention,Conventions in.nc # Group atts. only
+ ncrename -a @.Convention,Conventions in.nc # Group atts. only
+ ncrename -a global at Convention,Conventions in.nc # Group atts. only
+ ncrename -a .global at .Convention,Conventions in.nc # Group atts. only
ncrename -a global at Convention,Conventions in.nc # Global atts. only
ncrename -a .global at .Convention,Conventions in.nc # Global atts. only
The examples without the '@' character attempt to change the
@@ -10698,7 +10803,7 @@ period ('global') must be present.
SYNTAX
ncwa [-3] [-4] [-6] [-7] [-A] [-a DIM[,...]] [-B MASK_COND] [-b] [-C] [-c]
- [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+ [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D DBG] [-d DIM,[MIN][,[MAX][,[STRIDE]]] [-F]
[-G GPE_DSC] [-g GRP[,...]] [-h] [--hdr_pad NBR] [-I]
[-L DFL_LVL] [-l PATH] [-M MASK_VAL] [-m MASK_VAR] [-N] [--no_tmp_fl]
@@ -11408,15 +11513,13 @@ script selects two variables, SNC and SND (snow cover and snow depth).
# Remove temporary files
rm ${drc_out}sn?_${rlm}*.nc
- #!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
- # Coming soon!
- #- Group names:
+ #- Rename Group:
# E.g., file snc_LImon_CESM1-CAM5_historical_r1i1p1_199001-200512.nc
- # will be group /historical/CESM1-CAM5/00
- #- You can rename groups on the last level to be more meaningful by
- #ncrename -g ${xpt}/${mdl}/02,${xpt}/${mdl}/r3i1p1 \
- # ${drc_out}${var}_${rlm}_${mdl}_all-nsm_${tms}.${flt}
- #!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
+ # is now group /historical/CESM1-CAM5/CESM1-CAM5_00.
+ # You can rename it to /historical/CESM1-CAM5/r1i1p1 to make more sense.
+ # Note: You don't need to write the full path of the new name.
+ ncrename -g ${xpt}/${mdl}/${mdl}_00,r1i1p1 \
+ ${drc_out}${var}_${rlm}_${mdl}_all-nsm_${tms}.${flt}
#------------------------------------------------------------
# Output file structure
@@ -11456,7 +11559,7 @@ script selects two variables, SNC and SND (snow cover and snow depth).
# }
# CESM1-CAM5
# {
- # CESM1-CAM5_00 { ... }
+ # r1i1p1 { ... }
# CESM1-CAM5_01 { ... }
# CESM1-CAM5_02 { ... }
# }
@@ -12618,978 +12721,981 @@ General Index
* Menu:
* '"' (double quote): ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* '#include': Syntax of ncap2 statements.
- (line 5707)
-* '$' (wildcard character): Subsetting Files. (line 2584)
+ (line 5763)
+* '$' (wildcard character): Subsetting Files. (line 2588)
* '%' (modulus): Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* ''' (end quote): ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* '*': ncbo netCDF Binary Operator.
- (line 8628)
-* '*' (filename expansion): Subsetting Files. (line 2584)
+ (line 8693)
+* '*' (filename expansion): Subsetting Files. (line 2588)
* '*' (multiplication): Intrinsic mathematical methods.
- (line 8078)
-* '*' (wildcard character): Subsetting Files. (line 2591)
+ (line 8134)
+* '*' (wildcard character): Subsetting Files. (line 2595)
* '+': ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* '+' (addition): Intrinsic mathematical methods.
- (line 8078)
-* '+' (wildcard character): Subsetting Files. (line 2591)
+ (line 8134)
+* '+' (wildcard character): Subsetting Files. (line 2595)
* '-': ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* '-' (subtraction): Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* '--3': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--4': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--5': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--6': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--64bit': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--7': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--abc': ncks netCDF Kitchen Sink.
- (line 9454)
+ (line 9519)
* '--alphabetize': ncks netCDF Kitchen Sink.
- (line 9454)
+ (line 9519)
* '--apn': Temporary Output Files.
(line 1004)
-* '--apn' <1>: Batch Mode. (line 5353)
+* '--apn' <1>: Batch Mode. (line 5409)
* '--apn' <2>: Filters for 'ncks'.
- (line 9930)
+ (line 9995)
* '--append': Temporary Output Files.
(line 1004)
-* '--append' <1>: Batch Mode. (line 5353)
+* '--append' <1>: Batch Mode. (line 5409)
* '--append' <2>: Filters for 'ncks'.
- (line 9930)
+ (line 9995)
* '--auxiliary': Auxiliary Coordinates.
- (line 3659)
+ (line 3664)
* '--auxiliary LON_MIN,LON_MAX,LAT_MIN,LAT_MAX': Auxiliary Coordinates.
- (line 3659)
-* '--bfr_sz_hnt': Buffer sizes. (line 4456)
+ (line 3664)
+* '--bfr_sz_hnt': Buffer sizes. (line 4512)
* '--binary': ncks netCDF Kitchen Sink.
- (line 9464)
+ (line 9529)
* '--bnr': ncks netCDF Kitchen Sink.
- (line 9464)
+ (line 9529)
* '--cdl': ncks netCDF Kitchen Sink.
- (line 9519)
-* '--cell_methods': CF Conventions. (line 5521)
-* '--chunk_byte': Chunking. (line 4127)
-* '--chunk_dimension': Chunking. (line 4127)
-* '--chunk_map': Chunking. (line 4127)
-* '--chunk_policy': Chunking. (line 4127)
-* '--chunk_scalar': Chunking. (line 4127)
-* '--cll_mth': CF Conventions. (line 5521)
-* '--cnk_byt': Chunking. (line 4127)
-* '--cnk_dmn': Chunking. (line 4127)
-* '--cnk_map': Chunking. (line 4127)
-* '--cnk_map CNK_MAP': Chunking. (line 4214)
-* '--cnk_plc': Chunking. (line 4127)
-* '--cnk_scl': Chunking. (line 4127)
+ (line 9584)
+* '--cell_methods': CF Conventions. (line 5577)
+* '--chunk_byte': Chunking. (line 4132)
+* '--chunk_dimension': Chunking. (line 4132)
+* '--chunk_map': Chunking. (line 4132)
+* '--chunk_min': Chunking. (line 4132)
+* '--chunk_policy': Chunking. (line 4132)
+* '--chunk_scalar': Chunking. (line 4132)
+* '--cll_mth': CF Conventions. (line 5577)
+* '--cnk_byt': Chunking. (line 4132)
+* '--cnk_dmn': Chunking. (line 4132)
+* '--cnk_map': Chunking. (line 4132)
+* '--cnk_map CNK_MAP': Chunking. (line 4239)
+* '--cnk_min': Chunking. (line 4132)
+* '--cnk_plc': Chunking. (line 4132)
+* '--cnk_scl': Chunking. (line 4132)
* '--coords': Subsetting Coordinate Variables.
- (line 2661)
-* '--coords' <1>: CF Conventions. (line 5510)
+ (line 2665)
+* '--coords' <1>: CF Conventions. (line 5566)
* '--crd': Subsetting Coordinate Variables.
- (line 2661)
-* '--crd' <1>: CF Conventions. (line 5510)
+ (line 2665)
+* '--crd' <1>: CF Conventions. (line 5566)
* '--create_ram': Temporary Output Files.
(line 962)
-* '--create_ram' <1>: RAM disks. (line 4487)
+* '--create_ram' <1>: RAM disks. (line 4543)
* '--data': ncks netCDF Kitchen Sink.
- (line 9567)
+ (line 9632)
* '--dbg_lvl DEBUG-LEVEL': Help Requests and Bug Reports.
(line 877)
* '--dbg_lvl DEBUG-LEVEL' <1>: Large Datasets. (line 1340)
* '--dbg_lvl DEBUG-LEVEL' <2>: Command Line Options.
- (line 1626)
+ (line 1628)
* '--dbl': Promoting Single-precision to Double.
- (line 5000)
+ (line 5056)
* '--debug-level DEBUG-LEVEL': Help Requests and Bug Reports.
(line 877)
* '--debug-level DEBUG-LEVEL' <1>: Large Datasets. (line 1340)
-* '--deflate': Deflation. (line 4349)
-* '--dfl_lvl': Deflation. (line 4349)
-* '--dimension DIM,[MIN],[MAX],STRIDE': Stride. (line 3277)
+* '--deflate': Deflation. (line 4405)
+* '--dfl_lvl': Deflation. (line 4405)
+* '--dimension DIM,[MIN],[MAX],STRIDE': Stride. (line 3282)
* '--dimension DIM,[MIN],[MAX],[STRIDE],[SUBCYCLE]': Subcycle.
- (line 3389)
-* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3159)
+ (line 3394)
+* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3163)
* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs.
- (line 3465)
+ (line 3470)
* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]' <2>: Wrapped Coordinates.
- (line 3609)
+ (line 3614)
* '--dimension DIM,[MIN][,[MAX][,[STRIDE]]]' <3>: UDUnits Support.
- (line 3769)
+ (line 3774)
* '--diskless_all': Memory Requirements.
(line 1351)
-* '--diskless_all' <1>: RAM disks. (line 4487)
-* '--dmn DIM,[MIN],[MAX],STRIDE': Stride. (line 3277)
-* '--dmn DIM,[MIN],[MAX],[STRIDE],SUBCYCLE]': Subcycle. (line 3389)
-* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3159)
-* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs. (line 3465)
+* '--diskless_all' <1>: RAM disks. (line 4543)
+* '--dmn DIM,[MIN],[MAX],STRIDE': Stride. (line 3282)
+* '--dmn DIM,[MIN],[MAX],[STRIDE],SUBCYCLE]': Subcycle. (line 3394)
+* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3163)
+* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs. (line 3470)
* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]' <2>: Wrapped Coordinates.
- (line 3609)
+ (line 3614)
* '--dmn DIM,[MIN][,[MAX][,[STRIDE]]]' <3>: UDUnits Support.
- (line 3769)
+ (line 3774)
* '--ensemble_file': nces netCDF Ensemble Statistics.
- (line 8920)
+ (line 8985)
* '--ensemble_group': nces netCDF Ensemble Statistics.
- (line 8920)
+ (line 8985)
* '--ensemble_suffix': nces netCDF Ensemble Statistics.
- (line 8920)
-* '--exclude': Subsetting Files. (line 2403)
+ (line 8985)
+* '--exclude': Subsetting Files. (line 2407)
* '--exclude' <1>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* '--file_format': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--file_list': File List Attributes.
- (line 5401)
-* '--fix_rec_dmn all': Autoconversion. (line 2334)
+ (line 5457)
+* '--fix_rec_dmn all': Autoconversion. (line 2338)
* '--fix_rec_dmn DIM': ncks netCDF Kitchen Sink.
- (line 9480)
+ (line 9545)
* '--flt': Promoting Single-precision to Double.
- (line 5000)
+ (line 5056)
* '--fl_bnr': ncks netCDF Kitchen Sink.
- (line 9464)
+ (line 9529)
* '--fl_fmt': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--fl_lst_in': File List Attributes.
- (line 5401)
+ (line 5457)
* '--fl_out FL_OUT': Specifying Output Files.
- (line 1790)
+ (line 1792)
* '--fl_spt': ncap2 netCDF Arithmetic Processor.
- (line 5645)
+ (line 5701)
* '--fnc_tbl': Intrinsic mathematical methods.
- (line 8185)
+ (line 8241)
* '--fortran': C and Fortran Index Conventions.
- (line 3122)
+ (line 3126)
* '--gag': ncecat netCDF Ensemble Concatenator.
- (line 9092)
-* '--gag' <1>: Combine Files. (line 11404)
+ (line 9157)
+* '--gag' <1>: Combine Files. (line 11510)
* '--glb_mtd_spp': ncecat netCDF Ensemble Concatenator.
- (line 9118)
+ (line 9183)
* '--gpe GPE_DSC': Group Path Editing.
- (line 2688)
-* '--group GRP': Subsetting Files. (line 2403)
-* '--grp GRP': Subsetting Files. (line 2403)
-* '--grp_xtr_var_xcl': Subsetting Files. (line 2403)
-* '--gxvx': Subsetting Files. (line 2403)
+ (line 2692)
+* '--group GRP': Subsetting Files. (line 2407)
+* '--grp GRP': Subsetting Files. (line 2407)
+* '--grp_xtr_var_xcl': Subsetting Files. (line 2407)
+* '--gxvx': Subsetting Files. (line 2407)
* '--hdf4': netCDF2/3/4 and HDF4/5 Support.
(line 679)
-* '--hdf_unpack': Packed data. (line 4574)
-* '--hdf_upk': Packed data. (line 4574)
+* '--hdf_unpack': Packed data. (line 4630)
+* '--hdf_upk': Packed data. (line 4630)
* '--hdn': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '--hdr_pad HDR_PAD': Metadata Optimization.
(line 1524)
* '--header_pad HDR_PAD': Metadata Optimization.
(line 1524)
* '--hidden': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '--hieronymus': ncks netCDF Kitchen Sink.
- (line 9567)
-* '--history': History Attribute. (line 5373)
-* '--hst': History Attribute. (line 5373)
-* '--intersection': Subsetting Files. (line 2509)
-* '--lcl OUTPUT-PATH': Remote storage. (line 1822)
-* '--local OUTPUT-PATH': Remote storage. (line 1822)
-* '--map CNK_MAP': Chunking. (line 4214)
+ (line 9632)
+* '--history': History Attribute. (line 5429)
+* '--hst': History Attribute. (line 5429)
+* '--intersection': Subsetting Files. (line 2513)
+* '--lcl OUTPUT-PATH': Remote storage. (line 1824)
+* '--local OUTPUT-PATH': Remote storage. (line 1824)
+* '--map CNK_MAP': Chunking. (line 4239)
* '--map PCK_MAP': ncpdq netCDF Permute Dimensions Quickly.
- (line 10157)
-* '--mask-value MASK_VAL': Mask condition. (line 10866)
+ (line 10222)
+* '--mask-value MASK_VAL': Mask condition. (line 10972)
* '--mask-variable MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10798)
-* '--mask_comparator MASK_COMP': Mask condition. (line 10852)
+ (line 10904)
+* '--mask_comparator MASK_COMP': Mask condition. (line 10958)
* '--mask_condition MASK_COND': ncwa netCDF Weighted Averager.
- (line 10798)
-* '--mask_condition MASK_COND' <1>: Mask condition. (line 10852)
-* '--mask_value MASK_VAL': Mask condition. (line 10866)
+ (line 10904)
+* '--mask_condition MASK_COND' <1>: Mask condition. (line 10958)
+* '--mask_value MASK_VAL': Mask condition. (line 10972)
* '--mask_variable MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10798)
-* '--md5_dgs': MD5 digests. (line 4386)
-* '--md5_digest': MD5 digests. (line 4386)
-* '--md5_write_attribute': MD5 digests. (line 4386)
-* '--md5_wrt_att': MD5 digests. (line 4386)
+ (line 10904)
+* '--md5_dgs': MD5 digests. (line 4442)
+* '--md5_digest': MD5 digests. (line 4442)
+* '--md5_write_attribute': MD5 digests. (line 4442)
+* '--md5_wrt_att': MD5 digests. (line 4442)
* '--Metadata': ncks netCDF Kitchen Sink.
- (line 9612)
+ (line 9677)
* '--metadata': ncks netCDF Kitchen Sink.
- (line 9655)
+ (line 9720)
* '--mk_rec_dmn DIM': ncecat netCDF Ensemble Concatenator.
- (line 9177)
+ (line 9242)
* '--mk_rec_dmn DIM' <1>: ncks netCDF Kitchen Sink.
- (line 9559)
+ (line 9624)
* '--mrd': Multiple Record Dimensions.
- (line 3976)
-* '--mro': Subcycle. (line 3389)
-* '--msa': Multislabs. (line 3465)
-* '--msa_user_order': Multislabs. (line 3465)
-* '--msa_usr_rdr': Multislabs. (line 3465)
-* '--msk_cmp_typ MASK_COMP': Mask condition. (line 10852)
+ (line 3981)
+* '--mro': Subcycle. (line 3394)
+* '--msa': Multislabs. (line 3470)
+* '--msa_user_order': Multislabs. (line 3470)
+* '--msa_usr_rdr': Multislabs. (line 3470)
+* '--msk_cmp_typ MASK_COMP': Mask condition. (line 10958)
* '--msk_cnd MASK_COND': ncwa netCDF Weighted Averager.
- (line 10798)
-* '--msk_cnd_sng MASK_COND': Mask condition. (line 10852)
+ (line 10904)
+* '--msk_cnd_sng MASK_COND': Mask condition. (line 10958)
* '--msk_nm MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10798)
-* '--msk_val MASK_VAL': Mask condition. (line 10866)
+ (line 10904)
+* '--msk_val MASK_VAL': Mask condition. (line 10972)
* '--msk_var MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10798)
+ (line 10904)
* '--Mtd': ncks netCDF Kitchen Sink.
- (line 9612)
+ (line 9677)
* '--mtd': ncks netCDF Kitchen Sink.
- (line 9655)
+ (line 9720)
* '--multiple_record_dimensions': Multiple Record Dimensions.
- (line 3976)
+ (line 3981)
* '--ncml': ncks netCDF Kitchen Sink.
- (line 9739)
+ (line 9804)
* '--netcdf4': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '--nintap LOOP': Specifying Input Files.
- (line 1682)
+ (line 1684)
* '--no-blank': ncks netCDF Kitchen Sink.
- (line 9668)
+ (line 9733)
* '--no-coords': Subsetting Coordinate Variables.
- (line 2661)
-* '--no-coords' <1>: CF Conventions. (line 5510)
+ (line 2665)
+* '--no-coords' <1>: CF Conventions. (line 5566)
* '--no-crd': Subsetting Coordinate Variables.
- (line 2661)
-* '--no-crd' <1>: CF Conventions. (line 5510)
+ (line 2665)
+* '--no-crd' <1>: CF Conventions. (line 5566)
* '--noblank': ncks netCDF Kitchen Sink.
- (line 9668)
+ (line 9733)
* '--no_blank': ncks netCDF Kitchen Sink.
- (line 9668)
+ (line 9733)
* '--no_blank' <1>: Filters for 'ncks'.
- (line 9978)
-* '--no_cell_methods': CF Conventions. (line 5521)
-* '--no_cll_mth': CF Conventions. (line 5521)
+ (line 10043)
+* '--no_cell_methods': CF Conventions. (line 5577)
+* '--no_cll_mth': CF Conventions. (line 5577)
* '--no_dmn_var_nm': ncks netCDF Kitchen Sink.
- (line 9728)
+ (line 9793)
* '--no_dmn_var_nm' <1>: Filters for 'ncks'.
- (line 9990)
+ (line 10055)
* '--no_nm_prn': ncks netCDF Kitchen Sink.
- (line 9728)
+ (line 9793)
* '--no_nm_prn' <1>: Filters for 'ncks'.
- (line 9990)
+ (line 10055)
* '--no_rec_dmn DIM': ncks netCDF Kitchen Sink.
- (line 9480)
+ (line 9545)
* '--no_tmp_fl': Temporary Output Files.
(line 962)
-* '--no_tmp_fl' <1>: RAM disks. (line 4567)
+* '--no_tmp_fl' <1>: RAM disks. (line 4623)
* '--nsm_fl': nces netCDF Ensemble Statistics.
- (line 8920)
+ (line 8985)
* '--nsm_grp': nces netCDF Ensemble Statistics.
- (line 8920)
+ (line 8985)
* '--nsm_sfx': nces netCDF Ensemble Statistics.
- (line 8920)
-* '--nsx': Subsetting Files. (line 2509)
-* '--omp_num_threads THR_NBR': OpenMP Threading. (line 1545)
+ (line 8985)
+* '--nsx': Subsetting Files. (line 2513)
+* '--omp_num_threads THR_NBR': OpenMP Threading. (line 1547)
* '--open_ram': Temporary Output Files.
(line 962)
* '--open_ram' <1>: Memory Requirements.
(line 1351)
-* '--open_ram' <2>: RAM disks. (line 4487)
-* '--operation OP_TYP': Operation Types. (line 4711)
+* '--open_ram' <2>: RAM disks. (line 4543)
+* '--operation OP_TYP': Operation Types. (line 4767)
* '--operation OP_TYP' <1>: ncbo netCDF Binary Operator.
- (line 8628)
-* '--op_rlt MASK_COMP': Mask condition. (line 10852)
-* '--op_typ OP_TYP': Operation Types. (line 4711)
+ (line 8693)
+* '--op_rlt MASK_COMP': Mask condition. (line 10958)
+* '--op_typ OP_TYP': Operation Types. (line 4767)
* '--op_typ OP_TYP' <1>: ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* '--orphan_dimensions': ncks netCDF Kitchen Sink.
- (line 9702)
+ (line 9767)
* '--output FL_OUT': Specifying Output Files.
- (line 1790)
+ (line 1792)
* '--overwrite': Temporary Output Files.
(line 1004)
-* '--overwrite' <1>: Batch Mode. (line 5353)
+* '--overwrite' <1>: Batch Mode. (line 5409)
* '--ovr': Temporary Output Files.
(line 1004)
-* '--ovr' <1>: Batch Mode. (line 5353)
+* '--ovr' <1>: Batch Mode. (line 5409)
* '--pack_policy PCK_PLC': ncpdq netCDF Permute Dimensions Quickly.
- (line 10090)
+ (line 10155)
* '--path INPUT-PATH': Specifying Input Files.
- (line 1682)
-* '--path INPUT-PATH' <1>: Remote storage. (line 1822)
+ (line 1684)
+* '--path INPUT-PATH' <1>: Remote storage. (line 1824)
* '--pck_map PCK_MAP': ncpdq netCDF Permute Dimensions Quickly.
- (line 10157)
+ (line 10222)
* '--pck_plc PCK_PLC': ncpdq netCDF Permute Dimensions Quickly.
- (line 10090)
+ (line 10155)
* '--print': ncks netCDF Kitchen Sink.
- (line 9676)
+ (line 9741)
* '--prn': ncks netCDF Kitchen Sink.
- (line 9676)
+ (line 9741)
* '--prn_fnc_tbl': Intrinsic mathematical methods.
- (line 8185)
+ (line 8241)
* '--pseudonym': Symbolic Links. (line 539)
* '--pth INPUT-PATH': Specifying Input Files.
- (line 1682)
-* '--pth INPUT-PATH' <1>: Remote storage. (line 1822)
+ (line 1684)
+* '--pth INPUT-PATH' <1>: Remote storage. (line 1824)
* '--quench': ncks netCDF Kitchen Sink.
- (line 9694)
+ (line 9759)
* '--quiet': ncks netCDF Kitchen Sink.
- (line 9682)
+ (line 9747)
* '--quiet' <1>: Filters for 'ncks'.
- (line 9990)
+ (line 10055)
* '--rad': ncks netCDF Kitchen Sink.
- (line 9702)
+ (line 9767)
* '--ram_all': Memory Requirements.
(line 1351)
-* '--ram_all' <1>: RAM disks. (line 4487)
+* '--ram_all' <1>: RAM disks. (line 4543)
* '--rcd_nm ULM_NM': ncecat netCDF Ensemble Concatenator.
- (line 9067)
-* '--record_append': Record Appending. (line 3338)
-* '--rec_apn': Record Appending. (line 3338)
+ (line 9132)
+* '--record_append': Record Appending. (line 3343)
+* '--rec_apn': Record Appending. (line 3343)
* '--retain': Retaining Retrieved Files.
- (line 2076)
+ (line 2078)
* '--retain_all_dimensions': ncks netCDF Kitchen Sink.
- (line 9702)
+ (line 9767)
* '--revision': Help Requests and Bug Reports.
(line 877)
-* '--revision' <1>: Operator Version. (line 5595)
+* '--revision' <1>: Operator Version. (line 5651)
* '--rph_dmn': ncks netCDF Kitchen Sink.
- (line 9702)
+ (line 9767)
* '--rth_dbl': Promoting Single-precision to Double.
- (line 5000)
+ (line 5056)
* '--rth_flt': Promoting Single-precision to Double.
- (line 5000)
+ (line 5056)
* '--rtn': Retaining Retrieved Files.
- (line 2076)
+ (line 2078)
* '--scr': ncks netCDF Kitchen Sink.
- (line 9717)
+ (line 9782)
* '--script': ncap2 netCDF Arithmetic Processor.
- (line 5645)
+ (line 5701)
* '--script-file': ncap2 netCDF Arithmetic Processor.
- (line 5645)
+ (line 5701)
* '--secret': ncks netCDF Kitchen Sink.
- (line 9717)
+ (line 9782)
* '--sng_fmt': ncks netCDF Kitchen Sink.
- (line 9713)
+ (line 9778)
* '--sng_fmt' <1>: Filters for 'ncks'.
- (line 9951)
+ (line 10016)
* '--spt': ncap2 netCDF Arithmetic Processor.
- (line 5645)
+ (line 5701)
* '--ssh': ncks netCDF Kitchen Sink.
- (line 9717)
+ (line 9782)
* '--string': ncks netCDF Kitchen Sink.
- (line 9713)
+ (line 9778)
* '--string' <1>: Filters for 'ncks'.
- (line 9951)
-* '--threads THR_NBR': OpenMP Threading. (line 1545)
-* '--thr_nbr THR_NBR': OpenMP Threading. (line 1545)
+ (line 10016)
+* '--threads THR_NBR': OpenMP Threading. (line 1547)
+* '--thr_nbr THR_NBR': OpenMP Threading. (line 1547)
* '--ulm_nm ULM_NM': ncecat netCDF Ensemble Concatenator.
- (line 9067)
-* '--union': Subsetting Files. (line 2403)
-* '--union' <1>: Subsetting Files. (line 2509)
+ (line 9132)
+* '--union': Subsetting Files. (line 2407)
+* '--union' <1>: Subsetting Files. (line 2513)
* '--units': ncks netCDF Kitchen Sink.
- (line 9724)
-* '--unn': Subsetting Files. (line 2403)
-* '--unn' <1>: Subsetting Files. (line 2509)
+ (line 9789)
+* '--unn': Subsetting Files. (line 2407)
+* '--unn' <1>: Subsetting Files. (line 2513)
* '--unpack': ncpdq netCDF Permute Dimensions Quickly.
- (line 10141)
+ (line 10206)
* '--upk': ncpdq netCDF Permute Dimensions Quickly.
- (line 10141)
-* '--variable VAR': Subsetting Files. (line 2403)
+ (line 10206)
+* '--variable VAR': Subsetting Files. (line 2407)
* '--variable VAR' <1>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* '--var_val': ncks netCDF Kitchen Sink.
- (line 9728)
+ (line 9793)
* '--var_val' <1>: Filters for 'ncks'.
- (line 9990)
+ (line 10055)
* '--version': Help Requests and Bug Reports.
(line 877)
-* '--version' <1>: Operator Version. (line 5595)
+* '--version' <1>: Operator Version. (line 5651)
* '--vrs': Help Requests and Bug Reports.
(line 877)
-* '--vrs' <1>: Operator Version. (line 5595)
+* '--vrs' <1>: Operator Version. (line 5651)
* '--weight WEIGHT': ncwa netCDF Weighted Averager.
- (line 10798)
+ (line 10904)
* '--weight WGT1[,WGT2]': ncflint netCDF File Interpolator.
- (line 9217)
+ (line 9282)
* '--wgt_var WEIGHT': ncwa netCDF Weighted Averager.
- (line 10798)
+ (line 10904)
* '--wgt_var WGT1[,WGT2]': ncflint netCDF File Interpolator.
- (line 9217)
+ (line 9282)
* '--write_tmp_fl': Temporary Output Files.
(line 962)
* '--wrt_tmp_fl': Temporary Output Files.
(line 962)
-* '--xcl': Subsetting Files. (line 2403)
+* '--xcl': Subsetting Files. (line 2407)
* '--xcl' <1>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* '--xml': ncks netCDF Kitchen Sink.
- (line 9739)
+ (line 9804)
* '--xml_no_location': ncks netCDF Kitchen Sink.
- (line 9769)
+ (line 9834)
* '--xml_spr_chr': ncks netCDF Kitchen Sink.
- (line 9769)
+ (line 9834)
* '--xml_spr_nmr': ncks netCDF Kitchen Sink.
- (line 9769)
-* '-0': Hyperslabs. (line 3159)
+ (line 9834)
+* '-0': Hyperslabs. (line 3163)
* '-3': netCDF2/3/4 and HDF4/5 Support.
(line 672)
* '-3' <1>: File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '-4': netCDF2/3/4 and HDF4/5 Support.
(line 672)
* '-4' <1>: File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '-5': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '-5' <1>: ncks netCDF Kitchen Sink.
- (line 9447)
+ (line 9512)
* '-6': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '-7': File Formats and Conversion.
- (line 2116)
+ (line 2118)
* '-A': Temporary Output Files.
(line 1004)
-* '-A' <1>: Batch Mode. (line 5353)
+* '-A' <1>: Batch Mode. (line 5409)
* '-a': ncks netCDF Kitchen Sink.
- (line 9454)
+ (line 9519)
* '-a' <1>: Filters for 'ncks'.
- (line 9918)
+ (line 9983)
* '-A' <2>: Filters for 'ncks'.
- (line 9930)
+ (line 9995)
* '-A' <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10273)
-* '-b': Examples ncap2. (line 8056)
+ (line 10338)
+* '-b': Examples ncap2. (line 8112)
* '-b' <1>: ncbo netCDF Binary Operator.
- (line 8726)
+ (line 8791)
* '-b' <2>: ncks netCDF Kitchen Sink.
- (line 9464)
+ (line 9529)
* '-B MASK_COND': ncwa netCDF Weighted Averager.
- (line 10798)
-* '-B MASK_COND' <1>: Mask condition. (line 10852)
+ (line 10904)
+* '-B MASK_COND' <1>: Mask condition. (line 10958)
* '-C': Subsetting Coordinate Variables.
- (line 2661)
+ (line 2665)
* '-c': Subsetting Coordinate Variables.
- (line 2661)
-* '-C' <1>: CF Conventions. (line 5510)
-* '-c' <1>: CF Conventions. (line 5510)
-* '-C' <2>: Examples ncap2. (line 8068)
+ (line 2665)
+* '-C' <1>: CF Conventions. (line 5566)
+* '-c' <1>: CF Conventions. (line 5566)
+* '-C' <2>: Examples ncap2. (line 8124)
* '-D': Help Requests and Bug Reports.
(line 862)
* '-D DEBUG-LEVEL': Help Requests and Bug Reports.
(line 877)
* '-D DEBUG-LEVEL' <1>: Large Datasets. (line 1340)
* '-D DEBUG-LEVEL' <2>: Command Line Options.
- (line 1626)
-* '-d DIM,[MIN],[MAX],STRIDE': Stride. (line 3277)
-* '-d DIM,[MIN],[MAX],[STRIDE],[SUBCYCLE]': Subcycle. (line 3389)
-* '-d DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3159)
-* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs. (line 3465)
+ (line 1628)
+* '-d DIM,[MIN],[MAX],STRIDE': Stride. (line 3282)
+* '-d DIM,[MIN],[MAX],[STRIDE],[SUBCYCLE]': Subcycle. (line 3394)
+* '-d DIM,[MIN][,[MAX][,[STRIDE]]]': Hyperslabs. (line 3163)
+* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <1>: Multislabs. (line 3470)
* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <2>: Wrapped Coordinates.
- (line 3609)
-* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <3>: UDUnits Support. (line 3769)
+ (line 3614)
+* '-d DIM,[MIN][,[MAX][,[STRIDE]]]' <3>: UDUnits Support. (line 3774)
* '-d DIM,[MIN][,[MAX]]': ncwa netCDF Weighted Averager.
- (line 10790)
+ (line 10896)
* '-F': C and Fortran Index Conventions.
- (line 3122)
+ (line 3126)
* '-f': Intrinsic mathematical methods.
- (line 8185)
+ (line 8241)
* '-G GPE_DSC': Group Path Editing.
- (line 2688)
-* '-g GRP': Subsetting Files. (line 2403)
-* '-h': History Attribute. (line 5373)
+ (line 2692)
+* '-g GRP': Subsetting Files. (line 2407)
+* '-h': History Attribute. (line 5429)
* '-H': File List Attributes.
- (line 5401)
+ (line 5457)
* '-h' <1>: ncatted netCDF Attribute Editor.
- (line 8332)
+ (line 8388)
* '-H' <1>: ncks netCDF Kitchen Sink.
- (line 9567)
+ (line 9632)
* '-I': ncwa netCDF Weighted Averager.
- (line 10826)
-* '-L': Deflation. (line 4349)
-* '-l OUTPUT-PATH': Remote storage. (line 1822)
-* '-l OUTPUT-PATH' <1>: Remote storage. (line 1885)
+ (line 10932)
+* '-L': Deflation. (line 4405)
+* '-l OUTPUT-PATH': Remote storage. (line 1824)
+* '-l OUTPUT-PATH' <1>: Remote storage. (line 1887)
* '-M': Determining File Format.
- (line 2202)
+ (line 2204)
* '-M' <1>: ncecat netCDF Ensemble Concatenator.
- (line 9118)
+ (line 9183)
* '-M' <2>: ncks netCDF Kitchen Sink.
- (line 9612)
+ (line 9677)
* '-m': ncks netCDF Kitchen Sink.
- (line 9655)
-* '-M CNK_MAP': Chunking. (line 4214)
+ (line 9720)
+* '-M CNK_MAP': Chunking. (line 4239)
* '-m MASK_VAR': ncwa netCDF Weighted Averager.
- (line 10798)
+ (line 10904)
* '-M PCK_MAP': ncpdq netCDF Permute Dimensions Quickly.
- (line 10157)
+ (line 10222)
* '-N': Normalization and Integration.
- (line 10881)
+ (line 10987)
* '-n LOOP': Large Numbers of Files.
(line 1206)
* '-n LOOP' <1>: Large Numbers of Files.
(line 1276)
* '-n LOOP' <2>: Specifying Input Files.
- (line 1682)
+ (line 1684)
* '-O': Temporary Output Files.
(line 1004)
-* '-O' <1>: Batch Mode. (line 5353)
+* '-O' <1>: Batch Mode. (line 5409)
* '-o FL_OUT': Large Numbers of Files.
(line 1260)
* '-o FL_OUT' <1>: Specifying Output Files.
- (line 1790)
+ (line 1792)
* '-P': ncks netCDF Kitchen Sink.
- (line 9676)
+ (line 9741)
* '-p INPUT-PATH': Specifying Input Files.
- (line 1682)
-* '-p INPUT-PATH' <1>: Remote storage. (line 1885)
+ (line 1684)
+* '-p INPUT-PATH' <1>: Remote storage. (line 1887)
* '-P PCK_PLC': ncpdq netCDF Permute Dimensions Quickly.
- (line 10090)
+ (line 10155)
* '-Q': ncks netCDF Kitchen Sink.
- (line 9682)
+ (line 9747)
* '-q': ncks netCDF Kitchen Sink.
- (line 9694)
+ (line 9759)
* '-Q' <1>: Filters for 'ncks'.
- (line 9990)
+ (line 10055)
* '-r': Help Requests and Bug Reports.
(line 862)
* '-r' <1>: Help Requests and Bug Reports.
(line 877)
* '-R': Retaining Retrieved Files.
- (line 2076)
-* '-r' <2>: Operator Version. (line 5595)
+ (line 2078)
+* '-r' <2>: Operator Version. (line 5651)
* '-s': ncks netCDF Kitchen Sink.
- (line 9713)
+ (line 9778)
* '-s' <1>: Filters for 'ncks'.
- (line 9951)
+ (line 10016)
* '-t THR_NBR': Single and Multi-file Operators.
(line 1434)
-* '-t THR_NBR' <1>: OpenMP Threading. (line 1545)
+* '-t THR_NBR' <1>: OpenMP Threading. (line 1547)
* '-u': ncks netCDF Kitchen Sink.
- (line 9724)
+ (line 9789)
* '-U': ncpdq netCDF Permute Dimensions Quickly.
- (line 10141)
+ (line 10206)
* '-u ULM_NM': ncecat netCDF Ensemble Concatenator.
- (line 9067)
+ (line 9132)
* '-V': ncks netCDF Kitchen Sink.
- (line 9728)
+ (line 9793)
* '-V' <1>: Filters for 'ncks'.
- (line 9990)
+ (line 10055)
* '-v': ncpdq netCDF Permute Dimensions Quickly.
- (line 10273)
-* '-v VAR': Subsetting Files. (line 2403)
+ (line 10338)
+* '-v VAR': Subsetting Files. (line 2407)
* '-v VAR' <1>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* '-w WEIGHT': ncwa netCDF Weighted Averager.
- (line 10798)
+ (line 10904)
* '-w WGT1[,WGT2]': ncflint netCDF File Interpolator.
- (line 9217)
-* '-x': Subsetting Files. (line 2403)
+ (line 9282)
+* '-x': Subsetting Files. (line 2407)
* '-X': Auxiliary Coordinates.
- (line 3659)
+ (line 3664)
* '-x' <1>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* '-X LON_MIN,LON_MAX,LAT_MIN,LAT_MAX': Auxiliary Coordinates.
- (line 3659)
-* '-y OP_TYP': Operation Types. (line 4711)
+ (line 3664)
+* '-y OP_TYP': Operation Types. (line 4767)
* '-y OP_TYP' <1>: ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* '.': ncrename netCDF Renamer.
- (line 10594)
-* '.' (wildcard character): Subsetting Files. (line 2584)
+ (line 10659)
+* '.' (wildcard character): Subsetting Files. (line 2588)
* '.bashrc': Filters for 'ncks'.
- (line 9823)
-* '.netrc': Remote storage. (line 1822)
-* '.rhosts': Remote storage. (line 1822)
+ (line 9888)
+* '.netrc': Remote storage. (line 1824)
+* '.rhosts': Remote storage. (line 1824)
* '/': ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* '/' (division): Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* '/*...*/' (comment): Syntax of ncap2 statements.
- (line 5704)
+ (line 5760)
* '//' (comment): Syntax of ncap2 statements.
- (line 5704)
+ (line 5760)
* '0' (NUL): ncatted netCDF Attribute Editor.
- (line 8505)
+ (line 8570)
* 32-bit offset file format: Determining File Format.
- (line 2202)
+ (line 2204)
* 64-bit offset file format: Determining File Format.
- (line 2202)
+ (line 2204)
* '64BIT' files: File Formats and Conversion.
- (line 2116)
-* ':' (separator character): Flattening Groups. (line 2729)
+ (line 2118)
+* ':' (separator character): Flattening Groups. (line 2733)
* ';' (end of statement): Syntax of ncap2 statements.
- (line 5702)
+ (line 5758)
* '<arpa/nameser.h>': Windows Operating System.
(line 507)
* '<resolv.h>': Windows Operating System.
(line 507)
-* '?' (filename expansion): Subsetting Files. (line 2584)
+* '?' (filename expansion): Subsetting Files. (line 2588)
* '?' (question mark): ncatted netCDF Attribute Editor.
- (line 8496)
-* '?' (wildcard character): Subsetting Files. (line 2591)
+ (line 8561)
+* '?' (wildcard character): Subsetting Files. (line 2595)
* '@' (attribute): Syntax of ncap2 statements.
- (line 5712)
-* '@' (separator character): Flattening Groups. (line 2729)
+ (line 5768)
+* '@' (separator character): Flattening Groups. (line 2733)
* '[]' (array delimiters): Syntax of ncap2 statements.
- (line 5696)
+ (line 5752)
* '\' (backslash): ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* '\"' (protected double quote): ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* '\'' (protected end quote): ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* '\?' (protected question mark): ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* '\a' (ASCII BEL, bell): ncatted netCDF Attribute Editor.
- (line 8491)
+ (line 8556)
* '\b' (ASCII BS, backspace): ncatted netCDF Attribute Editor.
- (line 8491)
+ (line 8556)
* '\f' (ASCII FF, formfeed): ncatted netCDF Attribute Editor.
- (line 8491)
+ (line 8556)
* '\n' (ASCII LF, linefeed): ncatted netCDF Attribute Editor.
- (line 8481)
+ (line 8546)
* '\n' (linefeed): Filters for 'ncks'.
- (line 9951)
+ (line 10016)
* '\r' (ASCII CR, carriage return): ncatted netCDF Attribute Editor.
- (line 8491)
+ (line 8556)
* '\t' (ASCII HT, horizontal tab): ncatted netCDF Attribute Editor.
- (line 8481)
+ (line 8546)
* '\t' (horizontal tab): Filters for 'ncks'.
- (line 9951)
+ (line 10016)
* '\v' (ASCII VT, vertical tab): ncatted netCDF Attribute Editor.
- (line 8491)
+ (line 8556)
* '\\' (ASCII \, backslash): ncatted netCDF Attribute Editor.
- (line 8491)
+ (line 8556)
* '\\' (protected backslash): ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* '^' (power): Intrinsic mathematical methods.
- (line 8078)
-* '^' (wildcard character): Subsetting Files. (line 2584)
+ (line 8134)
+* '^' (wildcard character): Subsetting Files. (line 2588)
* '_ChunkSizes': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '_DeflateLevel': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '_Endianness': ncks netCDF Kitchen Sink.
- (line 9505)
-* '_FillValue': Missing Values. (line 4014)
-* '_FillValue' <1>: Packed data. (line 4574)
+ (line 9570)
+* '_FillValue': Missing Values. (line 4019)
+* '_FillValue' <1>: Packed data. (line 4630)
* '_FillValue' <2>: ncatted netCDF Attribute Editor.
- (line 8337)
+ (line 8402)
* '_FillValue' <3>: ncflint netCDF File Interpolator.
- (line 9266)
+ (line 9331)
* _FILLVALUE: ncpdq netCDF Permute Dimensions Quickly.
- (line 10201)
+ (line 10266)
* '_FillValue' <4>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10201)
+ (line 10266)
* '_FillValue' <5>: ncrename netCDF Renamer.
- (line 10721)
+ (line 10825)
* '_Fletcher32': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '_Format': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '_NOFILL': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '_Shuffle': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '_SOURCE_FORMAT': ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* '_Storage': ncks netCDF Kitchen Sink.
- (line 9505)
-* '|' (wildcard character): Subsetting Files. (line 2591)
+ (line 9570)
+* '|' (wildcard character): Subsetting Files. (line 2595)
* ABS: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* absolute value: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* ACOS: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* ACOSH: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* 'add': ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* adding data: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* adding data <1>: ncflint netCDF File Interpolator.
- (line 9193)
+ (line 9258)
* addition: Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* addition <1>: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* addition <2>: ncflint netCDF File Interpolator.
- (line 9193)
+ (line 9258)
* ADD_OFFSET: Performance. (line 1487)
-* 'add_offset': Packed data. (line 4574)
+* 'add_offset': Packed data. (line 4630)
* 'add_offset' <1>: ncecat netCDF Ensemble Concatenator.
- (line 9140)
+ (line 9205)
* 'add_offset' <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10083)
+ (line 10148)
* 'add_offset' <3>: ncrcat netCDF Record Concatenator.
- (line 10531)
-* aggregation: Combine Files. (line 11404)
-* Aleksandar Jelenak: Contributors. (line 11090)
-* Alexander Hansen: Contributors. (line 11098)
+ (line 10596)
+* aggregation: Combine Files. (line 11510)
+* Aleksandar Jelenak: Contributors. (line 11196)
+* Alexander Hansen: Contributors. (line 11204)
* 'alias': ncbo netCDF Binary Operator.
- (line 8672)
+ (line 8737)
* alias: Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* 'alias' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10151)
-* 'all': Chunking. (line 4161)
+ (line 10216)
+* 'all': Chunking. (line 4186)
* alphabetization: ncks netCDF Kitchen Sink.
- (line 9454)
+ (line 9519)
* alphabetize output: Filters for 'ncks'.
- (line 9918)
+ (line 9983)
* alternate invocations: ncbo netCDF Binary Operator.
- (line 8628)
-* anchor: Subsetting Files. (line 2460)
-* anchoring: Subsetting Files. (line 2460)
-* ancillary variables convention: CF Conventions. (line 5500)
-* 'ancillary_variables': CF Conventions. (line 5500)
-* Andrea Cimatoribus: Contributors. (line 11104)
-* Andrew Wittenberg: Contributors. (line 11088)
+ (line 8693)
+* anchor: Subsetting Files. (line 2464)
+* anchoring: Subsetting Files. (line 2464)
+* ancillary variables convention: CF Conventions. (line 5556)
+* 'ancillary_variables': CF Conventions. (line 5556)
+* Andrea Cimatoribus: Contributors. (line 11210)
+* Andrew Wittenberg: Contributors. (line 11194)
* annual average: Annual Average over Regions.
- (line 11633)
+ (line 11737)
* annual average from daily data: Daily data in one file.
- (line 11179)
+ (line 11285)
* annual average from monthly data: Monthly data in one file.
- (line 11202)
+ (line 11308)
* anomalies: ncbo netCDF Binary Operator.
- (line 8710)
+ (line 8775)
* anomalies <1>: Annual Average over Regions.
- (line 11633)
-* anomalies <2>: Monthly Cycle. (line 11924)
+ (line 11737)
+* anomalies <2>: Monthly Cycle. (line 12028)
* ANSI: Compatability. (line 420)
* 'ANSI C': Intrinsic mathematical methods.
- (line 8184)
-* appending data: Examples ncap2. (line 8056)
+ (line 8240)
+* appending data: Examples ncap2. (line 8112)
* appending data <1>: ncks netCDF Kitchen Sink.
- (line 9395)
+ (line 9460)
* appending to files: Temporary Output Files.
(line 1004)
-* appending to files <1>: Batch Mode. (line 5353)
+* appending to files <1>: Batch Mode. (line 5409)
* appending to files <2>: Filters for 'ncks'.
- (line 9930)
+ (line 9995)
* appending variables: Temporary Output Files.
(line 1004)
* appending variables <1>: Appending Variables.
(line 1029)
* appending variables <2>: ncap2 netCDF Arithmetic Processor.
- (line 5660)
+ (line 5716)
* appending variables <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10273)
+ (line 10338)
* AR4: nces netCDF Ensemble Statistics.
- (line 8917)
+ (line 8982)
* arccosine function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* arcsine function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* arctangent function: Intrinsic mathematical methods.
- (line 8081)
-* 'area': CF Conventions. (line 5432)
+ (line 8137)
+* 'area': CF Conventions. (line 5488)
* area-averaging: Annual Average over Regions.
- (line 11633)
-* arithmetic operators: Missing Values. (line 4020)
-* arithmetic operators <1>: Missing Values. (line 4073)
+ (line 11737)
+* arithmetic operators: Missing Values. (line 4025)
+* arithmetic operators <1>: Missing Values. (line 4078)
* arithmetic operators <2>: ncwa netCDF Weighted Averager.
- (line 10790)
+ (line 10896)
* arithmetic processor: ncap2 netCDF Arithmetic Processor.
- (line 5627)
-* ARM conventions: ARM Conventions. (line 5564)
+ (line 5683)
+* ARM conventions: ARM Conventions. (line 5620)
* ARM conventions <1>: ncrcat netCDF Record Concatenator.
- (line 10544)
+ (line 10609)
* array: Arrays and hyperslabs.
- (line 5990)
+ (line 6046)
* 'array' function: Arrays and hyperslabs.
- (line 5990)
+ (line 6046)
* array indexing: Syntax of ncap2 statements.
- (line 5698)
+ (line 5754)
* array storage: Syntax of ncap2 statements.
- (line 5700)
+ (line 5756)
* array syntax: Syntax of ncap2 statements.
- (line 5696)
+ (line 5752)
* arrays: Arrays and hyperslabs.
- (line 5990)
+ (line 6046)
* arrival value: ncflint netCDF File Interpolator.
- (line 9233)
+ (line 9298)
* ASCII: ncatted netCDF Attribute Editor.
- (line 8479)
+ (line 8544)
* ASCII <1>: ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* ASIN: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* ASINH: Intrinsic mathematical methods.
- (line 8081)
-* 'asort': Sort methods. (line 6752)
+ (line 8137)
+* 'asort': Sort methods. (line 6808)
* assignment statement: Syntax of ncap2 statements.
- (line 5702)
-* asynchronous file access: Remote storage. (line 1822)
+ (line 5758)
+* asynchronous file access: Remote storage. (line 1824)
* ATAN: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* ATANH: Intrinsic mathematical methods.
- (line 8081)
-* attribute inheritance: Attributes. (line 6165)
+ (line 8137)
+* attribute inheritance: Attributes. (line 6221)
* attribute names: ncatted netCDF Attribute Editor.
- (line 8314)
+ (line 8370)
* attribute names <1>: ncrename netCDF Renamer.
- (line 10585)
-* attribute propagation: Attributes. (line 6165)
+ (line 10650)
+* attribute propagation: Attributes. (line 6221)
* attribute syntax: Syntax of ncap2 statements.
- (line 5712)
-* attribute, 'units': UDUnits Support. (line 3769)
+ (line 5768)
+* attribute, 'units': UDUnits Support. (line 3774)
* attributes: ncatted netCDF Attribute Editor.
- (line 8314)
+ (line 8370)
* attributes, appending: ncatted netCDF Attribute Editor.
- (line 8396)
+ (line 8461)
* attributes, creating: ncatted netCDF Attribute Editor.
- (line 8396)
+ (line 8461)
* attributes, deleting: ncatted netCDF Attribute Editor.
- (line 8396)
+ (line 8461)
* attributes, editing: ncatted netCDF Attribute Editor.
- (line 8396)
+ (line 8461)
* attributes, editing <1>: Annual Average over Regions.
- (line 11633)
-* attributes, editing <2>: Regrid MODIS Data. (line 12088)
+ (line 11737)
+* attributes, editing <2>: Regrid MODIS Data. (line 12192)
* attributes, global: Large Numbers of Files.
(line 1234)
-* attributes, global <1>: History Attribute. (line 5373)
+* attributes, global <1>: History Attribute. (line 5429)
* attributes, global <2>: File List Attributes.
- (line 5401)
-* attributes, global <3>: ARM Conventions. (line 5588)
+ (line 5457)
+* attributes, global <3>: ARM Conventions. (line 5644)
* attributes, global <4>: ncatted netCDF Attribute Editor.
- (line 8379)
+ (line 8444)
* attributes, global <5>: ncatted netCDF Attribute Editor.
- (line 8546)
+ (line 8611)
* attributes, global <6>: ncks netCDF Kitchen Sink.
- (line 9381)
+ (line 9446)
* attributes, global <7>: ncks netCDF Kitchen Sink.
- (line 9415)
+ (line 9480)
* attributes, global <8>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* attributes, global <9>: ncrename netCDF Renamer.
- (line 10641)
+ (line 10722)
* attributes, global <10>: ncrename netCDF Renamer.
- (line 10721)
+ (line 10825)
* attributes, modifying: ncatted netCDF Attribute Editor.
- (line 8396)
+ (line 8461)
* attributes, modifying <1>: Annual Average over Regions.
- (line 11633)
-* attributes, modifying <2>: Regrid MODIS Data. (line 12088)
+ (line 11737)
+* attributes, modifying <2>: Regrid MODIS Data. (line 12192)
* attributes, overwriting: ncatted netCDF Attribute Editor.
- (line 8396)
+ (line 8461)
* attributes, overwriting <1>: Annual Average over Regions.
- (line 11633)
-* attributes, overwriting <2>: Regrid MODIS Data. (line 12088)
-* attributes'ncap2': Attributes. (line 6132)
+ (line 11737)
+* attributes, overwriting <2>: Regrid MODIS Data. (line 12192)
+* attributes'ncap2': Attributes. (line 6188)
* 'autoconf': Help Requests and Bug Reports.
(line 885)
-* autoconversion: Autoconversion. (line 2307)
+* autoconversion: Autoconversion. (line 2311)
* automagic: Compatability. (line 460)
* automagic <1>: Large Numbers of Files.
(line 1207)
-* automatic type conversion: Type Conversion. (line 4864)
+* automatic type conversion: Type Conversion. (line 4920)
* automatic type conversion <1>: Intrinsic mathematical methods.
- (line 8151)
-* auxiliary coordinates: CF Conventions. (line 5510)
-* average: Operation Types. (line 4711)
+ (line 8207)
+* auxiliary coordinates: CF Conventions. (line 5566)
+* average: Operation Types. (line 4767)
* average <1>: ncwa netCDF Weighted Averager.
- (line 10834)
+ (line 10940)
* average <2>: Daily data in one file.
- (line 11165)
+ (line 11271)
* average <3>: Daily data in one file.
- (line 11179)
+ (line 11285)
* average <4>: Monthly data in one file.
- (line 11199)
+ (line 11305)
* average <5>: Monthly data in one file.
- (line 11202)
+ (line 11308)
* average <6>: One time point one file.
- (line 11228)
+ (line 11334)
* average <7>: Global Distribution of Long-term Average.
- (line 11530)
+ (line 11634)
* average <8>: Annual Average over Regions.
- (line 11633)
-* average <9>: Monthly Cycle. (line 11924)
-* averaging data: Missing Values. (line 4014)
+ (line 11737)
+* average <9>: Monthly Cycle. (line 12028)
+* averaging data: Missing Values. (line 4019)
* averaging data <1>: nces netCDF Ensemble Statistics.
- (line 8878)
+ (line 8943)
* averaging data <2>: ncra netCDF Record Averager.
- (line 10432)
+ (line 10497)
* averaging data <3>: ncwa netCDF Weighted Averager.
- (line 10758)
-* 'avg': Operation Types. (line 4711)
+ (line 10864)
+* 'avg': Operation Types. (line 4767)
* avg(): Methods and functions.
- (line 6433)
-* 'avgsqr': Operation Types. (line 4711)
-* Barry deFreese: Contributors. (line 11090)
-* 'base_time': ARM Conventions. (line 5564)
-* 'bash': Subsetting Files. (line 2636)
+ (line 6489)
+* 'avgsqr': Operation Types. (line 4767)
+* Barry deFreese: Contributors. (line 11196)
+* 'base_time': ARM Conventions. (line 5620)
+* 'bash': Subsetting Files. (line 2640)
* 'bash' <1>: Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* Bash shell: ncbo netCDF Binary Operator.
- (line 8657)
+ (line 8722)
* Bash Shell: ncbo netCDF Binary Operator.
- (line 8826)
+ (line 8891)
* Bash shell <1>: Filters for 'ncks'.
- (line 9823)
-* batch mode: Batch Mode. (line 5353)
+ (line 9888)
+* batch mode: Batch Mode. (line 5409)
* beer: Promoting Single-precision to Double.
- (line 5251)
-* benchmarks: OpenMP Threading. (line 1604)
+ (line 5307)
+* benchmarks: OpenMP Threading. (line 1606)
* Bessel function: GSL special functions.
- (line 7239)
-* bilinear interpolation: Regrid MODIS Data. (line 12088)
-* Bill Kocik: Contributors. (line 11074)
+ (line 7295)
+* bilinear interpolation: Regrid MODIS Data. (line 12192)
+* Bill Kocik: Contributors. (line 11180)
* binary format: ncks netCDF Kitchen Sink.
- (line 9464)
+ (line 9529)
* binary operations: Memory for ncap2. (line 1440)
* binary operations <1>: ncbo netCDF Binary Operator.
- (line 8610)
-* binary Operators: Expressions. (line 5799)
+ (line 8675)
+* binary Operators: Expressions. (line 5855)
* blank: ncks netCDF Kitchen Sink.
- (line 9668)
-* 'bounds': CF Conventions. (line 5487)
-* bounds convention: CF Conventions. (line 5487)
-* Bourne Shell: Stride. (line 3315)
+ (line 9733)
+* blocksize: Chunking. (line 4153)
+* 'bounds': CF Conventions. (line 5543)
+* bounds convention: CF Conventions. (line 5543)
+* Bourne Shell: Stride. (line 3320)
* Bourne Shell <1>: ncbo netCDF Binary Operator.
- (line 8826)
-* Brian Mays: Contributors. (line 11070)
+ (line 8891)
+* Brian Mays: Contributors. (line 11176)
* broadcasting: ncbo netCDF Binary Operator.
- (line 8763)
+ (line 8828)
* broadcasting groups: netCDF2/3/4 and HDF4/5 Support.
(line 666)
* broadcasting groups <1>: ncbo netCDF Binary Operator.
- (line 8742)
+ (line 8807)
* broadcasting groups <2>: ncbo netCDF Binary Operator.
- (line 8791)
-* broadcasting variables: Expressions. (line 5748)
+ (line 8856)
+* broadcasting variables: Expressions. (line 5804)
* broadcasting variables <1>: ncbo netCDF Binary Operator.
- (line 8699)
+ (line 8764)
* broadcasting variables <2>: ncbo netCDF Binary Operator.
- (line 8701)
+ (line 8766)
* broadcasting variables <3>: ncflint netCDF File Interpolator.
- (line 9331)
+ (line 9396)
* broadcasting variables <4>: ncwa netCDF Weighted Averager.
- (line 10758)
+ (line 10864)
* 'BSD': Command Line Options.
- (line 1623)
-* Buffer sizes: Buffer sizes. (line 4456)
+ (line 1625)
+* Buffer sizes: Buffer sizes. (line 4512)
* buffering: Performance. (line 1478)
* bugs, reporting: Help Requests and Bug Reports.
(line 822)
* byte(): Methods and functions.
- (line 6525)
+ (line 6581)
* C index convention: C and Fortran Index Conventions.
- (line 3122)
+ (line 3126)
* C language: Compatability. (line 442)
-* C language <1>: Missing Values. (line 4062)
+* C language <1>: Missing Values. (line 4067)
* C language <2>: Automatic type conversion.
- (line 4993)
+ (line 5049)
* C language <3>: Promoting Single-precision to Double.
- (line 5012)
+ (line 5068)
* C language <4>: Syntax of ncap2 statements.
- (line 5690)
-* C language <5>: Expressions. (line 5719)
+ (line 5746)
+* C language <5>: Expressions. (line 5775)
* C language <6>: ncatted netCDF Attribute Editor.
- (line 8505)
+ (line 8570)
* C language <7>: ncks netCDF Kitchen Sink.
- (line 9713)
-* C Shell: Stride. (line 3315)
+ (line 9778)
+* C Shell: Stride. (line 3320)
* C Shell <1>: ncbo netCDF Binary Operator.
- (line 8826)
+ (line 8891)
* 'c++': Compatability. (line 407)
* C++: Compatability. (line 412)
* C89: Compatability. (line 420)
@@ -13599,206 +13705,208 @@ General Index
* C99 <2>: Windows Operating System.
(line 495)
* CAM3: Promoting Single-precision to Double.
- (line 5151)
+ (line 5207)
* 'CC': Compatability. (line 407)
* 'cc': Compatability. (line 407)
* CCM Processor: Specifying Input Files.
- (line 1682)
+ (line 1684)
* CCM Processor <1>: ncra netCDF Record Averager.
- (line 10472)
+ (line 10537)
* CCM Processor <2>: ncrcat netCDF Record Concatenator.
- (line 10550)
+ (line 10615)
* CCSM: Proposals for Institutional Funding.
- (line 11135)
-* CCSM <1>: CCSM Example. (line 12327)
-* CCSM conventions: CF Conventions. (line 5432)
+ (line 11241)
+* CCSM <1>: CCSM Example. (line 12431)
+* CCSM conventions: CF Conventions. (line 5488)
* CDL: ncks netCDF Kitchen Sink.
- (line 9519)
+ (line 9584)
* CEIL: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* ceiling function: Intrinsic mathematical methods.
- (line 8081)
-* cell methods convention: CF Conventions. (line 5521)
+ (line 8137)
+* cell methods convention: CF Conventions. (line 5577)
* cell-based grids: Auxiliary Coordinates.
- (line 3676)
-* 'cell_methods': CF Conventions. (line 5521)
+ (line 3681)
+* 'cell_methods': CF Conventions. (line 5577)
* CF compliance checker: Checking CF-compliance.
- (line 2969)
+ (line 2973)
* CF conventions: Subsetting Coordinate Variables.
- (line 2677)
+ (line 2681)
* CF conventions <1>: Auxiliary Coordinates.
- (line 3659)
-* CF conventions <2>: UDUnits Support. (line 3867)
-* CF conventions <3>: CF Conventions. (line 5432)
+ (line 3664)
+* CF conventions <2>: UDUnits Support. (line 3872)
+* CF conventions <3>: CF Conventions. (line 5488)
* CF conventions <4>: ncbo netCDF Binary Operator.
- (line 8735)
+ (line 8800)
* cfchecker: Checking CF-compliance.
- (line 2969)
+ (line 2973)
* 'change_miss()': Missing values ncap2.
- (line 6370)
+ (line 6426)
* char(): Methods and functions.
- (line 6527)
+ (line 6583)
* characters, special: ncatted netCDF Attribute Editor.
- (line 8481)
+ (line 8546)
* Charlie Zender: Foreword. (line 208)
-* Charlie Zender <1>: Contributors. (line 11045)
-* chocolate: Contributing. (line 11024)
-* Chris Barker: Chunking. (line 4220)
+* Charlie Zender <1>: Contributors. (line 11151)
+* chocolate: Contributing. (line 11130)
+* Chris Barker: Chunking. (line 4245)
* chunking: netCDF2/3/4 and HDF4/5 Support.
(line 654)
-* chunking <1>: Chunking. (line 4127)
+* chunking <1>: Chunking. (line 4132)
* chunking <2>: ncks netCDF Kitchen Sink.
- (line 9659)
-* chunking map: Chunking. (line 4145)
-* chunking map <1>: Chunking. (line 4214)
-* chunking policy: Chunking. (line 4145)
-* chunksize: Chunking. (line 4145)
-* citation: Citation. (line 11116)
+ (line 9724)
+* chunking map: Chunking. (line 4153)
+* chunking map <1>: Chunking. (line 4239)
+* chunking policy: Chunking. (line 4153)
+* chunksize: Chunking. (line 4153)
+* citation: Citation. (line 11222)
* 'clang': Compatability. (line 407)
* 'CLASSIC' files: File Formats and Conversion.
- (line 2116)
-* client-server: OPeNDAP. (line 1936)
+ (line 2118)
+* client-server: OPeNDAP. (line 1938)
* Climate and Forecast Metadata Convention: UDUnits Support.
- (line 3867)
+ (line 3872)
* climate model: Philosophy. (line 904)
* climate model <1>: Climate Model Paradigm.
(line 930)
* climate model <2>: Concatenation. (line 1129)
* climate model <3>: Specifying Input Files.
- (line 1748)
+ (line 1750)
* climate model <4>: ncecat netCDF Ensemble Concatenator.
- (line 9129)
+ (line 9194)
* climate model <5>: Normalization and Integration.
- (line 10944)
+ (line 11050)
* climate model <6>: Normalization and Integration.
- (line 10955)
-* clipping operators: Expressions. (line 5871)
+ (line 11061)
+* clipping operators: Expressions. (line 5927)
* CMIP: nces netCDF Ensemble Statistics.
- (line 8917)
+ (line 8982)
* CMIP <1>: ncecat netCDF Ensemble Concatenator.
- (line 9073)
-* CMIP5: CMIP5 Example. (line 11254)
-* 'cnk_all': Chunking. (line 4161)
-* 'cnk_dmn': Chunking. (line 4220)
-* 'cnk_g2d': Chunking. (line 4161)
-* 'cnk_g3d': Chunking. (line 4161)
-* 'cnk_lfp': Chunking. (line 4220)
-* CNK_MAP: Chunking. (line 4214)
-* 'cnk_prd': Chunking. (line 4220)
-* 'cnk_r1d': Chunking. (line 4161)
-* 'cnk_rd1': Chunking. (line 4220)
-* 'cnk_scl': Chunking. (line 4220)
-* 'cnk_xpl': Chunking. (line 4161)
-* 'cnk_xst': Chunking. (line 4161)
-* 'cnk_xst' <1>: Chunking. (line 4220)
+ (line 9138)
+* CMIP5: CMIP5 Example. (line 11360)
+* 'cnk_all': Chunking. (line 4186)
+* 'cnk_dmn': Chunking. (line 4245)
+* 'cnk_g2d': Chunking. (line 4186)
+* 'cnk_g3d': Chunking. (line 4186)
+* 'cnk_lfp': Chunking. (line 4245)
+* CNK_MAP: Chunking. (line 4239)
+* 'cnk_nc4': Chunking. (line 4245)
+* 'cnk_prd': Chunking. (line 4245)
+* 'cnk_r1d': Chunking. (line 4186)
+* 'cnk_rd1': Chunking. (line 4245)
+* 'cnk_rew': Chunking. (line 4245)
+* 'cnk_scl': Chunking. (line 4245)
+* 'cnk_xpl': Chunking. (line 4186)
+* 'cnk_xst': Chunking. (line 4186)
+* 'cnk_xst' <1>: Chunking. (line 4245)
* Comeau: Compatability. (line 389)
* command line options: Command Line Options.
- (line 1609)
+ (line 1611)
* command line switches: Philosophy. (line 920)
* command line switches <1>: Common features. (line 1504)
* command line switches <2>: Specifying Output Files.
- (line 1790)
+ (line 1792)
* command line switches <3>: Operator Reference Manual.
- (line 5617)
+ (line 5673)
* comments: Syntax of ncap2 statements.
- (line 5704)
+ (line 5760)
* 'como': Compatability. (line 407)
* Compaq: Compatability. (line 389)
-* comparator: Mask condition. (line 10860)
+* comparator: Mask condition. (line 10966)
* compatability: Compatability. (line 389)
* compilers: Specifying Output Files.
- (line 1812)
+ (line 1814)
* complementary error function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* compliance checker: Checking CF-compliance.
- (line 2969)
-* compression: Deflation. (line 4349)
+ (line 2973)
+* compression: Deflation. (line 4405)
* compression <1>: ncks netCDF Kitchen Sink.
- (line 9659)
+ (line 9724)
* concatenation: Appending Variables.
(line 1029)
* concatenation <1>: ncecat netCDF Ensemble Concatenator.
- (line 9033)
+ (line 9098)
* concatenation <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10231)
+ (line 10296)
* concatenation <3>: ncrcat netCDF Record Concatenator.
- (line 10503)
-* conditional Operator: Expressions. (line 5861)
+ (line 10568)
+* conditional Operator: Expressions. (line 5917)
* 'config.guess': Help Requests and Bug Reports.
(line 885)
* 'configure.eg': Help Requests and Bug Reports.
(line 885)
-* constraint expressions: OPeNDAP. (line 2062)
+* constraint expressions: OPeNDAP. (line 2064)
* contents: How to Use This guide.
(line 355)
-* contributing: Contributing. (line 11013)
-* contributors: Contributors. (line 11044)
-* coordinate limits: Hyperslabs. (line 3159)
-* coordinate variable: UDUnits Support. (line 3803)
-* coordinate variable <1>: Operation Types. (line 4735)
-* coordinate variable <2>: CF Conventions. (line 5510)
+* contributing: Contributing. (line 11119)
+* contributors: Contributors. (line 11150)
+* coordinate limits: Hyperslabs. (line 3163)
+* coordinate variable: UDUnits Support. (line 3808)
+* coordinate variable <1>: Operation Types. (line 4791)
+* coordinate variable <2>: CF Conventions. (line 5566)
* coordinate variable <3>: ncbo netCDF Binary Operator.
- (line 8732)
+ (line 8797)
* coordinate variable <4>: ncwa netCDF Weighted Averager.
- (line 10826)
+ (line 10932)
* coordinate variables: ncrename netCDF Renamer.
- (line 10694)
+ (line 10775)
* 'coordinates': Auxiliary Coordinates.
- (line 3659)
-* 'coordinates' <1>: CF Conventions. (line 5510)
+ (line 3664)
+* 'coordinates' <1>: CF Conventions. (line 5566)
* coordinates: Add Coordinates to MODIS Data.
- (line 12226)
-* coordinates convention: CF Conventions. (line 5510)
+ (line 12330)
+* coordinates convention: CF Conventions. (line 5566)
* coordinates, modifying: Permute MODIS Coordinates.
- (line 12274)
+ (line 12378)
* core dump: Help Requests and Bug Reports.
(line 822)
* 'core dump': Large Datasets. (line 1321)
* 'core dump' <1>: Filters for 'ncks'.
- (line 10012)
+ (line 10077)
* COS: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* COSH: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* cosine function: Intrinsic mathematical methods.
- (line 8081)
-* covariance: Examples ncap2. (line 8008)
-* 'cp': Subsetting Files. (line 2460)
+ (line 8137)
+* covariance: Examples ncap2. (line 8064)
+* 'cp': Subsetting Files. (line 2464)
* Cray: Compatability. (line 389)
* Cray <1>: Large Datasets. (line 1321)
-* 'csh': Subsetting Files. (line 2636)
+* 'csh': Subsetting Files. (line 2640)
* Csh shell: Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* 'cxx': Compatability. (line 407)
* Cygwin: Windows Operating System.
(line 503)
* Cygwin <1>: Symbolic Links. (line 539)
* C_FORMAT: Performance. (line 1487)
* daily data: Daily data in one file.
- (line 11162)
+ (line 11268)
* daily data <1>: One time point one file.
- (line 11228)
+ (line 11334)
* daily data <2>: Multiple files with multiple time points.
- (line 11246)
-* Daniel Baumann: Contributors. (line 11090)
-* Daniel Wang: Contributors. (line 11062)
-* DAP: OPeNDAP. (line 1936)
-* data access protocol: OPeNDAP. (line 1936)
+ (line 11352)
+* Daniel Baumann: Contributors. (line 11196)
+* Daniel Wang: Contributors. (line 11168)
+* DAP: OPeNDAP. (line 1938)
+* data access protocol: OPeNDAP. (line 1938)
* data safety: Temporary Output Files.
(line 941)
* data safety <1>: ncrename netCDF Renamer.
- (line 10617)
-* data, missing: Missing Values. (line 4014)
+ (line 10694)
+* data, missing: Missing Values. (line 4019)
* data, missing <1>: ncatted netCDF Attribute Editor.
- (line 8337)
-* 'date': CF Conventions. (line 5432)
-* 'datesec': CF Conventions. (line 5432)
+ (line 8402)
+* 'date': CF Conventions. (line 5488)
+* 'datesec': CF Conventions. (line 5488)
* DBG_LVL: Help Requests and Bug Reports.
(line 877)
* DBG_LVL <1>: Large Datasets. (line 1340)
-* DBG_LVL <2>: OpenMP Threading. (line 1593)
+* DBG_LVL <2>: OpenMP Threading. (line 1595)
* DDRA: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* Debian: netCDF2/3/4 and HDF4/5 Support.
(line 759)
* DEBUG-LEVEL: Help Requests and Bug Reports.
@@ -13807,369 +13915,373 @@ General Index
* debugging: Help Requests and Bug Reports.
(line 862)
* debugging <1>: Large Datasets. (line 1340)
-* debugging <2>: OpenMP Threading. (line 1593)
+* debugging <2>: OpenMP Threading. (line 1595)
* DEC: Compatability. (line 389)
-* 'defdim()': Dimensions. (line 5892)
-* defining dimensions in 'ncap2': Dimensions. (line 5892)
+* 'defdim()': Dimensions. (line 5948)
+* defining dimensions in 'ncap2': Dimensions. (line 5948)
* deflation: netCDF2/3/4 and HDF4/5 Support.
(line 650)
-* deflation <1>: Deflation. (line 4349)
+* deflation <1>: Deflation. (line 4405)
* deflation <2>: ncks netCDF Kitchen Sink.
- (line 9659)
-* degenerate dimension: Chunking. (line 4214)
-* degenerate dimension <1>: Operation Types. (line 4780)
-* degenerate dimension <2>: Examples ncap2. (line 8056)
+ (line 9724)
+* degenerate dimension: Chunking. (line 4239)
+* degenerate dimension <1>: Operation Types. (line 4836)
+* degenerate dimension <2>: Examples ncap2. (line 8112)
* degenerate dimension <3>: ncbo netCDF Binary Operator.
- (line 8726)
+ (line 8791)
* degenerate dimension <4>: ncecat netCDF Ensemble Concatenator.
- (line 9182)
+ (line 9247)
* degenerate dimension <5>: ncflint netCDF File Interpolator.
- (line 9244)
+ (line 9309)
* degenerate dimension <6>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10393)
+ (line 10458)
* degenerate dimension <7>: ncra netCDF Record Averager.
- (line 10445)
+ (line 10510)
* degenerate dimension <8>: ncwa netCDF Weighted Averager.
- (line 10778)
+ (line 10884)
* degenerate dimension <9>: Normalization and Integration.
- (line 10935)
-* delete (groups): Flattening Groups. (line 2729)
+ (line 11041)
+* delete (groups): Flattening Groups. (line 2733)
* 'delete_miss()': Missing values ncap2.
- (line 6380)
-* demotion: Type Conversion. (line 4864)
-* Dennis Heimbigner: Contributors. (line 11036)
+ (line 6436)
+* demotion: Type Conversion. (line 4920)
+* Dennis Heimbigner: Contributors. (line 11142)
* derived fields: ncap2 netCDF Arithmetic Processor.
- (line 5652)
+ (line 5708)
* derived fields <1>: ncap2 netCDF Arithmetic Processor.
- (line 5664)
-* digest: MD5 digests. (line 4386)
+ (line 5720)
+* digest: MD5 digests. (line 4442)
* Digital: Compatability. (line 389)
-* dimension limits: Hyperslabs. (line 3159)
+* dimension limits: Hyperslabs. (line 3163)
* dimension names: ncrename netCDF Renamer.
- (line 10585)
+ (line 10650)
* dimension order: Annual Average over Regions.
- (line 11633)
-* dimensions, growing: Examples ncap2. (line 7978)
+ (line 11737)
+* dimensions, growing: Examples ncap2. (line 8034)
* disaggregate: Dismembering Files.
- (line 2862)
+ (line 2866)
* disjoint files: Appending Variables.
(line 1051)
-* diskless files: RAM disks. (line 4487)
+* diskless files: RAM disks. (line 4543)
* dismember: Dismembering Files.
- (line 2862)
+ (line 2866)
* Distributed Data Reduction & Analysis: Proposals for Institutional Funding.
- (line 11135)
-* Distributed Oceanographic Data System: OPeNDAP. (line 1936)
+ (line 11241)
+* Distributed Oceanographic Data System: OPeNDAP. (line 1938)
* 'divide': ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* dividing data: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* division: Intrinsic mathematical methods.
- (line 8078)
-* 'dmn': Chunking. (line 4220)
+ (line 8134)
+* 'dmn': Chunking. (line 4245)
* documentation: Availability. (line 315)
-* DODS: OPeNDAP. (line 1936)
+* DODS: OPeNDAP. (line 1938)
* DODS <1>: Retaining Retrieved Files.
- (line 2104)
-* 'DODS_ROOT': OPeNDAP. (line 1936)
+ (line 2106)
+* 'DODS_ROOT': OPeNDAP. (line 1938)
* dot product: Normalization and Integration.
- (line 10881)
+ (line 10987)
* dot product <1>: Normalization and Integration.
- (line 10900)
+ (line 11006)
* double(): Methods and functions.
- (line 6536)
+ (line 6592)
* double-precision: Intrinsic mathematical methods.
- (line 8184)
-* 'dsort': Sort methods. (line 6752)
-* duration: Subcycle. (line 3389)
+ (line 8240)
+* 'dsort': Sort methods. (line 6808)
+* duration: Subcycle. (line 3394)
* dynamic linking: Libraries. (line 565)
-* Ed Hartnett: Contributors. (line 11036)
-* Ed Hill: Contributors. (line 11092)
-* eddy covariance: Examples ncap2. (line 8014)
+* Ed Hartnett: Contributors. (line 11142)
+* Ed Hill: Contributors. (line 11198)
+* eddy covariance: Examples ncap2. (line 8070)
* editing attributes: ncatted netCDF Attribute Editor.
- (line 8314)
-* 'egrep': Subsetting Files. (line 2561)
+ (line 8370)
+* 'egrep': Subsetting Files. (line 2565)
* Elliptic integrals: GSL special functions.
- (line 7259)
+ (line 7315)
* ensemble: Concatenation. (line 1129)
* ensemble <1>: nces netCDF Ensemble Statistics.
- (line 8894)
+ (line 8959)
* ensemble average: nces netCDF Ensemble Statistics.
- (line 8878)
+ (line 8943)
* ensemble concatenation: ncecat netCDF Ensemble Concatenator.
- (line 9033)
+ (line 9098)
* ERF: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* ERFC: Intrinsic mathematical methods.
- (line 8081)
-* Eric Blake: Contributors. (line 11100)
+ (line 8137)
+* Eric Blake: Contributors. (line 11206)
* error function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* error tolerance: Temporary Output Files.
(line 941)
-* Etienne Tourigny: Contributors. (line 11106)
-* exclusion: Subsetting Files. (line 2403)
+* Etienne Tourigny: Contributors. (line 11212)
+* exclusion: Subsetting Files. (line 2407)
* exclusion <1>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* exclusion <2>: Filters for 'ncks'.
- (line 10015)
+ (line 10080)
* execution time: Libraries. (line 566)
* execution time <1>: Temporary Output Files.
(line 956)
* execution time <2>: Performance. (line 1479)
* execution time <3>: Metadata Optimization.
(line 1524)
-* execution time <4>: Missing Values. (line 4073)
-* execution time <5>: ncrename netCDF Renamer.
- (line 10632)
+* execution time <4>: Missing Values. (line 4078)
+* execution time <5>: ncatted netCDF Attribute Editor.
+ (line 8393)
+* execution time <6>: ncrename netCDF Renamer.
+ (line 10709)
* EXP: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* exponent: Promoting Single-precision to Double.
- (line 5229)
+ (line 5285)
* exponentiation: Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* exponentiation function: Intrinsic mathematical methods.
- (line 8081)
-* expressions: Expressions. (line 5714)
+ (line 8137)
+* expressions: Expressions. (line 5770)
* extended file format: Determining File Format.
- (line 2211)
+ (line 2213)
* extended regular expressions: Large Numbers of Files.
(line 1242)
-* extended regular expressions <1>: Subsetting Files. (line 2561)
-* extended regular expressions <2>: Examples ncap2. (line 8033)
+* extended regular expressions <1>: Subsetting Files. (line 2565)
+* extended regular expressions <2>: Examples ncap2. (line 8089)
* extended regular expressions <3>: ncatted netCDF Attribute Editor.
- (line 8357)
+ (line 8422)
* extended regular expressions <4>: ncatted netCDF Attribute Editor.
- (line 8564)
-* extraction: Subsetting Files. (line 2403)
+ (line 8629)
+* extraction: Subsetting Files. (line 2407)
* extraction <1>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* extraction <2>: Filters for 'ncks'.
- (line 10015)
+ (line 10080)
* 'f90': Windows Operating System.
(line 503)
* features, requesting: Help Requests and Bug Reports.
(line 822)
-* File buffers: Buffer sizes. (line 4456)
-* file combination: Combine Files. (line 11298)
+* File buffers: Buffer sizes. (line 4512)
+* file combination: Combine Files. (line 11404)
* file deletion: Retaining Retrieved Files.
- (line 2076)
+ (line 2078)
* file multiplication: ncflint netCDF File Interpolator.
- (line 9320)
+ (line 9385)
* file removal: Retaining Retrieved Files.
- (line 2076)
+ (line 2078)
* file retention: Retaining Retrieved Files.
- (line 2076)
+ (line 2078)
* files, multiple: Specifying Input Files.
- (line 1719)
+ (line 1721)
* files, numerous input: Large Numbers of Files.
(line 1206)
-* Filipe Fernandes: Contributors. (line 11096)
+* Filipe Fernandes: Contributors. (line 11202)
* filters: Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* findgen-equivalent: Arrays and hyperslabs.
- (line 5990)
+ (line 6046)
* fix record dimension: ncecat netCDF Ensemble Concatenator.
- (line 9077)
+ (line 9142)
* fix record dimension <1>: ncecat netCDF Ensemble Concatenator.
- (line 9177)
+ (line 9242)
* fix record dimension <2>: ncks netCDF Kitchen Sink.
- (line 9559)
+ (line 9624)
* fixed dimension: ncecat netCDF Ensemble Concatenator.
- (line 9077)
+ (line 9142)
* fixed dimension <1>: ncecat netCDF Ensemble Concatenator.
- (line 9177)
+ (line 9242)
* fixed dimension <2>: ncks netCDF Kitchen Sink.
- (line 9480)
+ (line 9545)
* fixed dimension <3>: ncks netCDF Kitchen Sink.
- (line 9559)
-* flags: Examples ncap2. (line 7992)
-* flatten (groups): Flattening Groups. (line 2729)
-* flattening: Autoconversion. (line 2345)
+ (line 9624)
+* flags: Examples ncap2. (line 8048)
+* flatten (groups): Flattening Groups. (line 2733)
+* flattening: Autoconversion. (line 2349)
* 'float': Intrinsic mathematical methods.
- (line 8184)
+ (line 8240)
* float(): Methods and functions.
- (line 6533)
+ (line 6589)
* FLOOR: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* floor function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* 'flt_byt': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'flt_sht': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
-* for(): Loops. (line 6697)
-* force append: Batch Mode. (line 5353)
-* force overwrite: Batch Mode. (line 5353)
+ (line 10228)
+* for(): Loops. (line 6753)
+* force append: Batch Mode. (line 5409)
+* force overwrite: Batch Mode. (line 5409)
* foreword: Foreword. (line 208)
* Fortran: Promoting Single-precision to Double.
- (line 5012)
+ (line 5068)
* Fortran <1>: ncra netCDF Record Averager.
- (line 10480)
+ (line 10545)
* Fortran <2>: ncrcat netCDF Record Concatenator.
- (line 10557)
+ (line 10622)
* Fortran index convention: C and Fortran Index Conventions.
- (line 3122)
+ (line 3126)
* FORTRAN_FORMAT: Performance. (line 1487)
-* Francesco Lovergine: Contributors. (line 11090)
+* Francesco Lovergine: Contributors. (line 11196)
* 'ftp': Windows Operating System.
(line 509)
-* 'ftp' <1>: Remote storage. (line 1822)
+* 'ftp' <1>: Remote storage. (line 1824)
* FTP: Retaining Retrieved Files.
- (line 2093)
+ (line 2095)
* funding: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* 'g++': Compatability. (line 407)
* 'g++' <1>: Windows Operating System.
(line 523)
-* 'g2d': Chunking. (line 4161)
-* 'g3d': Chunking. (line 4161)
+* 'g2d': Chunking. (line 4186)
+* 'g3d': Chunking. (line 4186)
* GAG: ncecat netCDF Ensemble Concatenator.
- (line 9085)
+ (line 9150)
* GAMMA: Compatability. (line 458)
* GAMMA <1>: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* gamma function: GSL special functions.
- (line 7225)
+ (line 7281)
* gamma function <1>: Intrinsic mathematical methods.
- (line 8081)
-* Gary Strand: Contributors. (line 11088)
+ (line 8137)
+* Gary Strand: Contributors. (line 11194)
* Gaussian weights: Normalization and Integration.
- (line 10944)
-* Gavin Burris: Contributors. (line 11102)
-* Gayathri Venkitachalam: Contributors. (line 11084)
+ (line 11050)
+* Gavin Burris: Contributors. (line 11208)
+* Gayathri Venkitachalam: Contributors. (line 11190)
* 'gcc': Compatability. (line 407)
* 'gcc' <1>: Windows Operating System.
(line 523)
* GCM: Climate Model Paradigm.
(line 930)
* GCM <1>: Promoting Single-precision to Double.
- (line 5151)
-* geographical weight: Monthly Cycle. (line 11924)
-* George Shapavalov: Contributors. (line 11094)
-* George Shapovalov: Contributors. (line 11072)
-* George White: Contributors. (line 11088)
+ (line 5207)
+* geographical weight: Monthly Cycle. (line 12028)
+* George Shapavalov: Contributors. (line 11200)
+* George Shapovalov: Contributors. (line 11178)
+* George White: Contributors. (line 11194)
* 'gethostname': Windows Operating System.
(line 507)
* 'getopt': Command Line Options.
- (line 1623)
+ (line 1625)
* 'getopt.h': Command Line Options.
- (line 1623)
+ (line 1625)
* 'getopt_long': Command Line Options.
- (line 1623)
+ (line 1625)
* 'getuid': Windows Operating System.
(line 507)
* 'get_miss()': Missing values ncap2.
- (line 6375)
-* Glenn Davis: Contributors. (line 11036)
+ (line 6431)
+* Glenn Davis: Contributors. (line 11142)
* 'global' attribute: ncatted netCDF Attribute Editor.
- (line 8546)
+ (line 8611)
* 'global' attribute <1>: ncrename netCDF Renamer.
- (line 10641)
+ (line 10722)
* global attributes: Large Numbers of Files.
(line 1234)
-* global attributes <1>: History Attribute. (line 5373)
+* global attributes <1>: History Attribute. (line 5429)
* global attributes <2>: File List Attributes.
- (line 5401)
-* global attributes <3>: ARM Conventions. (line 5588)
+ (line 5457)
+* global attributes <3>: ARM Conventions. (line 5644)
* global attributes <4>: ncatted netCDF Attribute Editor.
- (line 8379)
+ (line 8444)
* global attributes <5>: ncatted netCDF Attribute Editor.
- (line 8546)
+ (line 8611)
* global attributes <6>: ncks netCDF Kitchen Sink.
- (line 9381)
+ (line 9446)
* global attributes <7>: ncks netCDF Kitchen Sink.
- (line 9415)
+ (line 9480)
* global attributes <8>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* global attributes <9>: ncrename netCDF Renamer.
- (line 10641)
+ (line 10722)
* global attributes <10>: ncrename netCDF Renamer.
- (line 10721)
+ (line 10825)
* globbing: Large Numbers of Files.
(line 1242)
* globbing <1>: Specifying Input Files.
- (line 1682)
-* globbing <2>: Subsetting Files. (line 2636)
-* globbing <3>: Examples ncap2. (line 8033)
+ (line 1684)
+* globbing <2>: Subsetting Files. (line 2640)
+* globbing <3>: Examples ncap2. (line 8089)
* globbing <4>: ncbo netCDF Binary Operator.
- (line 8658)
+ (line 8723)
* globbing <5>: ncra netCDF Record Averager.
- (line 10472)
+ (line 10537)
* globbing <6>: ncrcat netCDF Record Concatenator.
- (line 10550)
+ (line 10615)
* GNU: Command Line Options.
- (line 1610)
-* GNU <1>: Subsetting Files. (line 2561)
+ (line 1612)
+* GNU <1>: Subsetting Files. (line 2565)
* 'gnu-win32': Windows Operating System.
(line 503)
* GNU/Linux: Large Datasets. (line 1321)
* 'GNUmakefile': Windows Operating System.
(line 503)
-* God: UDUnits Support. (line 3913)
-* GODAD: CMIP5 Example. (line 11254)
-* 'grep -E': Subsetting Files. (line 2561)
+* God: UDUnits Support. (line 3918)
+* GODAD: CMIP5 Example. (line 11360)
+* 'grep -E': Subsetting Files. (line 2565)
* group aggregation: ncecat netCDF Ensemble Concatenator.
- (line 9085)
-* group aggregation <1>: Combine Files. (line 11404)
+ (line 9150)
+* group aggregation <1>: Combine Files. (line 11510)
+* group attributes: ncrename netCDF Renamer.
+ (line 10825)
* group names: ncrename netCDF Renamer.
- (line 10585)
+ (line 10650)
* group path: Group Path Editing.
- (line 2707)
+ (line 2711)
* group, aggregation: Annual Average over Regions.
- (line 11858)
+ (line 11962)
* group, anomaly: Annual Average over Regions.
- (line 11858)
+ (line 11962)
* group, dimension permutation: Annual Average over Regions.
- (line 11858)
+ (line 11962)
* group, spatial averaging: Annual Average over Regions.
- (line 11858)
+ (line 11962)
* group, standard deviation: Annual Average over Regions.
- (line 11858)
+ (line 11962)
* group, temporal averaging: Annual Average over Regions.
- (line 11858)
+ (line 11962)
* groups: netCDF2/3/4 and HDF4/5 Support.
(line 659)
* groups <1>: ncatted netCDF Attribute Editor.
- (line 8571)
+ (line 8636)
* groups, averaging: Global Distribution of Long-term Average.
- (line 11611)
-* groups, creating: Combine Files. (line 11404)
-* groups, moving: Moving Groups. (line 2819)
-* groups, renaming: Moving Groups. (line 2819)
-* growing dimensions: Examples ncap2. (line 7978)
+ (line 11715)
+* groups, creating: Combine Files. (line 11510)
+* groups, moving: Moving Groups. (line 2823)
+* groups, renaming: Moving Groups. (line 2823)
+* growing dimensions: Examples ncap2. (line 8034)
* GSL: Compatability. (line 451)
* GSL <1>: GSL special functions.
- (line 7210)
-* GSL <2>: GSL interpolation. (line 7602)
+ (line 7266)
+* GSL <2>: GSL interpolation. (line 7658)
* GSL_SF_BESSEL_JN: GSL special functions.
- (line 7239)
+ (line 7295)
* GSL_SF_GAMMA: GSL special functions.
- (line 7225)
+ (line 7281)
* gsl_sf_legendre_Pl: GSL special functions.
- (line 7294)
-* 'gw': CF Conventions. (line 5432)
+ (line 7350)
+* 'gw': CF Conventions. (line 5488)
* 'gw' <1>: Normalization and Integration.
- (line 10944)
+ (line 11050)
* H4CF: netCDF2/3/4 and HDF4/5 Support.
(line 750)
* 'h4tonccf': netCDF2/3/4 and HDF4/5 Support.
(line 750)
-* Harry Mangalam: Contributors. (line 11065)
-* hash: MD5 digests. (line 4386)
+* Harry Mangalam: Contributors. (line 11171)
+* hash: MD5 digests. (line 4442)
* HDF: netCDF2/3/4 and HDF4/5 Support.
(line 602)
* HDF <1>: File Formats and Conversion.
- (line 2116)
+ (line 2118)
* HDF <2>: ncks netCDF Kitchen Sink.
- (line 9519)
+ (line 9584)
* HDF <3>: Proposals for Institutional Funding.
- (line 11142)
-* HDF unpacking: Packed data. (line 4643)
+ (line 11248)
+* HDF unpacking: Packed data. (line 4699)
* HDF4: netCDF2/3/4 and HDF4/5 Support.
(line 679)
* HDF4 <1>: ncks netCDF Kitchen Sink.
- (line 9519)
+ (line 9584)
* 'HDF4_UNKNOWN': netCDF2/3/4 and HDF4/5 Support.
(line 698)
* HDF5: netCDF2/3/4 and HDF4/5 Support.
@@ -14179,273 +14291,275 @@ General Index
* 'hdf_name': netCDF2/3/4 and HDF4/5 Support.
(line 741)
* 'hdp': ncks netCDF Kitchen Sink.
- (line 9519)
+ (line 9584)
* help: Help Requests and Bug Reports.
(line 822)
-* Henry Butowsky: Contributors. (line 11051)
+* Henry Butowsky: Contributors. (line 11157)
* 'hgh_byt': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'hgh_sht': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* hidden attributes: ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* hidden features: ncks netCDF Kitchen Sink.
- (line 9717)
+ (line 9782)
* Hierarchical Data Format: netCDF2/3/4 and HDF4/5 Support.
(line 602)
* 'history': Large Numbers of Files.
(line 1286)
-* 'history' <1>: Remote storage. (line 1822)
-* 'history' <2>: History Attribute. (line 5373)
-* 'history' <3>: ARM Conventions. (line 5588)
+* 'history' <1>: Remote storage. (line 1824)
+* 'history' <2>: History Attribute. (line 5429)
+* 'history' <3>: ARM Conventions. (line 5644)
* 'history' <4>: ncatted netCDF Attribute Editor.
- (line 8332)
+ (line 8388)
* 'history' <5>: Filters for 'ncks'.
- (line 9916)
+ (line 9981)
* 'hncgen': ncks netCDF Kitchen Sink.
- (line 9519)
+ (line 9584)
* HP: Compatability. (line 389)
-* HPSS: Remote storage. (line 1862)
-* 'hsi': Remote storage. (line 1862)
+* HPSS: Remote storage. (line 1864)
+* 'hsi': Remote storage. (line 1864)
* HTML: Availability. (line 315)
-* HTTP protocol: OPeNDAP. (line 1936)
-* 'hyai': CF Conventions. (line 5432)
-* 'hyam': CF Conventions. (line 5432)
-* 'hybi': CF Conventions. (line 5432)
-* 'hybm': CF Conventions. (line 5432)
-* hybrid coordinate system: Left hand casting. (line 5944)
+* HTTP protocol: OPeNDAP. (line 1938)
+* 'hyai': CF Conventions. (line 5488)
+* 'hyam': CF Conventions. (line 5488)
+* 'hybi': CF Conventions. (line 5488)
+* 'hybm': CF Conventions. (line 5488)
+* hybrid coordinate system: Left hand casting. (line 6000)
* hyperbolic arccosine function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* hyperbolic arcsine function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* hyperbolic arctangent function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* hyperbolic cosine function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* hyperbolic sine function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* hyperbolic tangent: Intrinsic mathematical methods.
- (line 8081)
-* hyperslab: Hyperslabs. (line 3159)
-* hyperslab <1>: Chunking. (line 4150)
+ (line 8137)
+* hyperslab: Hyperslabs. (line 3163)
+* hyperslab <1>: Chunking. (line 4171)
* hyperslab <2>: nces netCDF Ensemble Statistics.
- (line 8912)
+ (line 8977)
* hyperslab <3>: ncecat netCDF Ensemble Concatenator.
- (line 9071)
+ (line 9136)
* hyperslab <4>: ncra netCDF Record Averager.
- (line 10456)
+ (line 10521)
* hyperslab <5>: ncrcat netCDF Record Concatenator.
- (line 10526)
+ (line 10591)
* hyperslab <6>: ncwa netCDF Weighted Averager.
- (line 10790)
+ (line 10896)
* hyperslabs: Arrays and hyperslabs.
- (line 6017)
-* I/O: OPeNDAP. (line 2008)
+ (line 6073)
+* I/O: OPeNDAP. (line 2010)
* I/O <1>: C and Fortran Index Conventions.
- (line 3126)
-* I/O <2>: Multislabs. (line 3515)
-* I/O block size: Buffer sizes. (line 4456)
+ (line 3130)
+* I/O <2>: Multislabs. (line 3520)
+* I/O block size: Buffer sizes. (line 4512)
* I18N: Internationalization.
(line 1513)
* IBM: Compatability. (line 389)
* 'icc': Compatability. (line 407)
-* ID Quoting: ID Quoting. (line 8249)
+* ID Quoting: ID Quoting. (line 8305)
* IDL: Philosophy. (line 913)
* IEEE: Automatic type conversion.
- (line 4970)
+ (line 5026)
* IEEE NaN: ncatted netCDF Attribute Editor.
- (line 8527)
-* if(): if statement. (line 6236)
+ (line 8592)
+* if(): if statement. (line 6292)
* 'ilimit': Large Datasets. (line 1331)
* illegal names: netCDF2/3/4 and HDF4/5 Support.
(line 741)
* implicit conversion: Promoting Single-precision to Double.
- (line 5000)
-* 'include': Include files. (line 6737)
+ (line 5056)
+* 'include': Include files. (line 6793)
* including files: Syntax of ncap2 statements.
- (line 5707)
+ (line 5763)
* index convention: C and Fortran Index Conventions.
- (line 3122)
+ (line 3126)
* indgen-equivalent: Arrays and hyperslabs.
- (line 5990)
+ (line 6046)
* inexact conversion: Intrinsic mathematical methods.
- (line 8148)
+ (line 8204)
* Info: Availability. (line 315)
* input files: Large Numbers of Files.
(line 1260)
* input files <1>: Specifying Input Files.
- (line 1682)
+ (line 1684)
* input files <2>: Specifying Output Files.
- (line 1790)
+ (line 1792)
* input files <3>: Specifying Output Files.
- (line 1807)
+ (line 1809)
* INPUT-PATH: Specifying Input Files.
- (line 1682)
-* INPUT-PATH <1>: Remote storage. (line 1885)
+ (line 1684)
+* INPUT-PATH <1>: Remote storage. (line 1887)
* installation: Compatability. (line 389)
* installation <1>: Help Requests and Bug Reports.
(line 885)
* int(): Methods and functions.
- (line 6531)
+ (line 6587)
* int64(): Methods and functions.
- (line 6546)
+ (line 6602)
* integration: Normalization and Integration.
- (line 10881)
-* integrity: MD5 digests. (line 4386)
+ (line 10987)
+* integrity: MD5 digests. (line 4442)
* Intel: Compatability. (line 389)
* Internationalization: Internationalization.
(line 1513)
-* interoperability: Packed data. (line 4643)
+* interoperability: Packed data. (line 4699)
* interpolation: ncflint netCDF File Interpolator.
- (line 9193)
-* interpolation <1>: Regrid MODIS Data. (line 12088)
-* intersection: Subsetting Files. (line 2403)
-* intersection <1>: Subsetting Files. (line 2509)
+ (line 9258)
+* interpolation <1>: Regrid MODIS Data. (line 12192)
+* intersection: Subsetting Files. (line 2407)
+* intersection <1>: Subsetting Files. (line 2513)
* introduction: Introduction. (line 304)
* introduction <1>: How to Use This guide.
(line 355)
-* 'invert_map': Sort methods. (line 6752)
+* 'invert_map': Sort methods. (line 6808)
* IPCC: nces netCDF Ensemble Statistics.
- (line 8917)
+ (line 8982)
* IPCC <1>: Proposals for Institutional Funding.
- (line 11135)
-* irregular grids: Irregular grids. (line 6997)
+ (line 11241)
+* irregular grids: Irregular grids. (line 7053)
* ISO: Compatability. (line 412)
-* James Gallagher: Contributors. (line 11036)
-* Jim Edwards: Contributors. (line 11078)
-* Joe Hamman: Contributors. (line 11060)
-* John Caron: Contributors. (line 11036)
-* Juliana Rew: Contributors. (line 11080)
-* Karen Schuchardt: Contributors. (line 11082)
-* Keith Lindsay: Contributors. (line 11088)
+* James Gallagher: Contributors. (line 11142)
+* Jim Edwards: Contributors. (line 11184)
+* Joe Hamman: Contributors. (line 11166)
+* John Caron: Contributors. (line 11142)
+* Juliana Rew: Contributors. (line 11186)
+* Karen Schuchardt: Contributors. (line 11188)
+* Keith Lindsay: Contributors. (line 11194)
* kitchen sink: ncks netCDF Kitchen Sink.
- (line 9346)
-* Kyle Wilcox: Contributors. (line 11102)
+ (line 9411)
+* Kyle Wilcox: Contributors. (line 11208)
* L10N: Internationalization.
(line 1514)
* large datasets: Large Datasets. (line 1303)
-* large datasets <1>: OpenMP Threading. (line 1571)
+* large datasets <1>: OpenMP Threading. (line 1573)
* Large File Support: Large Datasets. (line 1303)
* Large File Support <1>: Large File Support.
- (line 2369)
-* 'lat_bnds': CF Conventions. (line 5432)
+ (line 2373)
+* 'lat_bnds': CF Conventions. (line 5488)
* 'LD_LIBRARY_PATH': Libraries. (line 565)
* left hand casting: Memory for ncap2. (line 1440)
-* left hand casting <1>: Left hand casting. (line 5944)
+* left hand casting <1>: Left hand casting. (line 6000)
* Legendre polynomial: GSL special functions.
- (line 7294)
-* Lempel-Ziv deflation: Deflation. (line 4349)
-* Len Makin: Contributors. (line 11076)
+ (line 7350)
+* Lempel-Ziv deflation: Deflation. (line 4405)
+* Len Makin: Contributors. (line 11182)
* lexer: ncap2 netCDF Arithmetic Processor.
- (line 5627)
-* 'lfp': Chunking. (line 4220)
+ (line 5683)
+* 'lfp': Chunking. (line 4245)
* LFS: Large Datasets. (line 1303)
* LFS <1>: Large File Support.
- (line 2369)
-* LHS: Left hand casting. (line 5944)
+ (line 2373)
+* LHS: Left hand casting. (line 6000)
* 'libnco': Compatability. (line 412)
* libraries: Libraries. (line 565)
* linkers: Specifying Output Files.
- (line 1812)
+ (line 1814)
* Linux: Intrinsic mathematical methods.
- (line 8186)
+ (line 8242)
* LLVM: Compatability. (line 410)
* LN: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* 'ln -s': ncbo netCDF Binary Operator.
- (line 8672)
+ (line 8737)
* 'ln -s' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10151)
+ (line 10216)
* LOG: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* LOG10: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* logarithm, base 10: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* logarithm, natural: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* 'long double': Intrinsic mathematical methods.
- (line 8184)
+ (line 8240)
* long options: Command Line Options.
- (line 1622)
+ (line 1624)
* long options <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10325)
+ (line 10390)
* long-term average: Global Distribution of Long-term Average.
- (line 11530)
+ (line 11634)
* longitude: Wrapped Coordinates.
- (line 3609)
-* 'lon_bnds': CF Conventions. (line 5432)
-* Lori Sentman: Contributors. (line 11088)
+ (line 3614)
+* 'lon_bnds': CF Conventions. (line 5488)
+* Lori Sentman: Contributors. (line 11194)
* 'lrint()'.: Automatic type conversion.
- (line 4970)
+ (line 5026)
* 'lround()'.: Automatic type conversion.
- (line 4962)
-* Luk Claes: Contributors. (line 11090)
+ (line 5018)
+* Luk Claes: Contributors. (line 11196)
* Macintosh: Compatability. (line 389)
* 'Makefile': Compatability. (line 417)
* 'Makefile' <1>: Windows Operating System.
(line 503)
-* 'Makefile' <2>: OPeNDAP. (line 1948)
+* 'Makefile' <2>: OPeNDAP. (line 1950)
* malloc(): Memory for ncap2. (line 1449)
* mantissa: Promoting Single-precision to Double.
- (line 5229)
-* manual type conversion: Type Conversion. (line 4864)
-* 'map_dmn': Chunking. (line 4220)
-* 'map_lfp': Chunking. (line 4220)
-* 'map_prd': Chunking. (line 4220)
-* 'map_rd1': Chunking. (line 4220)
-* 'map_scl': Chunking. (line 4220)
-* 'map_xst': Chunking. (line 4220)
-* Mark Flanner: Contributors. (line 11088)
-* Markus Liebig: Contributors. (line 11088)
-* Martin Dix: Contributors. (line 11088)
-* Martin Otte: Contributors. (line 11106)
-* Martin Schmidt: Contributors. (line 11088)
+ (line 5285)
+* manual type conversion: Type Conversion. (line 4920)
+* 'map_dmn': Chunking. (line 4245)
+* 'map_lfp': Chunking. (line 4245)
+* 'map_nc4': Chunking. (line 4245)
+* 'map_prd': Chunking. (line 4245)
+* 'map_rd1': Chunking. (line 4245)
+* 'map_rew': Chunking. (line 4245)
+* 'map_scl': Chunking. (line 4245)
+* 'map_xst': Chunking. (line 4245)
+* Mark Flanner: Contributors. (line 11194)
+* Markus Liebig: Contributors. (line 11194)
+* Martin Dix: Contributors. (line 11194)
+* Martin Otte: Contributors. (line 11212)
+* Martin Schmidt: Contributors. (line 11194)
* Martin Schultz: Checking CF-compliance.
- (line 2969)
-* mask: Irregular grids. (line 6997)
-* mask <1>: Examples ncap2. (line 8001)
-* mask condition: Mask condition. (line 10852)
+ (line 2973)
+* mask: Irregular grids. (line 7053)
+* mask <1>: Examples ncap2. (line 8057)
+* mask condition: Mask condition. (line 10958)
* mask condition <1>: Normalization and Integration.
- (line 10983)
+ (line 11089)
* masked average: ncwa netCDF Weighted Averager.
- (line 10758)
-* Mass Store System: Remote storage. (line 1822)
-* Matej Vela: Contributors. (line 11090)
+ (line 10864)
+* Mass Store System: Remote storage. (line 1824)
+* Matej Vela: Contributors. (line 11196)
* mathematical functions: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* Matlab: Philosophy. (line 913)
-* 'max': Operation Types. (line 4711)
+* 'max': Operation Types. (line 4767)
* max(): Methods and functions.
- (line 6439)
-* maximum: Operation Types. (line 4711)
-* MD5 digest: MD5 digests. (line 4386)
-* mean: Operation Types. (line 4711)
+ (line 6495)
+* maximum: Operation Types. (line 4767)
+* MD5 digest: MD5 digests. (line 4442)
+* mean: Operation Types. (line 4767)
* memory available: Memory Requirements.
(line 1351)
-* memory available <1>: RAM disks. (line 4487)
+* memory available <1>: RAM disks. (line 4543)
* memory leaks: Memory for ncap2. (line 1440)
* memory requirements: Memory Requirements.
(line 1351)
-* memory requirements <1>: Subsetting Files. (line 2542)
-* memory requirements <2>: RAM disks. (line 4487)
+* memory requirements <1>: Subsetting Files. (line 2546)
+* memory requirements <2>: RAM disks. (line 4543)
* merging files: Appending Variables.
(line 1029)
* merging files <1>: ncks netCDF Kitchen Sink.
- (line 9395)
+ (line 9460)
* metadata: ncks netCDF Kitchen Sink.
- (line 9655)
+ (line 9720)
* metadata optimization: Metadata Optimization.
(line 1524)
* metadata, global: ncecat netCDF Ensemble Concatenator.
- (line 9118)
+ (line 9183)
* metadata, global <1>: ncks netCDF Kitchen Sink.
- (line 9612)
+ (line 9677)
* Michael Decker: Checking CF-compliance.
- (line 2969)
+ (line 2973)
* Michael Prather: Promoting Single-precision to Double.
- (line 5338)
-* Michael Schulz: Contributors. (line 11088)
+ (line 5394)
+* Michael Schulz: Contributors. (line 11194)
* Microsoft: Compatability. (line 389)
* Microsoft <1>: Windows Operating System.
(line 488)
@@ -14453,191 +14567,192 @@ General Index
(line 488)
* Mike Folk: netCDF2/3/4 and HDF4/5 Support.
(line 602)
-* Mike Page: Contributors. (line 11088)
-* 'min': Operation Types. (line 4711)
+* Mike Page: Contributors. (line 11194)
+* 'min': Operation Types. (line 4767)
* min(): Methods and functions.
- (line 6441)
-* minimum: Operation Types. (line 4711)
-* missing values: Missing Values. (line 4014)
+ (line 6497)
+* minimum: Operation Types. (line 4767)
+* missing values: Missing Values. (line 4019)
* missing values <1>: ncatted netCDF Attribute Editor.
- (line 8337)
+ (line 8402)
* missing values <2>: ncflint netCDF File Interpolator.
- (line 9266)
+ (line 9331)
* missing values <3>: ncks netCDF Kitchen Sink.
- (line 9668)
+ (line 9733)
* missing values ncap2: Missing values ncap2.
- (line 6332)
-* 'missing_value': Missing Values. (line 4014)
-* 'missing_value' <1>: Packed data. (line 4574)
+ (line 6388)
+* 'missing_value': Missing Values. (line 4019)
+* 'missing_value' <1>: Packed data. (line 4630)
* 'missing_value' <2>: ncrename netCDF Renamer.
- (line 10721)
-* MKS units: UDUnits Support. (line 3783)
-* MKS units <1>: UDUnits Support. (line 3913)
-* MODIS: Regrid MODIS Data. (line 12088)
+ (line 10825)
+* MKS units: UDUnits Support. (line 3788)
+* MKS units <1>: UDUnits Support. (line 3918)
+* MODIS: Regrid MODIS Data. (line 12192)
* MODIS <1>: Add Coordinates to MODIS Data.
- (line 12226)
+ (line 12330)
* modulus: Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* monotonic coordinates: Performance. (line 1482)
* monthly average: Daily data in one file.
- (line 11165)
-* monthly average <1>: Monthly Cycle. (line 11924)
+ (line 11271)
+* monthly average <1>: Monthly Cycle. (line 12028)
* monthly data: Monthly data in one file.
- (line 11196)
+ (line 11302)
* monthly data <1>: One time point one file.
- (line 11228)
+ (line 11334)
* monthly data <2>: Multiple files with multiple time points.
- (line 11246)
-* move groups: Moving Groups. (line 2819)
-* MRO: Subcycle. (line 3389)
-* MSA: Multislabs. (line 3465)
-* 'msk_*': CF Conventions. (line 5432)
-* 'msrcp': Remote storage. (line 1862)
+ (line 11352)
+* move groups: Moving Groups. (line 2823)
+* MRO: Subcycle. (line 3394)
+* MSA: Multislabs. (line 3470)
+* 'msk_*': CF Conventions. (line 5488)
+* 'msrcp': Remote storage. (line 1864)
* msrcp: Retaining Retrieved Files.
- (line 2093)
-* 'msread': Remote storage. (line 1862)
-* MSS: Remote storage. (line 1822)
+ (line 2095)
+* 'msread': Remote storage. (line 1864)
+* MSS: Remote storage. (line 1824)
* multi-file operators: Single and Multi-file Operators.
(line 1369)
* multi-file operators <1>: Specifying Input Files.
- (line 1719)
+ (line 1721)
* multi-file operators <2>: Specifying Output Files.
- (line 1802)
+ (line 1804)
* multi-file operators <3>: nces netCDF Ensemble Statistics.
- (line 8947)
+ (line 9012)
* multi-file operators <4>: ncecat netCDF Ensemble Concatenator.
- (line 9113)
+ (line 9178)
* multi-file operators <5>: ncra netCDF Record Averager.
- (line 10449)
+ (line 10514)
* multi-file operators <6>: ncrcat netCDF Record Concatenator.
- (line 10519)
-* multi-hyperslab: Multislabs. (line 3465)
-* Multi-Record Operator: Subcycle. (line 3389)
+ (line 10584)
+* multi-hyperslab: Multislabs. (line 3470)
+* Multi-Record Operator: Subcycle. (line 3394)
* multiplication: Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* multiplication <1>: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* multiplication <2>: ncflint netCDF File Interpolator.
- (line 9320)
+ (line 9385)
* 'multiply': ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* multiplying data: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* multiplying data <1>: ncflint netCDF File Interpolator.
- (line 9193)
-* multislab: Multislabs. (line 3465)
-* 'mv': Subsetting Files. (line 2460)
+ (line 9258)
+* multislab: Multislabs. (line 3470)
+* 'mv': Subsetting Files. (line 2464)
* 'MVS': Compatability. (line 407)
* MVS: Windows Operating System.
(line 488)
* naked characters: ncbo netCDF Binary Operator.
- (line 8657)
+ (line 8722)
* NaN: ncatted netCDF Attribute Editor.
- (line 8527)
+ (line 8592)
* NARR (North American Regional Reanalysis)a: Where statement.
- (line 6658)
+ (line 6714)
* NASA: Proposals for Institutional Funding.
- (line 11142)
+ (line 11248)
* NASA EOSDIS: Large Numbers of Files.
(line 1207)
-* National Virtual Ocean Data System: OPeNDAP. (line 2038)
+* National Virtual Ocean Data System: OPeNDAP. (line 2040)
+* 'nc4': Chunking. (line 4245)
* ncadd: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* ncap: ncap2 netCDF Arithmetic Processor.
- (line 5627)
+ (line 5683)
* ncap2: Compatability. (line 451)
* ncap2 <1>: ncap2 netCDF Arithmetic Processor.
- (line 5627)
+ (line 5683)
* 'ncap2': Memory for ncap2. (line 1440)
-* 'ncap2' <1>: OpenMP Threading. (line 1571)
+* 'ncap2' <1>: OpenMP Threading. (line 1573)
* 'ncap2' <2>: Manual type conversion.
- (line 5343)
+ (line 5399)
* 'ncap2' <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10083)
+ (line 10148)
* NCAR: Climate Model Paradigm.
(line 930)
-* NCAR MSS: Remote storage. (line 1822)
-* ncatted: Missing Values. (line 4041)
+* NCAR MSS: Remote storage. (line 1824)
+* ncatted: Missing Values. (line 4046)
* ncatted <1>: ncatted netCDF Attribute Editor.
- (line 8314)
-* 'ncatted': Subsetting Files. (line 2561)
-* 'ncatted' <1>: Missing Values. (line 4066)
-* 'ncatted' <2>: History Attribute. (line 5391)
+ (line 8370)
+* 'ncatted': Subsetting Files. (line 2565)
+* 'ncatted' <1>: Missing Values. (line 4071)
+* 'ncatted' <2>: History Attribute. (line 5447)
* 'ncattget': ncatted netCDF Attribute Editor.
- (line 8321)
+ (line 8377)
* 'ncattget' <1>: Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* 'ncavg': Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* ncbo: ncbo netCDF Binary Operator.
- (line 8610)
-* 'ncbo': Missing Values. (line 4089)
+ (line 8675)
+* 'ncbo': Missing Values. (line 4094)
* ncdiff: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* ncdismember: Dismembering Files.
- (line 2862)
+ (line 2866)
* ncdismember <1>: Checking CF-compliance.
- (line 2969)
+ (line 2973)
* ncdivide: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* 'ncdmnsz': Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* 'ncdump': Determining File Format.
- (line 2233)
+ (line 2235)
* 'ncdump' <1>: ncks netCDF Kitchen Sink.
- (line 9519)
+ (line 9584)
* 'ncdump' <2>: ncks netCDF Kitchen Sink.
- (line 9655)
+ (line 9720)
* 'ncdump' <3>: ncks netCDF Kitchen Sink.
- (line 9739)
+ (line 9804)
* ncecat: ncecat netCDF Ensemble Concatenator.
- (line 9033)
+ (line 9098)
* 'ncecat': Concatenation. (line 1116)
* nces: nces netCDF Ensemble Statistics.
- (line 8878)
+ (line 8943)
* 'nces': Averaging. (line 1174)
-* 'nces' <1>: Missing Values. (line 4089)
+* 'nces' <1>: Missing Values. (line 4094)
* 'ncextr': ncks netCDF Kitchen Sink.
- (line 9359)
+ (line 9424)
* ncflint: ncflint netCDF File Interpolator.
- (line 9193)
+ (line 9258)
* 'ncflint': Interpolating. (line 1196)
-* 'ncflint' <1>: Missing Values. (line 4089)
+* 'ncflint' <1>: Missing Values. (line 4094)
* 'ncgen': ncks netCDF Kitchen Sink.
- (line 9519)
+ (line 9584)
* 'ncgen-hdf': ncks netCDF Kitchen Sink.
- (line 9519)
-* ncks: Deflation. (line 4380)
-* ncks <1>: Examples ncap2. (line 8056)
+ (line 9584)
+* ncks: Deflation. (line 4436)
+* ncks <1>: Examples ncap2. (line 8112)
* ncks <2>: ncks netCDF Kitchen Sink.
- (line 9346)
+ (line 9411)
* 'ncks': Determining File Format.
- (line 2202)
+ (line 2204)
* NCL: Philosophy. (line 913)
* NCL <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10279)
+ (line 10344)
* 'nclist': Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* 'ncl_convert2nc': netCDF2/3/4 and HDF4/5 Support.
(line 725)
* 'ncl_convert2nc' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10279)
+ (line 10344)
* 'ncmax': Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* 'ncmdn': Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* 'ncmin': Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* NcML: ncks netCDF Kitchen Sink.
- (line 9739)
+ (line 9804)
* ncmult: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* ncmultiply: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* NCO availability: Availability. (line 307)
* NCO homepage: Availability. (line 331)
* nco script file: Annual Average over Regions.
- (line 11633)
+ (line 11737)
* 'NCO User Guide': Availability. (line 315)
* 'nco.config.log.${GNU_TRP}.foo': Help Requests and Bug Reports.
(line 885)
@@ -14648,294 +14763,296 @@ General Index
* 'nco_input_file_list': Large Numbers of Files.
(line 1234)
* 'nco_input_file_list' <1>: File List Attributes.
- (line 5401)
+ (line 5457)
* 'nco_input_file_number': Large Numbers of Files.
(line 1234)
* 'nco_input_file_number' <1>: File List Attributes.
- (line 5401)
-* 'nco_openmp_thread_number': OpenMP Threading. (line 1545)
+ (line 5457)
+* 'nco_openmp_thread_number': OpenMP Threading. (line 1547)
* ncpack: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
-* ncpdq: Chunking. (line 4150)
+ (line 10130)
+* ncpdq: Chunking. (line 4171)
* ncpdq <1>: ncecat netCDF Ensemble Concatenator.
- (line 9140)
+ (line 9205)
* ncpdq <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
+ (line 10130)
* ncpdq <3>: ncrcat netCDF Record Concatenator.
- (line 10531)
+ (line 10596)
* 'ncpdq': Concatenation. (line 1149)
-* 'ncpdq' <1>: OpenMP Threading. (line 1571)
-* ncra: Examples ncap2. (line 8056)
+* 'ncpdq' <1>: OpenMP Threading. (line 1573)
+* ncra: Examples ncap2. (line 8112)
* ncra <1>: ncra netCDF Record Averager.
- (line 10432)
+ (line 10497)
* 'ncra': Averaging. (line 1174)
-* 'ncra' <1>: Missing Values. (line 4089)
+* 'ncra' <1>: Missing Values. (line 4094)
* ncrcat: ncrcat netCDF Record Concatenator.
- (line 10503)
+ (line 10568)
* 'ncrcat': Concatenation. (line 1116)
-* 'ncrcat' <1>: OpenMP Threading. (line 1571)
+* 'ncrcat' <1>: OpenMP Threading. (line 1573)
* 'ncrecsz': Filters for 'ncks'.
- (line 9823)
-* ncrename: Missing Values. (line 4041)
+ (line 9888)
+* ncrename: Missing Values. (line 4046)
* ncrename <1>: ncrename netCDF Renamer.
- (line 10585)
+ (line 10650)
* 'ncrng': Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* NCSA: netCDF2/3/4 and HDF4/5 Support.
(line 616)
* ncsub: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* ncsubtract: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* 'ncunits': Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* ncunpack: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
-* ncwa: Examples ncap2. (line 8056)
+ (line 10130)
+* ncwa: Examples ncap2. (line 8112)
* ncwa <1>: ncwa netCDF Weighted Averager.
- (line 10758)
+ (line 10864)
* 'ncwa': Averaging. (line 1174)
-* 'ncwa' <1>: OpenMP Threading. (line 1571)
-* 'ncwa' <2>: Missing Values. (line 4089)
+* 'ncwa' <1>: OpenMP Threading. (line 1573)
+* 'ncwa' <2>: Missing Values. (line 4094)
* 'NC_BYTE': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
-* 'NC_CHAR': Hyperslabs. (line 3244)
+ (line 10228)
+* 'NC_CHAR': Hyperslabs. (line 3249)
* 'NC_CHAR' <1>: ncbo netCDF Binary Operator.
- (line 8732)
+ (line 8797)
* 'NC_CHAR' <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
-* 'NC_DISKLESS': RAM disks. (line 4487)
+ (line 10228)
+* 'NC_DISKLESS': RAM disks. (line 4543)
* 'NC_DOUBLE': Intrinsic mathematical methods.
- (line 8184)
+ (line 8240)
* 'NC_DOUBLE' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'NC_FLOAT': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'NC_FORMAT_DAP2': Determining File Format.
- (line 2211)
+ (line 2213)
* 'NC_FORMAT_DAP4': Determining File Format.
- (line 2211)
+ (line 2213)
* 'NC_FORMAT_NC3': Determining File Format.
- (line 2211)
+ (line 2213)
* 'NC_FORMAT_NC_HDF4': Determining File Format.
- (line 2211)
+ (line 2213)
* 'NC_FORMAT_NC_HDF5': Determining File Format.
- (line 2211)
+ (line 2213)
* 'NC_FORMAT_PNETCDF': Determining File Format.
- (line 2211)
+ (line 2213)
* 'NC_INT': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'NC_INT64': netCDF2/3/4 and HDF4/5 Support.
(line 641)
* 'NC_INT64' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'NC_SHORT': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'NC_UBYTE': netCDF2/3/4 and HDF4/5 Support.
(line 641)
* 'NC_UBYTE' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'NC_UINT': netCDF2/3/4 and HDF4/5 Support.
(line 641)
* 'NC_UINT' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'NC_UINT64': netCDF2/3/4 and HDF4/5 Support.
(line 641)
* 'NC_UINT64' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'NC_USHORT': netCDF2/3/4 and HDF4/5 Support.
(line 641)
* 'NC_USHORT' <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
+ (line 10228)
* 'nc__enddef()': Metadata Optimization.
(line 1524)
* ndims(): Methods and functions.
- (line 6475)
+ (line 6531)
* NEARBYINT: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* nearest integer function (exact): Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* nearest integer function (inexact): Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* NEC: Compatability. (line 389)
* Neil Davis: Automatic type conversion.
- (line 4956)
+ (line 5012)
* nesting: Syntax of ncap2 statements.
- (line 5707)
+ (line 5763)
* netCDF: Availability. (line 335)
* netCDF2: netCDF2/3/4 and HDF4/5 Support.
(line 590)
* netCDF2 <1>: File Formats and Conversion.
- (line 2116)
+ (line 2118)
* 'NETCDF2_ONLY': netCDF2/3/4 and HDF4/5 Support.
(line 611)
* netCDF3: netCDF2/3/4 and HDF4/5 Support.
(line 590)
* netCDF3 <1>: File Formats and Conversion.
- (line 2116)
+ (line 2118)
* netCDF3 classic file format: Determining File Format.
- (line 2202)
+ (line 2204)
* netCDF4: netCDF2/3/4 and HDF4/5 Support.
(line 616)
* netCDF4 <1>: File Formats and Conversion.
- (line 2116)
+ (line 2118)
* netCDF4 <2>: Multiple Record Dimensions.
- (line 3976)
+ (line 3981)
* netCDF4 classic file format: Determining File Format.
- (line 2202)
+ (line 2204)
* netCDF4 file format: Determining File Format.
- (line 2202)
+ (line 2204)
* 'NETCDF4' files: File Formats and Conversion.
- (line 2116)
+ (line 2118)
* 'NETCDF4_CLASSIC' files: File Formats and Conversion.
- (line 2116)
+ (line 2118)
* 'NETCDF4_ROOT': netCDF2/3/4 and HDF4/5 Support.
(line 764)
-* Nick Bower: Contributors. (line 11090)
+* Nick Bower: Contributors. (line 11196)
* 'NINTAP': Specifying Input Files.
- (line 1682)
+ (line 1684)
* 'NINTAP' <1>: ncra netCDF Record Averager.
- (line 10472)
+ (line 10537)
* 'NINTAP' <2>: ncrcat netCDF Record Concatenator.
- (line 10550)
-* non-coordinate grid properties: CF Conventions. (line 5463)
-* non-rectangular grids: Irregular grids. (line 6997)
-* non-standard grids: Irregular grids. (line 6997)
+ (line 10615)
+* non-coordinate grid properties: CF Conventions. (line 5519)
+* non-rectangular grids: Irregular grids. (line 7053)
+* non-standard grids: Irregular grids. (line 7053)
* normalization: Normalization and Integration.
- (line 10881)
+ (line 10987)
* North American Regional Reanalysis (NARR): Where statement.
- (line 6658)
+ (line 6714)
* Not-a-Number: ncatted netCDF Attribute Editor.
- (line 8527)
+ (line 8592)
* 'NO_NETCDF_2': netCDF2/3/4 and HDF4/5 Support.
(line 600)
* NRA: Proposals for Institutional Funding.
- (line 11142)
-* 'nrnet': Remote storage. (line 1862)
+ (line 11248)
+* 'nrnet': Remote storage. (line 1864)
* NSF: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* NSF <1>: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* NT (Microsoft operating system): Windows Operating System.
(line 488)
* NUL: ncatted netCDF Attribute Editor.
- (line 8505)
+ (line 8570)
* 'NUL': ncpdq netCDF Permute Dimensions Quickly.
- (line 10201)
+ (line 10266)
* NUL-termination: ncatted netCDF Attribute Editor.
- (line 8505)
+ (line 8570)
* null operation: ncflint netCDF File Interpolator.
- (line 9317)
-* number literals 'ncap2': Number literals. (line 6186)
+ (line 9382)
+* number literals 'ncap2': Number literals. (line 6242)
* 'number_miss()': Missing values ncap2.
- (line 6382)
+ (line 6438)
* 'numerator': Normalization and Integration.
- (line 10881)
-* NVODS: OPeNDAP. (line 2038)
+ (line 10987)
+* NVODS: OPeNDAP. (line 2040)
* 'nxt_lsr': ncpdq netCDF Permute Dimensions Quickly.
- (line 10163)
-* oceanography: OPeNDAP. (line 1936)
+ (line 10228)
+* oceanography: OPeNDAP. (line 1938)
* octal dump: Determining File Format.
- (line 2245)
+ (line 2247)
* 'od': Determining File Format.
- (line 2245)
-* 'OMP_NUM_THREADS': OpenMP Threading. (line 1571)
+ (line 2247)
+* 'OMP_NUM_THREADS': OpenMP Threading. (line 1573)
* on-line documentation: Availability. (line 315)
* open source: Foreword. (line 227)
-* open source <1>: OPeNDAP. (line 2038)
+* open source <1>: OPeNDAP. (line 2040)
* Open-source Project for a Network Data Access Protocol: OPeNDAP.
- (line 1936)
-* OPeNDAP.: OPeNDAP. (line 1936)
+ (line 1938)
+* OPeNDAP.: OPeNDAP. (line 1938)
* OpenMP: Memory Requirements.
(line 1358)
* OpenMP <1>: Single and Multi-file Operators.
(line 1433)
-* OpenMP <2>: OpenMP Threading. (line 1545)
-* operation types: Operation Types. (line 4711)
+* OpenMP <2>: OpenMP Threading. (line 1547)
+* operation types: Operation Types. (line 4767)
* operation types <1>: ncra netCDF Record Averager.
- (line 10465)
+ (line 10530)
* operation types <2>: ncwa netCDF Weighted Averager.
- (line 10834)
+ (line 10940)
* operator speed: Libraries. (line 566)
* operator speed <1>: Temporary Output Files.
(line 956)
* operator speed <2>: Performance. (line 1479)
* operator speed <3>: Metadata Optimization.
(line 1524)
-* operator speed <4>: Missing Values. (line 4073)
-* operator speed <5>: ncrename netCDF Renamer.
- (line 10632)
+* operator speed <4>: Missing Values. (line 4078)
+* operator speed <5>: ncatted netCDF Attribute Editor.
+ (line 8393)
+* operator speed <6>: ncrename netCDF Renamer.
+ (line 10709)
* operators: Summary. (line 290)
* OptIPuter: Proposals for Institutional Funding.
- (line 11135)
-* Orion Powlawski: Contributors. (line 11092)
-* 'ORO': CF Conventions. (line 5432)
+ (line 11241)
+* Orion Powlawski: Contributors. (line 11198)
+* 'ORO': CF Conventions. (line 5488)
* 'ORO' <1>: Normalization and Integration.
- (line 10955)
+ (line 11061)
* orphan dimensions: ncks netCDF Kitchen Sink.
- (line 9702)
+ (line 9767)
* OS: Compatability. (line 389)
* output file: Large Numbers of Files.
(line 1260)
* output file <1>: Specifying Output Files.
- (line 1790)
-* OUTPUT-PATH: Remote storage. (line 1885)
+ (line 1792)
+* OUTPUT-PATH: Remote storage. (line 1887)
* overview: Performance. (line 1464)
* overwriting files: Temporary Output Files.
(line 1004)
-* overwriting files <1>: Batch Mode. (line 5353)
+* overwriting files <1>: Batch Mode. (line 5409)
* pack(): Methods and functions.
- (line 6457)
-* 'pack(x)': Packed data. (line 4574)
-* packing: OPeNDAP. (line 2000)
-* packing <1>: Chunking. (line 4150)
-* packing <2>: Packed data. (line 4574)
+ (line 6513)
+* 'pack(x)': Packed data. (line 4630)
+* packing: OPeNDAP. (line 2002)
+* packing <1>: Chunking. (line 4171)
+* packing <2>: Packed data. (line 4630)
* packing <3>: ncecat netCDF Ensemble Concatenator.
- (line 9140)
+ (line 9205)
* packing <4>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
+ (line 10130)
* packing <5>: ncrcat netCDF Record Concatenator.
- (line 10531)
+ (line 10596)
* packing map: ncpdq netCDF Permute Dimensions Quickly.
- (line 10157)
+ (line 10222)
* packing policy: ncpdq netCDF Permute Dimensions Quickly.
- (line 10082)
+ (line 10147)
* pack_byte(): Methods and functions.
- (line 6460)
+ (line 6516)
* pack_int(): Methods and functions.
- (line 6464)
+ (line 6520)
* pack_short(): Methods and functions.
- (line 6462)
+ (line 6518)
* papers: Performance. (line 1464)
-* 'parallel': Parallel. (line 12320)
-* parallelism: OpenMP Threading. (line 1545)
+* 'parallel': Parallel. (line 12424)
+* parallelism: OpenMP Threading. (line 1547)
* parallelism <1>: Proposals for Institutional Funding.
- (line 11137)
+ (line 11243)
* parser: ncap2 netCDF Arithmetic Processor.
- (line 5627)
+ (line 5683)
* pasting variables: Appending Variables.
(line 1029)
* 'pathcc': Compatability. (line 407)
* 'pathCC': Compatability. (line 407)
* PathScale: Compatability. (line 389)
-* Patrice Dumas: Contributors. (line 11092)
-* Patrick Kursawe: Contributors. (line 11094)
+* Patrice Dumas: Contributors. (line 11198)
+* Patrick Kursawe: Contributors. (line 11200)
* pattern matching: Large Numbers of Files.
(line 1242)
-* pattern matching <1>: Subsetting Files. (line 2561)
+* pattern matching <1>: Subsetting Files. (line 2565)
* pattern matching <2>: ncatted netCDF Attribute Editor.
- (line 8357)
+ (line 8422)
* pattern matching <3>: ncatted netCDF Attribute Editor.
- (line 8564)
-* PayPal: Contributing. (line 11017)
+ (line 8629)
+* PayPal: Contributing. (line 11123)
* PCK_MAP: ncpdq netCDF Permute Dimensions Quickly.
- (line 10157)
+ (line 10222)
* PCK_PLC: ncpdq netCDF Permute Dimensions Quickly.
- (line 10090)
+ (line 10155)
* peak memory usage: Memory Requirements.
(line 1351)
-* peak memory usage <1>: RAM disks. (line 4487)
-* Pedro Vicente: Contributors. (line 11066)
+* peak memory usage <1>: RAM disks. (line 4543)
+* Pedro Vicente: Contributors. (line 11172)
* performance: Libraries. (line 566)
* performance <1>: Temporary Output Files.
(line 956)
@@ -14943,333 +15060,335 @@ General Index
* performance <3>: Performance. (line 1479)
* performance <4>: Metadata Optimization.
(line 1524)
-* performance <5>: Missing Values. (line 4073)
-* performance <6>: ncrename netCDF Renamer.
- (line 10632)
+* performance <5>: Missing Values. (line 4078)
+* performance <6>: ncatted netCDF Attribute Editor.
+ (line 8393)
+* performance <7>: ncrename netCDF Renamer.
+ (line 10709)
* Perl: Philosophy. (line 913)
* Perl <1>: Large Numbers of Files.
(line 1273)
* Perl <2>: ncatted netCDF Attribute Editor.
- (line 8479)
+ (line 8544)
* permute dimensions: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
+ (line 10130)
* permute(): Arrays and hyperslabs.
- (line 6109)
-* Peter Campbell: Contributors. (line 11088)
+ (line 6165)
+* Peter Campbell: Contributors. (line 11194)
* 'pgcc': Compatability. (line 407)
* 'pgCC': Compatability. (line 407)
* PGI: Compatability. (line 389)
* philosophy: Philosophy. (line 904)
* pipes: Large Numbers of Files.
(line 1255)
-* 'plc_all': Chunking. (line 4161)
-* 'plc_g2d': Chunking. (line 4161)
-* 'plc_g3d': Chunking. (line 4161)
-* 'plc_r1d': Chunking. (line 4161)
-* 'plc_xpl': Chunking. (line 4161)
-* 'plc_xst': Chunking. (line 4161)
+* 'plc_all': Chunking. (line 4186)
+* 'plc_g2d': Chunking. (line 4186)
+* 'plc_g3d': Chunking. (line 4186)
+* 'plc_r1d': Chunking. (line 4186)
+* 'plc_xpl': Chunking. (line 4186)
+* 'plc_xst': Chunking. (line 4186)
* portability: Compatability. (line 389)
* positional arguments: Specifying Output Files.
- (line 1790)
+ (line 1792)
* POSIX: Command Line Options.
- (line 1610)
-* POSIX <1>: Subsetting Files. (line 2579)
+ (line 1612)
+* POSIX <1>: Subsetting Files. (line 2583)
* POW: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* power: Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* power function: Intrinsic mathematical methods.
- (line 8081)
-* 'prd': Chunking. (line 4220)
+ (line 8137)
+* 'prd': Chunking. (line 4245)
* precision: Intrinsic mathematical methods.
- (line 8184)
+ (line 8240)
* preprocessor tokens: Windows Operating System.
(line 503)
* presentations: Availability. (line 325)
-* print() 'ncap2': print statement. (line 6303)
+* print() 'ncap2': print statement. (line 6359)
* 'printf': Compatability. (line 420)
* 'printf()': ncatted netCDF Attribute Editor.
- (line 8481)
+ (line 8546)
* 'printf()' <1>: ncks netCDF Kitchen Sink.
- (line 9713)
+ (line 9778)
* 'printf()' <2>: Filters for 'ncks'.
- (line 9951)
+ (line 10016)
* printing files contents: ncks netCDF Kitchen Sink.
- (line 9346)
+ (line 9411)
* printing variables: ncks netCDF Kitchen Sink.
- (line 9346)
+ (line 9411)
* Processor: ncra netCDF Record Averager.
- (line 10472)
+ (line 10537)
* Processor <1>: ncrcat netCDF Record Concatenator.
- (line 10550)
+ (line 10615)
* Processor, CCM: Specifying Input Files.
- (line 1682)
-* promotion: Type Conversion. (line 4864)
+ (line 1684)
+* promotion: Type Conversion. (line 4920)
* promotion <1>: Promoting Single-precision to Double.
- (line 5000)
+ (line 5056)
* promotion <2>: Intrinsic mathematical methods.
- (line 8151)
+ (line 8207)
* proposals: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* pseudonym: Symbolic Links. (line 539)
* publications: Availability. (line 325)
* QLogic: Compatability. (line 389)
* Qt: Windows Operating System.
(line 495)
* quadruple-precision: Intrinsic mathematical methods.
- (line 8184)
+ (line 8240)
* quench: ncks netCDF Kitchen Sink.
- (line 9694)
-* Quick Start: Quick Start. (line 11155)
-* quotes: Subsetting Files. (line 2636)
-* quotes <1>: Examples ncap2. (line 8033)
+ (line 9759)
+* Quick Start: Quick Start. (line 11261)
+* quotes: Subsetting Files. (line 2640)
+* quotes <1>: Examples ncap2. (line 8089)
* quotes <2>: ncbo netCDF Binary Operator.
- (line 8658)
+ (line 8723)
* quotes <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10325)
-* 'r1d': Chunking. (line 4161)
+ (line 10390)
+* 'r1d': Chunking. (line 4186)
* RAG: ncecat netCDF Ensemble Concatenator.
- (line 9057)
+ (line 9122)
* RAM: Memory Requirements.
(line 1351)
-* RAM <1>: RAM disks. (line 4487)
+* RAM <1>: RAM disks. (line 4543)
* RAM disks: Temporary Output Files.
(line 962)
-* RAM disks <1>: RAM disks. (line 4487)
+* RAM disks <1>: RAM disks. (line 4543)
* RAM files: Temporary Output Files.
(line 962)
-* RAM files <1>: RAM disks. (line 4487)
-* RAM variables: RAM disks. (line 4527)
+* RAM files <1>: RAM disks. (line 4543)
+* RAM variables: RAM disks. (line 4583)
* RAM variables <1>: Methods and functions.
- (line 6563)
-* ram_delete(): RAM variables. (line 6575)
-* ram_write(): RAM variables. (line 6575)
+ (line 6619)
+* ram_delete(): RAM variables. (line 6631)
+* ram_write(): RAM variables. (line 6631)
* random walk: Promoting Single-precision to Double.
- (line 5217)
-* rank: Expressions. (line 5748)
+ (line 5273)
+* rank: Expressions. (line 5804)
* rank <1>: ncbo netCDF Binary Operator.
- (line 8699)
+ (line 8764)
* rank <2>: ncbo netCDF Binary Operator.
- (line 8712)
+ (line 8777)
* rank <3>: ncbo netCDF Binary Operator.
- (line 8763)
+ (line 8828)
* rank <4>: ncwa netCDF Weighted Averager.
- (line 10799)
+ (line 10905)
* 'rcp': Windows Operating System.
(line 509)
-* 'rcp' <1>: Remote storage. (line 1822)
-* RCS: Operator Version. (line 5595)
-* 'rd1': Chunking. (line 4220)
+* 'rcp' <1>: Remote storage. (line 1824)
+* RCS: Operator Version. (line 5651)
+* 'rd1': Chunking. (line 4245)
* re-dimension: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
+ (line 10130)
* re-order dimensions: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
+ (line 10130)
* record aggregation: ncecat netCDF Ensemble Concatenator.
- (line 9057)
-* record append: Record Appending. (line 3338)
+ (line 9122)
+* record append: Record Appending. (line 3343)
* record average: ncra netCDF Record Averager.
- (line 10432)
+ (line 10497)
* record concatenation: ncrcat netCDF Record Concatenator.
- (line 10503)
+ (line 10568)
* record dimension: Appending Variables.
(line 1032)
* record dimension <1>: C and Fortran Index Conventions.
- (line 3140)
-* record dimension <2>: Chunking. (line 4333)
+ (line 3144)
+* record dimension <2>: Chunking. (line 4382)
* record dimension <3>: nces netCDF Ensemble Statistics.
- (line 8912)
+ (line 8977)
* record dimension <4>: ncecat netCDF Ensemble Concatenator.
- (line 9067)
+ (line 9132)
* record dimension <5>: ncecat netCDF Ensemble Concatenator.
- (line 9071)
+ (line 9136)
* record dimension <6>: ncecat netCDF Ensemble Concatenator.
- (line 9177)
+ (line 9242)
* record dimension <7>: ncks netCDF Kitchen Sink.
- (line 9480)
+ (line 9545)
* record dimension <8>: ncks netCDF Kitchen Sink.
- (line 9559)
+ (line 9624)
* record dimension <9>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10229)
+ (line 10294)
* record dimension <10>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10231)
+ (line 10296)
* record dimension <11>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10380)
+ (line 10445)
* record dimension <12>: ncra netCDF Record Averager.
- (line 10432)
+ (line 10497)
* record dimension <13>: ncra netCDF Record Averager.
- (line 10445)
+ (line 10510)
* record dimension <14>: ncrcat netCDF Record Concatenator.
- (line 10516)
+ (line 10581)
* record variable: C and Fortran Index Conventions.
- (line 3135)
+ (line 3139)
* record variable <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10233)
-* rectangular grids: Irregular grids. (line 6997)
-* recursion: Subsetting Files. (line 2460)
-* recursive: Subsetting Files. (line 2460)
-* 'regex': Subsetting Files. (line 2579)
+ (line 10298)
+* rectangular grids: Irregular grids. (line 7053)
+* recursion: Subsetting Files. (line 2464)
+* recursive: Subsetting Files. (line 2464)
+* 'regex': Subsetting Files. (line 2583)
* regression: Annual Average over Regions.
- (line 11633)
+ (line 11737)
* regressions archive: Help Requests and Bug Reports.
(line 892)
-* regrid: Regrid MODIS Data. (line 12088)
+* regrid: Regrid MODIS Data. (line 12192)
* regular expressions: Large Numbers of Files.
(line 1242)
* regular expressions <1>: Specifying Input Files.
- (line 1682)
-* regular expressions <2>: Subsetting Files. (line 2561)
-* regular expressions <3>: Examples ncap2. (line 8033)
+ (line 1684)
+* regular expressions <2>: Subsetting Files. (line 2565)
+* regular expressions <3>: Examples ncap2. (line 8089)
* regular expressions <4>: ncatted netCDF Attribute Editor.
- (line 8357)
+ (line 8422)
* regular expressions <5>: ncatted netCDF Attribute Editor.
- (line 8564)
-* 'remap': Sort methods. (line 6752)
-* Remik Ziemlinski: Contributors. (line 11088)
+ (line 8629)
+* 'remap': Sort methods. (line 6808)
+* Remik Ziemlinski: Contributors. (line 11194)
* remote files: Windows Operating System.
(line 509)
-* remote files <1>: Remote storage. (line 1822)
-* rename groups: Moving Groups. (line 2819)
+* remote files <1>: Remote storage. (line 1824)
+* rename groups: Moving Groups. (line 2823)
* renaming attributes: ncrename netCDF Renamer.
- (line 10585)
-* renaming attributes <1>: Regrid MODIS Data. (line 12088)
+ (line 10650)
+* renaming attributes <1>: Regrid MODIS Data. (line 12192)
* renaming dimensions: ncrename netCDF Renamer.
- (line 10585)
-* renaming dimensions <1>: Regrid MODIS Data. (line 12088)
+ (line 10650)
+* renaming dimensions <1>: Regrid MODIS Data. (line 12192)
* renaming groups: ncrename netCDF Renamer.
- (line 10585)
+ (line 10650)
* renaming variables: ncrename netCDF Renamer.
- (line 10585)
+ (line 10650)
* renaming variables <1>: Annual Average over Regions.
- (line 11633)
-* renaming variables <2>: Regrid MODIS Data. (line 12088)
+ (line 11737)
+* renaming variables <2>: Regrid MODIS Data. (line 12192)
* reporting bugs: Help Requests and Bug Reports.
(line 822)
* reshape variables: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
+ (line 10130)
* 'restrict': Compatability. (line 444)
* reverse data: ncpdq netCDF Permute Dimensions Quickly.
- (line 10355)
+ (line 10420)
* reverse dimensions: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
+ (line 10130)
* reverse dimensions <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10312)
+ (line 10377)
* reverse dimensions <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10334)
+ (line 10399)
* reverse(): Arrays and hyperslabs.
- (line 6102)
-* 'rew': Chunking. (line 4220)
-* Rich Signell: Contributors. (line 11088)
+ (line 6158)
+* 'rew': Chunking. (line 4245)
+* Rich Signell: Contributors. (line 11194)
* RINT: Intrinsic mathematical methods.
- (line 8081)
-* 'rms': Operation Types. (line 4711)
-* 'rmssdn': Operation Types. (line 4711)
+ (line 8137)
+* 'rms': Operation Types. (line 4767)
+* 'rmssdn': Operation Types. (line 4767)
* rmssdn(): Methods and functions.
- (line 6445)
-* root-mean-square: Operation Types. (line 4711)
-* Rorik Peterson: Contributors. (line 11057)
+ (line 6501)
+* root-mean-square: Operation Types. (line 4767)
+* Rorik Peterson: Contributors. (line 11163)
* ROUND: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* rounding: Promoting Single-precision to Double.
- (line 5217)
+ (line 5273)
* rounding functions: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* RPM: netCDF2/3/4 and HDF4/5 Support.
(line 759)
* running average: ncra netCDF Record Averager.
- (line 10432)
-* Russ Rew: Contributors. (line 11036)
-* Russ Rew <1>: Contributors. (line 11068)
+ (line 10497)
+* Russ Rew: Contributors. (line 11142)
+* Russ Rew <1>: Contributors. (line 11174)
* safeguards: Temporary Output Files.
(line 941)
* safeguards <1>: ncrename netCDF Renamer.
- (line 10617)
-* 'scale_factor': Packed data. (line 4574)
+ (line 10694)
+* 'scale_factor': Packed data. (line 4630)
* 'scale_factor' <1>: ncecat netCDF Ensemble Concatenator.
- (line 9140)
+ (line 9205)
* 'scale_factor' <2>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10083)
+ (line 10148)
* 'scale_factor' <3>: ncrcat netCDF Record Concatenator.
- (line 10531)
+ (line 10596)
* SCALE_FORMAT: Performance. (line 1487)
* scaling: Performance. (line 1470)
* scaling <1>: ncflint netCDF File Interpolator.
- (line 9320)
+ (line 9385)
* Scientific Data Operators: Proposals for Institutional Funding.
- (line 11135)
-* 'scl': Chunking. (line 4220)
-* Scott Capps: Contributors. (line 11086)
+ (line 11241)
+* 'scl': Chunking. (line 4245)
+* Scott Capps: Contributors. (line 11192)
* 'scp': Windows Operating System.
(line 509)
-* 'scp' <1>: Remote storage. (line 1822)
+* 'scp' <1>: Remote storage. (line 1824)
* script file: ncap2 netCDF Arithmetic Processor.
- (line 5645)
+ (line 5701)
* SDO: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* seasonal average: Monthly data in one file.
- (line 11199)
-* security: MD5 digests. (line 4386)
+ (line 11305)
+* security: MD5 digests. (line 4442)
* SEIII: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* semi-colon: Syntax of ncap2 statements.
- (line 5702)
+ (line 5758)
* separator: ncks netCDF Kitchen Sink.
- (line 9769)
+ (line 9834)
* server: Large Datasets. (line 1321)
-* server <1>: OPeNDAP. (line 1936)
+* server <1>: OPeNDAP. (line 1938)
* server <2>: Retaining Retrieved Files.
- (line 2096)
+ (line 2098)
* server <3>: Retaining Retrieved Files.
- (line 2104)
+ (line 2106)
* Server-Side Distributed Data Reduction & Analysis: Proposals for Institutional Funding.
- (line 11135)
-* server-side processing: OPeNDAP. (line 2062)
+ (line 11241)
+* server-side processing: OPeNDAP. (line 2064)
* server-side processing <1>: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* 'set_miss()': Missing values ncap2.
- (line 6360)
+ (line 6416)
* 'sftp': Windows Operating System.
(line 509)
-* 'sftp' <1>: Remote storage. (line 1822)
+* 'sftp' <1>: Remote storage. (line 1824)
* SGI: Compatability. (line 389)
* Sh shell: Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* shared memory machines: Memory Requirements.
(line 1358)
-* shared memory parallelism: OpenMP Threading. (line 1545)
+* shared memory parallelism: OpenMP Threading. (line 1547)
* shell: Large Numbers of Files.
(line 1242)
-* shell <1>: Subsetting Files. (line 2636)
-* shell <2>: UDUnits Support. (line 3840)
-* shell <3>: Examples ncap2. (line 8033)
+* shell <1>: Subsetting Files. (line 2640)
+* shell <2>: UDUnits Support. (line 3845)
+* shell <3>: Examples ncap2. (line 8089)
* shell <4>: ncbo netCDF Binary Operator.
- (line 8658)
+ (line 8723)
* shell <5>: Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* SIGNEDNESS: Performance. (line 1487)
* SIN: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* sine function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* single-precision: Intrinsic mathematical methods.
- (line 8184)
+ (line 8240)
* SINH: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* size(): Methods and functions.
- (line 6473)
-* SLD (Swath-like Data): Where statement. (line 6641)
-* SMP: OpenMP Threading. (line 1545)
-* 'sort': Sort methods. (line 6752)
+ (line 6529)
+* SLD (Swath-like Data): Where statement. (line 6697)
+* SMP: OpenMP Threading. (line 1547)
+* 'sort': Sort methods. (line 6808)
* sort alphabetically: ncks netCDF Kitchen Sink.
- (line 9454)
+ (line 9519)
* sort alphabetically <1>: Filters for 'ncks'.
- (line 9918)
+ (line 9983)
* source code: Availability. (line 307)
* spatial distribution: Global Distribution of Long-term Average.
- (line 11530)
+ (line 11634)
* special attributes: ncks netCDF Kitchen Sink.
- (line 9505)
+ (line 9570)
* special characters: ncatted netCDF Attribute Editor.
- (line 8496)
+ (line 8561)
* speed: Libraries. (line 566)
* speed <1>: Temporary Output Files.
(line 956)
@@ -15277,294 +15396,296 @@ General Index
* speed <3>: Performance. (line 1479)
* speed <4>: Metadata Optimization.
(line 1524)
-* speed <5>: Missing Values. (line 4073)
-* speed <6>: ncrename netCDF Renamer.
- (line 10632)
-* 'sqravg': Operation Types. (line 4711)
+* speed <5>: Missing Values. (line 4078)
+* speed <6>: ncatted netCDF Attribute Editor.
+ (line 8393)
+* speed <7>: ncrename netCDF Renamer.
+ (line 10709)
+* 'sqravg': Operation Types. (line 4767)
* sqravg(): Methods and functions.
- (line 6435)
-* 'sqrt': Operation Types. (line 4711)
+ (line 6491)
+* 'sqrt': Operation Types. (line 4767)
* SQRT: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* square root function: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* SSDDRA: Proposals for Institutional Funding.
- (line 11135)
+ (line 11241)
* SSH: Windows Operating System.
(line 509)
* SSH <1>: Retaining Retrieved Files.
- (line 2093)
+ (line 2095)
* sshort(): Methods and functions.
- (line 6529)
-* standard deviation: Operation Types. (line 4711)
-* standard deviation <1>: Operation Types. (line 4791)
+ (line 6585)
+* standard deviation: Operation Types. (line 4767)
+* standard deviation <1>: Operation Types. (line 4847)
* standard deviation <2>: Annual Average over Regions.
- (line 11633)
+ (line 11737)
* standard input: Large Numbers of Files.
(line 1225)
* standard input <1>: nces netCDF Ensemble Statistics.
- (line 8947)
+ (line 9012)
* standard input <2>: ncecat netCDF Ensemble Concatenator.
- (line 9113)
+ (line 9178)
* standard input <3>: ncra netCDF Record Averager.
- (line 10449)
+ (line 10514)
* standard input <4>: ncrcat netCDF Record Concatenator.
- (line 10519)
+ (line 10584)
* 'standard_name': Auxiliary Coordinates.
- (line 3659)
-* 'stat() system call': Buffer sizes. (line 4456)
+ (line 3664)
+* 'stat() system call': Buffer sizes. (line 4512)
* statement: Syntax of ncap2 statements.
- (line 5688)
+ (line 5744)
* static linking: Libraries. (line 565)
* 'stdin': Large Numbers of Files.
(line 1225)
* 'stdin' <1>: File List Attributes.
- (line 5401)
+ (line 5457)
* 'stdin' <2>: nces netCDF Ensemble Statistics.
- (line 8947)
+ (line 9012)
* 'stdin' <3>: ncecat netCDF Ensemble Concatenator.
- (line 9113)
+ (line 9178)
* 'stdin' <4>: ncra netCDF Record Averager.
- (line 10449)
+ (line 10514)
* 'stdin' <5>: ncrcat netCDF Record Concatenator.
- (line 10519)
-* Steve Emmerson: Contributors. (line 11036)
-* stride: Hyperslabs. (line 3214)
-* stride <1>: Stride. (line 3277)
-* stride <2>: Multislabs. (line 3504)
-* stride <3>: UDUnits Support. (line 3831)
+ (line 10584)
+* Steve Emmerson: Contributors. (line 11142)
+* stride: Hyperslabs. (line 3219)
+* stride <1>: Stride. (line 3282)
+* stride <2>: Multislabs. (line 3509)
+* stride <3>: UDUnits Support. (line 3836)
* stride <4>: ncra netCDF Record Averager.
- (line 10457)
+ (line 10522)
* stride <5>: ncra netCDF Record Averager.
- (line 10488)
+ (line 10553)
* stride <6>: ncrcat netCDF Record Concatenator.
- (line 10527)
+ (line 10592)
* stride <7>: ncrcat netCDF Record Concatenator.
- (line 10568)
+ (line 10633)
* strings: ncatted netCDF Attribute Editor.
- (line 8505)
-* Stu Muller: Contributors. (line 11088)
-* stub: Remote storage. (line 1894)
-* sub-cycle: Subcycle. (line 3389)
-* subcycle: Subcycle. (line 3389)
-* subsetting: Subsetting Files. (line 2403)
+ (line 8570)
+* Stu Muller: Contributors. (line 11194)
+* stub: Remote storage. (line 1896)
+* sub-cycle: Subcycle. (line 3394)
+* subcycle: Subcycle. (line 3394)
+* subsetting: Subsetting Files. (line 2407)
* subsetting <1>: Subsetting Coordinate Variables.
- (line 2661)
-* subsetting <2>: CF Conventions. (line 5510)
+ (line 2665)
+* subsetting <2>: CF Conventions. (line 5566)
* subsetting <3>: Filters for 'ncks'.
- (line 9924)
+ (line 9989)
* subsetting <4>: Filters for 'ncks'.
- (line 10015)
+ (line 10080)
* 'subtract': ncbo netCDF Binary Operator.
- (line 8628)
+ (line 8693)
* subtracting data: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* subtraction: Intrinsic mathematical methods.
- (line 8078)
+ (line 8134)
* subtraction <1>: ncbo netCDF Binary Operator.
- (line 8610)
+ (line 8675)
* summary: Summary. (line 290)
* Sun: Compatability. (line 389)
* swap space: Large Datasets. (line 1308)
* swap space <1>: Memory Requirements.
(line 1351)
-* swap space <2>: RAM disks. (line 4487)
-* Swath-like Data (SLD): Where statement. (line 6641)
+* swap space <2>: RAM disks. (line 4543)
+* Swath-like Data (SLD): Where statement. (line 6697)
* switches: Command Line Options.
- (line 1610)
+ (line 1612)
* symbolic links: Symbolic Links. (line 529)
* symbolic links <1>: Statistics vs. Concatenation.
(line 1085)
* symbolic links <2>: Large Numbers of Files.
(line 1267)
* symbolic links <3>: ncbo netCDF Binary Operator.
- (line 8672)
+ (line 8737)
* symbolic links <4>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10151)
-* synchronous file access: Remote storage. (line 1822)
+ (line 10216)
+* synchronous file access: Remote storage. (line 1824)
* synonym: Symbolic Links. (line 539)
* syntax: Syntax of ncap2 statements.
- (line 5688)
-* System calls: Buffer sizes. (line 4456)
-* Takeshi Enomoto: Contributors. (line 11098)
+ (line 5744)
+* System calls: Buffer sizes. (line 4512)
+* Takeshi Enomoto: Contributors. (line 11204)
* TAN: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* TANH: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* temporary files: Temporary Output Files.
(line 941)
-* temporary files <1>: RAM disks. (line 4567)
+* temporary files <1>: RAM disks. (line 4623)
* temporary output files: Temporary Output Files.
(line 941)
-* temporary output files <1>: RAM disks. (line 4567)
+* temporary output files <1>: RAM disks. (line 4623)
* temporary output files <2>: ncrename netCDF Renamer.
- (line 10617)
+ (line 10694)
* TeXinfo: Availability. (line 315)
* threads: Memory Requirements.
(line 1358)
* threads <1>: Single and Multi-file Operators.
(line 1433)
-* threads <2>: OpenMP Threading. (line 1545)
-* THR_NBR: OpenMP Threading. (line 1571)
-* 'time': UDUnits Support. (line 3822)
-* 'time' <1>: ARM Conventions. (line 5564)
-* time-averaging: Examples ncap2. (line 8056)
+* threads <2>: OpenMP Threading. (line 1547)
+* THR_NBR: OpenMP Threading. (line 1573)
+* 'time': UDUnits Support. (line 3827)
+* 'time' <1>: ARM Conventions. (line 5620)
+* time-averaging: Examples ncap2. (line 8112)
* time-averaging <1>: Daily data in one file.
- (line 11165)
+ (line 11271)
* time-averaging <2>: Daily data in one file.
- (line 11179)
+ (line 11285)
* time-averaging <3>: Monthly data in one file.
- (line 11199)
+ (line 11305)
* time-averaging <4>: Monthly data in one file.
- (line 11202)
+ (line 11308)
* time-averaging <5>: One time point one file.
- (line 11228)
+ (line 11334)
* time-averaging <6>: Global Distribution of Long-term Average.
- (line 11530)
+ (line 11634)
* time-averaging <7>: Annual Average over Regions.
- (line 11633)
-* time-averaging <8>: Monthly Cycle. (line 11924)
-* timestamp: History Attribute. (line 5373)
-* 'time_offset': ARM Conventions. (line 5564)
-* total: Operation Types. (line 4711)
+ (line 11737)
+* time-averaging <8>: Monthly Cycle. (line 12028)
+* timestamp: History Attribute. (line 5429)
+* 'time_offset': ARM Conventions. (line 5620)
+* total: Operation Types. (line 4767)
* transpose: C and Fortran Index Conventions.
- (line 3133)
+ (line 3137)
* transpose <1>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10243)
+ (line 10308)
* TREFHT: Promoting Single-precision to Double.
- (line 5151)
+ (line 5207)
* TRUNC: Intrinsic mathematical methods.
- (line 8081)
+ (line 8137)
* 'trunc()': Automatic type conversion.
- (line 4943)
-* truncate (groups): Flattening Groups. (line 2729)
+ (line 4999)
+* truncate (groups): Flattening Groups. (line 2733)
* truncation function: Intrinsic mathematical methods.
- (line 8081)
-* truth condition: Mask condition. (line 10852)
+ (line 8137)
+* truth condition: Mask condition. (line 10958)
* truth condition <1>: Normalization and Integration.
- (line 10983)
-* 'ttl': Operation Types. (line 4711)
+ (line 11089)
+* 'ttl': Operation Types. (line 4767)
* ttl(): Methods and functions.
- (line 6447)
-* type conversion: Type Conversion. (line 4858)
+ (line 6503)
+* type conversion: Type Conversion. (line 4914)
* type(): Methods and functions.
- (line 6477)
+ (line 6533)
* ubyte(): Methods and functions.
- (line 6540)
+ (line 6596)
* UDUnits: Compatability. (line 398)
-* UDUnits <1>: UDUnits Support. (line 3769)
-* UDUnits <2>: CF Conventions. (line 5432)
+* UDUnits <1>: UDUnits Support. (line 3774)
+* UDUnits <2>: CF Conventions. (line 5488)
* uint(): Methods and functions.
- (line 6544)
+ (line 6600)
* 'ulimit': Large Datasets. (line 1321)
* unary operations: Memory for ncap2. (line 1440)
* underlying file format: Determining File Format.
- (line 2211)
+ (line 2213)
* UNICOS: Large Datasets. (line 1321)
* Unidata: Compatability. (line 398)
* Unidata <1>: netCDF2/3/4 and HDF4/5 Support.
(line 616)
-* Unidata <2>: UDUnits Support. (line 3769)
-* union: Subsetting Files. (line 2403)
-* union <1>: Subsetting Files. (line 2509)
+* Unidata <2>: UDUnits Support. (line 3774)
+* union: Subsetting Files. (line 2407)
+* union <1>: Subsetting Files. (line 2513)
* union of files: Appending Variables.
(line 1051)
* unit64(): Methods and functions.
- (line 6548)
-* 'units': UDUnits Support. (line 3769)
-* 'units' <1>: UDUnits Support. (line 3790)
-* 'units' <2>: UDUnits Support. (line 3822)
+ (line 6604)
+* 'units': UDUnits Support. (line 3774)
+* 'units' <1>: UDUnits Support. (line 3795)
+* 'units' <2>: UDUnits Support. (line 3827)
* 'units' <3>: ncatted netCDF Attribute Editor.
- (line 8553)
+ (line 8618)
* 'units' <4>: ncatted netCDF Attribute Editor.
- (line 8556)
+ (line 8621)
* 'units' <5>: ncflint netCDF File Interpolator.
- (line 9338)
+ (line 9403)
* UNIX: Compatability. (line 398)
* UNIX <1>: Windows Operating System.
(line 507)
* UNIX <2>: Large Numbers of Files.
(line 1242)
* UNIX <3>: Command Line Options.
- (line 1610)
+ (line 1612)
* UNIX <4>: Specifying Input Files.
- (line 1688)
+ (line 1690)
* UNIX <5>: Filters for 'ncks'.
- (line 9823)
+ (line 9888)
* unlimited dimension: ncecat netCDF Ensemble Concatenator.
- (line 9067)
-* 'unmap': Sort methods. (line 6752)
+ (line 9132)
+* 'unmap': Sort methods. (line 6808)
* unpack(): Methods and functions.
- (line 6466)
-* 'unpack(x)': Packed data. (line 4574)
-* unpacking: OPeNDAP. (line 2000)
-* unpacking <1>: Packed data. (line 4574)
+ (line 6522)
+* 'unpack(x)': Packed data. (line 4630)
+* unpacking: OPeNDAP. (line 2002)
+* unpacking <1>: Packed data. (line 4630)
* unpacking <2>: ncecat netCDF Ensemble Concatenator.
- (line 9140)
+ (line 9205)
* unpacking <3>: ncpdq netCDF Permute Dimensions Quickly.
- (line 10065)
+ (line 10130)
* unpacking <4>: ncrcat netCDF Record Concatenator.
- (line 10531)
-* URL: Remote storage. (line 1822)
+ (line 10596)
+* URL: Remote storage. (line 1824)
* 'User Guide': Availability. (line 315)
* ushort(): Methods and functions.
- (line 6542)
-* value list: Attributes. (line 6144)
+ (line 6598)
+* value list: Attributes. (line 6200)
* variable names: ncrename netCDF Renamer.
- (line 10585)
+ (line 10650)
* variables, appending: Annual Average over Regions.
- (line 11633)
-* variance: Operation Types. (line 4711)
-* version: Operator Version. (line 5595)
+ (line 11737)
+* variance: Operation Types. (line 4767)
+* version: Operator Version. (line 5651)
* Vista (Microsoft operating system): Windows Operating System.
(line 488)
* Weather and Research Forecast (WRF) Model: Where statement.
- (line 6641)
+ (line 6697)
* weighted average: ncwa netCDF Weighted Averager.
- (line 10758)
-* weighted average <1>: Monthly Cycle. (line 11924)
-* Wenshan Wang: Contributors. (line 11108)
-* 'wget': Remote storage. (line 1822)
-* where(): Where statement. (line 6590)
-* while(): Loops. (line 6697)
-* whitespace: UDUnits Support. (line 3831)
+ (line 10864)
+* weighted average <1>: Monthly Cycle. (line 12028)
+* Wenshan Wang: Contributors. (line 11214)
+* 'wget': Remote storage. (line 1824)
+* where(): Where statement. (line 6646)
+* while(): Loops. (line 6753)
+* whitespace: UDUnits Support. (line 3836)
* wildcards: Specifying Input Files.
- (line 1682)
-* wildcards <1>: Subsetting Files. (line 2561)
+ (line 1684)
+* wildcards <1>: Subsetting Files. (line 2565)
* wildcards <2>: ncatted netCDF Attribute Editor.
- (line 8357)
+ (line 8422)
* wildcards <3>: ncatted netCDF Attribute Editor.
- (line 8564)
+ (line 8629)
* 'WIN32': Windows Operating System.
(line 503)
* Windows: Compatability. (line 389)
* Windows <1>: Windows Operating System.
(line 488)
-* wrapped coordinates: Hyperslabs. (line 3249)
+* wrapped coordinates: Hyperslabs. (line 3254)
* wrapped coordinates <1>: Wrapped Coordinates.
- (line 3609)
-* wrapped coordinates <2>: Irregular grids. (line 7026)
+ (line 3614)
+* wrapped coordinates <2>: Irregular grids. (line 7082)
* wrapped coordinates <3>: Filters for 'ncks'.
- (line 10054)
+ (line 10119)
* wrapped filenames: Specifying Input Files.
- (line 1748)
-* WRF: Irregular grids. (line 7084)
+ (line 1750)
+* WRF: Irregular grids. (line 7140)
* WRF (Weather and Research Forecast Model): Where statement.
- (line 6641)
+ (line 6697)
* WWW documentation: Availability. (line 315)
* 'xargs': Large Numbers of Files.
(line 1242)
* 'xargs' <1>: Specifying Output Files.
- (line 1807)
+ (line 1809)
* 'xlC': Compatability. (line 407)
* 'xlc': Compatability. (line 407)
* XML: ncks netCDF Kitchen Sink.
- (line 9739)
+ (line 9804)
* XP (Microsoft operating system): Windows Operating System.
(line 488)
-* 'xpl': Chunking. (line 4161)
-* 'xst': Chunking. (line 4161)
-* 'xst' <1>: Chunking. (line 4220)
+* 'xpl': Chunking. (line 4186)
+* 'xst': Chunking. (line 4186)
+* 'xst' <1>: Chunking. (line 4245)
* Yorick: Philosophy. (line 913)
* Yorick <1>: Performance. (line 1490)
diff --git a/doc/nco.xml b/doc/nco.xml
index 2eb7fbf..4330199 100644
--- a/doc/nco.xml
+++ b/doc/nco.xml
@@ -118,14 +118,14 @@ 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 4.4.6">4.4.6</set>
-<set name="doc-edition" line=" doc-edition 4.4.6">4.4.6</set>
+<set name="nco-edition" line=" nco-edition 4.4.7">4.4.7</set>
+<set name="doc-edition" line=" doc-edition 4.4.7">4.4.7</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 1 October 2014">1 October 2014</set>
-<set name="update-month" line=" update-month October 2014">October 2014</set>
+<set name="update-date" line=" update-date 26 November 2014">26 November 2014</set>
+<set name="update-month" line=" update-month November 2014">November 2014</set>
-<settitle spaces=" "><acronym><acronymword>NCO</acronymword></acronym> 4.4.6 User Guide</settitle>
+<settitle spaces=" "><acronym><acronymword>NCO</acronymword></acronym> 4.4.7 User Guide</settitle>
<!-- c Uncomment following line to produce guide in smallbook format -->
<!-- c @smallbook -->
@@ -509,8 +509,8 @@ ncflint, ncks, ncra, ncrcat, ncrename, ncwa">
</ignore>
<title spaces=" ">NCO User Guide</title>
<subtitle spaces=" ">A suite of netCDF operators</subtitle>
-<subtitle spaces=" ">Edition 4.4.6, for <acronym><acronymword>NCO</acronymword></acronym> Version 4.4.6</subtitle>
-<subtitle spaces=" ">October 2014</subtitle>
+<subtitle spaces=" ">Edition 4.4.7, for <acronym><acronymword>NCO</acronymword></acronym> Version 4.4.7</subtitle>
+<subtitle spaces=" ">November 2014</subtitle>
<author spaces=" ">by Charlie Zender</author>
<author spaces=" ">Department of Earth System Science</author>
@@ -586,8 +586,8 @@ 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 4.4.6.
-It was last updated 1 October 2014.
+<para>This documentation is for <acronym><acronymword>NCO</acronymword></acronym> version 4.4.7.
+It was last updated 26 November 2014.
Corrections, additions, and rewrites of this documentation are very
welcome.
</para>
@@ -869,7 +869,7 @@ 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 (4.4.6).
+<para>There are twelve operators in the current version (4.4.7).
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>).
@@ -1648,7 +1648,7 @@ We usually reply to the forum message, not to the original poster.
see if that feature is already on the <uref><urefurl>file:./TODO</urefurl><urefdesc>TODO</urefdesc></uref> list.
If it is, why not implement that feature yourself and send us the patch?
If the feature is not yet on the list, then send a note to the
-<uref><urefurl>http://sf.net/projects/nco/forums/forum/9829</urefurl><urefdesc spaces=" ">NCO Discussion forum</urefdesc></uref>.
+<uref><urefurl>http://sf.net/p/nco/discussion/9829</urefurl><urefdesc spaces=" ">NCO Discussion forum</urefdesc></uref>.
</para>
<para>Read the manual before reporting a bug or posting a help request.
Sending questions whose answers are not in the manual is the best
@@ -1670,7 +1670,7 @@ 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>).
Post your help request to the
-<uref><urefurl>http://sf.net/projects/nco/forums/forum/9830</urefurl><urefdesc spaces=" ">NCO Help forum</urefdesc></uref>.
+<uref><urefurl>http://sf.net/p/nco/discussion/9830</urefurl><urefdesc spaces=" ">NCO Help forum</urefdesc></uref>.
</para>
<para>If you think you used the right command when <acronym><acronymword>NCO</acronymword></acronym> misbehaves,
then you might have found a bug.
@@ -2818,6 +2818,9 @@ penalty of copying the entire output file unless the expansion exceeds
the amount of header padding exceeded.
This can be beneficial when it is known that some metadata will be added
at a future date.
+The operators which benefit most from judicious use of header padding
+are <command>ncatted</command> and <command>ncrename</command>, since they only alter
+metadata.
</para>
<para>This optimization exploits the netCDF library <code>nc__enddef()</code>
function, which behaves differently with different versions of netCDF.
@@ -3987,7 +3990,9 @@ netCDF3 (classic and 64bit), netCDF4 (classic and extended), HDF4, HDF5,
HDF-EOS (version 2 or 5), and DAP.
The switch determines the output format written in the comment:
<footnote><para>The switches <samp>-5</samp>, <samp>--5</samp>, and <samp>pnetcdf</samp> are
-reserved for PnetCDF files, i.e., <code>NC_FORMAT_PNETCDF</code>.</para></footnote>
+reserved for PnetCDF files, i.e., <code>NC_FORMAT_PNETCDF</code>.
+Such files are similar to netCDF3 classic files, yet also support
+64-bit offsets and the additional netCDF4 atomic types.</para></footnote>
</para><example endspaces=" ">
<pre xml:space="preserve">ncks --fl_fmt=classic in.nc foo_3c.nc # netCDF3 classic
ncks --fl_fmt=64bit in.nc foo_364.nc # netCDF3 64bit
@@ -5267,36 +5272,38 @@ the last <var>N</var> elements of a hyperslab.
Negative integers as <var>min</var> or <var>max</var> elements of a hyperslab
specification indicate offsets from the end (Python also uses this
convention).
-Consistent with this convention, the value <samp>-0</samp> (negative zero)
-indicates the last element of a dimension, even though negative zero
-is algebraically equivalent to zero.
+Consistent with this convention, the value <samp>-1</samp> (negative one)
+indicates the last element of a dimension, and negative zero is
+algebraically equivalent to zero and so indicates the first element of a
+dimension.
Previously, for example, <samp>-d time,-2,-1</samp> caused a domain error.
-Now it means select the second-to-last and penultimate timesteps.
-Whereas <samp>-d time,0</samp> and <samp>-d time,-0</samp> refer to the first and
-last timesteps, respectively.
+Now it means select the penultimate and last timesteps, independent of
+the size of the <code>time</code> dimension.
+Select only the first and last timesteps, respectively, with
+<samp>-d time,0</samp> and <samp>-d time,-1</samp>.
Negative integers work for <var>min</var> and <var>max</var> indices, though not
for <var>stride</var>.
</para><example endspaces=" ">
-<pre xml:space="preserve"># Second through second-to-last longitudes
+<pre xml:space="preserve"># Second through penultimate longitudes
ncks -d lon,1,-2 in.nc out.nc
# Second through last longitude
-ncks -d lon,1,-0 in.nc out.nc
-# Third-to-last to penultimate longitude
+ncks -d lon,1,-1 in.nc out.nc
+# Second-to-last to last longitude
ncks -d lon,-3,-1 in.nc out.nc
-# Third-to-last to last longitude
+# Second-to-last to last longitude
ncks -d lon,-3, in.nc out.nc
</pre></example>
<noindent></noindent>
<para>The <samp>-F</samp> argument, if any, applies the Fortran index convention
-only to indices specified as positive integers (including zero).
+only to indices specified as positive integers:
</para><example endspaces=" ">
-<pre xml:space="preserve"># First through second-to-last longitudes
+<pre xml:space="preserve"># First through penultimate longitudes
ncks -F -d lon,1,-2 in.nc out.nc (-F affects only start index)
# First through last longitude
-ncks -F -d lon,1,-0 in.nc out.nc
-# Third-to-last to penultimate longitude (-F has no effect)
+ncks -F -d lon,1,-1 in.nc out.nc
+# Second-to-last to penultimate longitude (-F has no effect)
ncks -F -d lon,-3,-1 in.nc out.nc
-# Third-to-last to last longitude (-F has no effect)
+# Second-to-last to last longitude (-F has no effect)
ncks -F -d lon,-3, in.nc out.nc
</pre></example>
@@ -6598,14 +6605,16 @@ important information from being lost.
<cindex index="cp" spaces=" "><indexterm index="cp" number="672"><code>--cnk_byt</code></indexterm></cindex>
<cindex index="cp" spaces=" "><indexterm index="cp" number="673"><code>--cnk_dmn</code></indexterm></cindex>
<cindex index="cp" spaces=" "><indexterm index="cp" number="674"><code>--cnk_map</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="675"><code>--cnk_plc</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="676"><code>--cnk_scl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="677"><code>--chunk_byte</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="678"><code>--chunk_dimension</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="679"><code>--chunk_map</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="680"><code>--chunk_policy</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="681"><code>--chunk_scalar</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="682">chunking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="675"><code>--cnk_min</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="676"><code>--cnk_plc</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="677"><code>--cnk_scl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="678"><code>--chunk_byte</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="679"><code>--chunk_dimension</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="680"><code>--chunk_map</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="681"><code>--chunk_min</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="682"><code>--chunk_policy</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="683"><code>--chunk_scalar</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="684">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>,
@@ -6616,6 +6625,7 @@ Long options:
<samp>--cnk_dmn <var>dmn_nm</var>,<var>cnk_sz</var></samp>,
<samp>--chunk_dimension <var>dmn_nm</var>,<var>cnk_sz</var></samp>&linebreak;,
<samp>--cnk_map <var>cnk_map</var></samp>, <samp>--chunk_map <var>cnk_map</var></samp>,&linebreak;
+<samp>--cnk_min <var>var_sz</var></samp>, <samp>--chunk_min <var>var_sz</var></samp>,&linebreak;
<samp>--cnk_plc <var>cnk_plc</var></samp>, <samp>--chunk_policy <var>cnk_plc</var></samp>,&linebreak;
<samp>--cnk_scl <var>cnk_sz</var></samp>, <samp>--chunk_scalar <var>cnk_sz</var></samp>&linebreak;
</para></cartouche>
@@ -6624,55 +6634,82 @@ Long options:
support a plethora of chunksize options.
Chunking can significantly accelerate or degrade read/write access
to large datasets.
-Dataset chunking issues are described in detail
+Dataset chunking issues are described by <acronym><acronymword>THG</acronymword></acronym> and Unidata
<uref><urefurl>http://www.hdfgroup.org/HDF5/doc/H5.user/Chunking.html</urefurl><urefdesc>here</urefdesc></uref>,
<uref><urefurl>http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_why_it_matters</urefurl><urefdesc>here</urefdesc></uref>,
and
<uref><urefurl>http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_choosing_shapes</urefurl><urefdesc>here</urefdesc></uref>.
+<acronym><acronymword>NCO</acronymword></acronym> authors are working on generalized algorithms and
+applications of chunking strategies (stay tuned for more in 2015).
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="683">chunking policy</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="684">chunking map</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="685">chunksize</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="685">chunking policy</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="686">chunking map</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="687">chunksize</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="688">blocksize</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>,
-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="686">hyperslab</indexterm></cindex>
+Users control four aspects of the chunking implementation.
+These are the <dfn>chunking policy</dfn>, <dfn>chunking map</dfn>,
+<dfn>chunksize</dfn>, and <dfn>minimum chunksize</dfn>.
+The chunking policy determines <emph>which</emph> variables to chunk, and
+the chunking map determines how (with what exact sizes) to chunk
+those variables.
+These are high-level mechanisms that apply to an entire file and all
+variables and dimensions.
+The chunksize option allows per-dimension specification of sizes that
+will override the selected (or default) chunking map.
+</para>
+<para>The <var>var_sz</var> parameter is the minimum size in bytes (not elements)
+of variables to chunk.
+This threshold is intended to restrict use of chunking to variables
+for which it is efficient.
+By default this minimum variable size for chunking is twice the system
+blocksize (when available) and is <w>8192 bytes</w> otherwise.
+Users may set this to any value with the <samp>--cnk_min</samp> switch.
+</para>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="689">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="687">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>).
-Each aspect is intended to have a sensible default, so that most users
-will only need to set one switch to obtain sensible chunking.
-Power users can tune the three switches in tandem to obtain optimal
-performance.
-</para>
-<para>The user specifies the desired chunking policy with the <samp>-P</samp> switch
+<cindex index="cp" spaces=" "><indexterm index="cp" number="690">packing</indexterm></cindex>
+<para>The chunking implementation is similar to 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 hyperslab
+specifications (<pxref label="Hyperslabs"><xrefnodename>Hyperslabs</xrefnodename></pxref>).
+Each aspect is intended to have a sensible default, so that many users
+only need to set one switch to obtain sensible chunking.
+Power users can tune chunking with the three switches in tandem to
+obtain optimal performance.
+</para>
+<para>By default, <acronym><acronymword>NCO</acronymword></acronym> preserves the chunking characteristics
+of the input file in the output file
+<footnote><para>This behavior became the default in November 2014 with
+<acronym><acronymword>NCO</acronymword></acronym> version 4.4.7.
+Prior versions would always use netCDF default chunking in the output
+file when no <acronym><acronymword>NCO</acronymword></acronym> chunking switches were activated, regardless
+of the chunking in the input file.</para></footnote>.
+In other words, preserving chunking requires no switches or user
+intervention.
+</para>
+<para>Users specify the desired chunking policy with the <samp>-P</samp> switch
(or its long option equivalents, <samp>--cnk_plc</samp> and
<samp>--chunk_policy</samp>) and its <var>cnk_plc</var> argument.
As of August, 2014, six chunking policies are implemented:&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="688"><samp>all</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="689"><samp>g2d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="690"><samp>g3d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="691"><samp>r1d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="692"><samp>xpl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="693"><samp>xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="694"><samp>cnk_all</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="695"><samp>cnk_g2d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="696"><samp>cnk_g3d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="697"><samp>cnk_r1d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="698"><samp>cnk_xpl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="699"><samp>cnk_xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="700"><samp>plc_all</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="701"><samp>plc_g2d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="702"><samp>plc_g3d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="703"><samp>plc_r1d</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="704"><samp>plc_xpl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="705"><samp>plc_xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="691"><samp>all</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="692"><samp>g2d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="693"><samp>g3d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="694"><samp>r1d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="695"><samp>xpl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="696"><samp>xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="697"><samp>cnk_all</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="698"><samp>cnk_g2d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="699"><samp>cnk_g3d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="700"><samp>cnk_r1d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="701"><samp>cnk_xpl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="702"><samp>cnk_xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="703"><samp>plc_all</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="704"><samp>plc_g2d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="705"><samp>plc_g3d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="706"><samp>plc_r1d</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="707"><samp>plc_xpl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="708"><samp>plc_xst</samp></indexterm></cindex>
</para><table commandarg="dfn" spaces=" " endspaces=" ">
<tableentry><tableterm><item spaces=" "><itemformat command="dfn">Chunk All Variables</itemformat></item>
</tableterm><tableitem><para>Definition: Chunk all variables possible.
@@ -6694,7 +6731,7 @@ Mnemonic: <emph>G</emph>reater than or equal to <emph>3</emph> <emph>D</emph>ime
</tableterm><tableitem><para>Definition: Chunk all 1-D record variables&linebreak;
Alternate invocation: none&linebreak;
Any specified (with <samp>--cnk_dmn</samp>) record dimension chunksizes will
-be applied to 1-D record variables (and to no other variables).
+be applied only to 1-D record variables (and to no other variables).
Other dimensions may be chunked with their own <samp>--cnk_dmn</samp> options
that will apply to all variables.
<var>cnk_plc</var> key values: <samp>r1d</samp>, <samp>cnk_r1d</samp>, <samp>plc_r1d</samp>&linebreak;
@@ -6705,14 +6742,14 @@ dimension whose chunksize was explicitly set with the <samp>--cnk_dmn</samp> opt
Alternate invocation: none&linebreak;
<var>cnk_plc</var> key values: <samp>xpl</samp>, <samp>cnk_xpl</samp>, <samp>plc_xpl</samp>&linebreak;
Mnemonic: E<emph>XPL</emph>icitly specified dimensions&linebreak;
-</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="dfn">Chunk Variables with Existing Chunk Sizes</itemformat></item>
-</tableterm><tableitem><para>Definition: Chunk all variables possible that are already chunked in the
-input file.
+</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="dfn">Chunk Variables that are already Chunked</itemformat></item>
+</tableterm><tableitem><para>Definition: Chunk only variables that are already chunked in the input
+file.
When used in conjunction with <samp>cnk_map=xst</samp> this option preserves
and copies the chunking parameters from the input to the output file.
Alternate invocation: none&linebreak;
<var>cnk_plc</var> key values: <samp>xst</samp>, <samp>cnk_xst</samp>, <samp>plc_xst</samp>&linebreak;
-Mnemonic: E<emph>X</emph>i<emph>ST</emph>ing chunk sizes&linebreak;
+Mnemonic: E<emph>X</emph>i<emph>ST</emph>ing chunked variables&linebreak;
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="dfn">Unchunking</itemformat></item>
</tableterm><tableitem><para>Definition: Unchunk all variables possible.
The <acronym><acronymword>HDF5</acronymword></acronym> storge layer requires that record variables (i.e.,
@@ -6729,12 +6766,12 @@ 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="706">chunking map</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="707">degenerate dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="708"><var>cnk_map</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="709"><code>-M <var>cnk_map</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="710"><code>--cnk_map <var>cnk_map</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="711"><code>--map <var>cnk_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="709">chunking map</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="710">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="711"><var>cnk_map</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="712"><code>-M <var>cnk_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="713"><code>--cnk_map <var>cnk_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="714"><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
@@ -6742,27 +6779,32 @@ is called the <dfn>chunking map</dfn>.
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="712"><samp>dmn</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="713"><samp>scl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="714"><samp>prd</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="715"><samp>lfp</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="716"><samp>rd1</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="717"><samp>xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="718"><samp>rew</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="719"><samp>cnk_dmn</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="720"><samp>cnk_scl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="721"><samp>cnk_prd</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="722"><samp>cnk_lfp</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="723"><samp>cnk_rd1</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="724"><samp>cnk_xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="725"><samp>map_dmn</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="726"><samp>map_scl</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="727"><samp>map_prd</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="728"><samp>map_lfp</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="729"><samp>map_rd1</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="730"><samp>map_xst</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="731">Chris Barker</indexterm></cindex>
+Eight chunking maps are currently implemented:&linebreak;
+<cindex index="cp" spaces=" "><indexterm index="cp" number="715"><samp>dmn</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="716"><samp>scl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="717"><samp>prd</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="718"><samp>lfp</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="719"><samp>rd1</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="720"><samp>xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="721"><samp>rew</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="722"><samp>nc4</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="723"><samp>cnk_dmn</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="724"><samp>cnk_scl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="725"><samp>cnk_prd</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="726"><samp>cnk_lfp</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="727"><samp>cnk_rd1</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="728"><samp>cnk_xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="729"><samp>cnk_rew</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="730"><samp>cnk_nc4</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="731"><samp>map_dmn</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="732"><samp>map_scl</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="733"><samp>map_prd</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="734"><samp>map_lfp</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="735"><samp>map_rd1</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="736"><samp>map_xst</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="737"><samp>map_rew</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="738"><samp>map_nc4</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="739">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.
@@ -6821,6 +6863,16 @@ Russ Rew explains the motivation and derivation for this strategy
<uref><urefurl>http://www.unidata.ucar.edu/blogs/developer/en/entry/chunking_data_choosing_shapes</urefurl><urefdesc spaces="\n">here</urefdesc></uref>.&linebreak;
<var>cnk_map</var> key values: <samp>rew</samp>, <samp>cnk_rew</samp>, <samp>map_rew</samp>&linebreak;
Mnemonic: Russ <emph>REW</emph>&linebreak;
+</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="dfn">Chunksizes use netCDF4 defaults</itemformat></item>
+</tableterm><tableitem><para>Definition: Chunksizes are determined by the underlying netCDF library.
+All variables selected by the current chunking policy have their
+chunksizes determined by netCDF library defaults.
+The default algorithm netCDF uses to determine chunksizes has changed
+through the years, and thus depends on the netCDF library version.
+This map can be used to reset (portions of) previously chunked files to
+default chunking values.&linebreak;
+<var>cnk_map</var> key values: <samp>nc4</samp>, <samp>cnk_nc4</samp>, <samp>map_nc4</samp>&linebreak;
+Mnemonic: <emph>N</emph>et<emph>C</emph>DF<emph>4</emph>&linebreak;
</para></tableitem></tableentry></table>
<noindent></noindent>
<para>It is possible to combine the above chunking map algorithms with
@@ -6834,12 +6886,29 @@ chunksize, respectively.
The <samp>--cnk_dmn</samp> option may be used as many times as necessary.
</para>
<para>The default behavior of chunking depends on several factors.
-When no chunking options are explicitly specified by the user, then
+As mentioned above, when no chunking options are explicitly specified by
+the user, then <acronym><acronymword>NCO</acronymword></acronym> preserves the chunking characteristics of
+the input file in the output file.
+This is equivalent to specifying both <var>cnk_plc</var> and <var>cnk_map</var>
+as &textldquo;existing&textrdquo;, i.e., <samp>--cnk_plc=xst --cnk_map=xst</samp>.
+If
output netCDF4 files are chunked with the default behavior of the
netCDF4 library.
-When any chunking option <emph>except</emph> <samp>cnk_plc</samp> or <samp>cnk_map</samp>
-is specified, then <samp>cnk_plc</samp> and <samp>cnk_map</samp> are set to
-<samp>g2d</samp> and <samp>rd1</samp>, respectively.
+</para>
+<para>When any chunking parameter <emph>except</emph> <samp>cnk_plc</samp> or
+<samp>cnk_map</samp> is specified (such as <samp>cnk_dmn</samp> or
+<samp>cnk_sz_scl</samp>), then the &textldquo;existing&textrdquo; policy and map are
+retained and the output chunksizes are modified where necessary in
+accord with the user-specified parameter.
+When <samp>cnk_map</samp> is specified and <samp>cnk_plc</samp> is not, then
+<acronym><acronymword>NCO</acronymword></acronym> picks (what it thinks is) the optimal chunking policy.
+This has always been policy <samp>map_g2d</samp>.
+When <samp>cnk_plc</samp> is specified and <samp>cnk_map</samp> is not, then
+<acronym><acronymword>NCO</acronymword></acronym> picks (what it thinks is) the optimal chunking map.
+This has always been map <samp>map_rd1</samp>.
+</para>
+<para>To start afresh and return to netCDF4 chunking defaults, select
+<samp>cnk_map=nc4</samp>.
</para>
<html endspaces=" ">
<a name="xmp_cnk"></a> <!&textndash; http://nco.sf.net/nco.html#xmp_cnk &textndash;>
@@ -6898,7 +6967,7 @@ For example,
Without the <samp>r1d</samp> policy, <code>time</code> chunks would change in all
variables.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="732">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="740">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,
@@ -6924,12 +6993,12 @@ 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="733"><code>-L</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="734"><code>--deflate</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="735"><code>--dfl_lvl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="736">Lempel-Ziv deflation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="737">compression</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="738">deflation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="741"><code>-L</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="742"><code>--deflate</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="743"><code>--dfl_lvl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="744">Lempel-Ziv deflation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="745">compression</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="746">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>,
@@ -6987,15 +7056,15 @@ 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="739"><code>--md5_digest</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="740"><code>--md5_dgs</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="741"><code>--md5_wrt_att</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="742"><code>--md5_write_attribute</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="743">integrity</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="744">security</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="745">digest</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="746">hash</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="747">MD5 digest</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="747"><code>--md5_digest</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="748"><code>--md5_dgs</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="749"><code>--md5_wrt_att</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="750"><code>--md5_write_attribute</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="751">integrity</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="752">security</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="753">digest</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="754">hash</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="755">MD5 digest</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability:
<command>ncecat</command>, <command>ncks</command>, <command>ncrcat</command>&linebreak;
@@ -7090,12 +7159,12 @@ 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="748"><code>--bfr_sz_hnt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="749">Buffer sizes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="750">File buffers</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="751"><command>stat() system call</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="752">I/O block size</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="753">System calls</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="756"><code>--bfr_sz_hnt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="757">Buffer sizes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="758">File buffers</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="759"><command>stat() system call</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="760">I/O block size</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="761">System calls</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: &linebreak;
@@ -7135,19 +7204,19 @@ 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="754"><code>--ram_all</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="755"><code>--create_ram</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="756"><code>--open_ram</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="757"><code>--diskless_all</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="758"><acronym><acronymword>RAM</acronymword></acronym> disks</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="759"><acronym><acronymword>RAM</acronymword></acronym> files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="760"><code>NC_DISKLESS</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="761">diskless files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="762">memory requirements</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="763">memory available</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="764"><acronym><acronymword>RAM</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="765">swap space</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="766">peak memory usage</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="762"><code>--ram_all</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="763"><code>--create_ram</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="764"><code>--open_ram</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="765"><code>--diskless_all</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="766"><acronym><acronymword>RAM</acronymword></acronym> disks</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="767"><acronym><acronymword>RAM</acronymword></acronym> files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="768"><code>NC_DISKLESS</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="769">diskless files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="770">memory requirements</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="771">memory available</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="772"><acronym><acronymword>RAM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="773">swap space</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="774">peak memory usage</indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: &linebreak;
@@ -7196,7 +7265,7 @@ 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="767"><acronym><acronymword>RAM</acronymword></acronym> variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="775"><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
@@ -7249,9 +7318,9 @@ 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="768">temporary output files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="769">temporary files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="770"><code>--no_tmp_fl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="776">temporary output files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="777">temporary files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="778"><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
@@ -7264,16 +7333,16 @@ 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="771">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="772">unpacking</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="773"><code>add_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="774"><code>scale_factor</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="775"><code>missing_value</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="776"><code>_FillValue</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="777"><command>pack(x)</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="778"><command>unpack(x)</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="779"><code>--hdf_upk</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="780"><code>--hdf_unpack</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="779">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="780">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="781"><code>add_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="782"><code>scale_factor</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="783"><code>missing_value</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="784"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="785"><command>pack(x)</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="786"><command>unpack(x)</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="787"><code>--hdf_upk</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="788"><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;
@@ -7376,8 +7445,8 @@ 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="781">interoperability</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="782"><acronym><acronymword>HDF</acronymword></acronym> unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="789">interoperability</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="790"><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
@@ -7481,27 +7550,27 @@ 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="783">operation types</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="784"><code>avg</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="785"><code>sqravg</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="786"><code>avgsqr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="787"><code>min</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="788"><code>max</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="789"><code>rmssdn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="790"><code>rms</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="791"><code>ttl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="792"><code>sqrt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="793">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="794">mean</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="795">total</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="796">minimum</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="797">maximum</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="798">root-mean-square</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="799">standard deviation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="800">variance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="801"><code>-y <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="802"><code>--operation <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="803"><code>--op_typ <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="791">operation types</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="792"><code>avg</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="793"><code>sqravg</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="794"><code>avgsqr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="795"><code>min</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="796"><code>max</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="797"><code>rmssdn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="798"><code>rms</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="799"><code>ttl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="800"><code>sqrt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="801">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="802">mean</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="803">total</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="804">minimum</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="805">maximum</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="806">root-mean-square</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="807">standard deviation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="808">variance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="809"><code>-y <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="810"><code>--operation <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="811"><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;
@@ -7532,7 +7601,7 @@ 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="804">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="812">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
@@ -7766,7 +7835,7 @@ 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="805">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="813">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
@@ -7791,7 +7860,7 @@ 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="806">standard deviation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="814">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.
@@ -7882,7 +7951,7 @@ 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="807">type conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="815">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;
@@ -7891,10 +7960,10 @@ 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="808">promotion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="809">demotion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="810">automatic type conversion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="811">manual type conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="816">promotion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="817">demotion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="818">automatic type conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="819">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).
@@ -8008,7 +8077,7 @@ 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="812"><code>trunc()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="820"><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
@@ -8016,7 +8085,7 @@ 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="813">C language</indexterm></cindex>
+<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="821">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>.
@@ -8029,7 +8098,7 @@ 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="814">Neil Davis</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="822">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>.
@@ -8048,7 +8117,7 @@ This rounds, for example, <code>1.5d</code> and <code>2.5d</code> to <code>2s</c
and <code>3s</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="815"><acronym><acronymword>IEEE</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="823"><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
@@ -8076,12 +8145,12 @@ 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="816">promotion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="817">implicit conversion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="818"><code>--dbl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="819"><code>--rth_dbl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="820"><code>--flt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="821"><code>--rth_flt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="824">promotion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="825">implicit conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="826"><code>--dbl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="827"><code>--rth_dbl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="828"><code>--flt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="829"><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
@@ -8112,8 +8181,8 @@ 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="822">C language</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="823">Fortran</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="830">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="831">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,
@@ -8284,9 +8353,9 @@ 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="824"><acronym><acronymword>TREFHT</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="825"><acronym><acronymword>CAM3</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="826"><acronym><acronymword>GCM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="832"><acronym><acronymword>TREFHT</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="833"><acronym><acronymword>CAM3</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="834"><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
@@ -8365,8 +8434,8 @@ 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="827">rounding</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="828">random walk</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="835">rounding</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="836">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
@@ -8375,7 +8444,7 @@ 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="829">Michael Prather</indexterm></cindex>
+<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="837">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.
@@ -8384,8 +8453,8 @@ 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="830">mantissa</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="831">exponent</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="838">mantissa</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="839">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>.
@@ -8418,7 +8487,7 @@ agreement.
<!-- c P(>=25500,50000)= ? -->
<!-- c fxm: Use Gaussian distribution/Random Walk -->
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="832">beer</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="840">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>.
@@ -8491,7 +8560,7 @@ 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="833"><command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="841"><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
@@ -8510,17 +8579,17 @@ 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="834">batch mode</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="835">overwriting files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="836">appending to files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="837">force overwrite</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="838">force append</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="839"><code>-O</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="840"><code>-A</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="841"><code>--overwrite</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="842"><code>--ovr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="843"><code>--apn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="844"><code>--append</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="842">batch mode</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="843">overwriting files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="844">appending to files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="845">force overwrite</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="846">force append</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="847"><code>-O</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="848"><code>-A</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="849"><code>--overwrite</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="850"><code>--ovr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="851"><code>--apn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="852"><code>--append</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-O</samp>, <samp>-A</samp>&linebreak;
@@ -8551,13 +8620,13 @@ 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="845"><code>history</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="846">timestamp</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="847">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="848">attributes, global</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="849"><code>-h</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="850"><code>--hst</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="851"><code>--history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="853"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="854">timestamp</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="855">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="856">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="857"><code>-h</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="858"><code>--hst</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="859"><code>--history</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-h</samp>&linebreak;
@@ -8584,7 +8653,7 @@ attributes.
When more than one global attribute fits the case-insensitive search
for &textldquo;history&textrdquo;, the first one found will be used.
<code>history</code> attribute
-<cindex index="cp" spaces=" "><indexterm index="cp" number="852"><command>ncatted</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="860"><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
@@ -8599,14 +8668,14 @@ 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="853"><code>nco_input_file_list</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="854"><code>nco_input_file_number</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="855"><code>stdin</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="856">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="857">attributes, global</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="858"><code>-H</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="859"><code>--fl_lst_in</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="860"><code>--file_list</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="861"><code>nco_input_file_list</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="862"><code>nco_input_file_number</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="863"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="864">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="865">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="866"><code>-H</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="867"><code>--fl_lst_in</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="868"><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;
@@ -8651,21 +8720,21 @@ 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="861"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="862"><acronym><acronymword>CCSM</acronymword></acronym> conventions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="863">UDUnits</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="864"><code>ORO</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="865"><code>area</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="866"><code>datesec</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="867"><code>date</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="868"><code>gw</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="869"><code>hyai</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="870"><code>hyam</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="871"><code>hybi</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="872"><code>hybm</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="873"><code>lat_bnds</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="874"><code>lon_bnds</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="875"><code>msk_*</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="869"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="870"><acronym><acronymword>CCSM</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="871">UDUnits</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="872"><code>ORO</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="873"><code>area</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="874"><code>datesec</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="875"><code>date</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="876"><code>gw</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="877"><code>hyai</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="878"><code>hyam</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="879"><code>hybi</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="880"><code>hybm</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="881"><code>lat_bnds</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="882"><code>lon_bnds</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="883"><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;
@@ -8729,7 +8798,7 @@ 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="876">non-coordinate grid properties</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="884">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>,
@@ -8773,8 +8842,8 @@ 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="877"><code>bounds</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="878">bounds convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="885"><code>bounds</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="886">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
@@ -8796,8 +8865,8 @@ Bounds are subject to the user-specified override switches
<a name="cnv_CF_ncl"></a> <!&textndash; http://nco.sf.net/nco.html#cnv_CF_ncl &textndash;>
<a name="ncl"></a> <!&textndash; http://nco.sf.net/nco.html#ncl &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="879"><code>ancillary_variables</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="880">ancillary variables convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="887"><code>ancillary_variables</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="888">ancillary variables convention</indexterm></cindex>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> version 4.4.5 (July, 2014), <acronym><acronymword>NCO</acronymword></acronym>
supports the <acronym><acronymword>CF</acronymword></acronym> <code>ancillary_variables</code> convention for
described
@@ -8814,17 +8883,17 @@ Ancillary variables are subject to the user-specified override switches
<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="881"><code>coordinates</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="882">coordinates convention</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="883">coordinate variable</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="884">auxiliary coordinates</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="885">subsetting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="886"><code>-C</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="887"><code>-c</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="888"><code>--no-coords</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="889"><code>--no-crd</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="890"><code>--coords</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="891"><code>--crd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="889"><code>coordinates</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="890">coordinates convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="891">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="892">auxiliary coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="893">subsetting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="894"><code>-C</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="895"><code>-c</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="896"><code>--no-coords</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="897"><code>--no-crd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="898"><code>--coords</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="899"><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://cfconventions.org/1.6.html#coordinate-system</urefurl><urefdesc spaces=" ">here</urefdesc></uref>.
@@ -8843,12 +8912,12 @@ switches (including <samp>-c</samp> and <samp>-C</samp>) described in
<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="892"><code>cell_methods</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="893"><code>--cll_mth</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="894"><code>--no_cll_mth</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="895"><code>--cell_methods</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="896"><code>--no_cell_methods</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="897">cell methods convention</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="900"><code>cell_methods</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="901"><code>--cll_mth</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="902"><code>--no_cll_mth</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="903"><code>--cell_methods</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="904"><code>--no_cell_methods</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="905">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://cfconventions.org/1.6.html#cell-methods</urefurl><urefdesc spaces=" ">convention</urefdesc></uref>
@@ -8884,10 +8953,10 @@ 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="898"><acronym><acronymword>ARM</acronymword></acronym> conventions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="899"><code>time_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="900"><code>base_time</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="901"><code>time</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="906"><acronym><acronymword>ARM</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="907"><code>time_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="908"><code>base_time</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="909"><code>time</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: <command>ncrcat</command>&linebreak;
Short options: None&linebreak;
@@ -8923,9 +8992,9 @@ 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="902"><code>history</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="903">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="904">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="910"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="911">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="912">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>
@@ -8936,12 +9005,12 @@ 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="905">version</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="906"><acronym><acronymword>RCS</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="907"><code>-r</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="908"><code>--revision</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="909"><code>--version</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="910"><code>--vrs</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="913">version</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="914"><acronym><acronymword>RCS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="915"><code>-r</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="916"><code>--revision</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="917"><code>--version</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="918"><code>--vrs</code></indexterm></cindex>
<cartouche endspaces=" ">
<para>Availability: All operators&linebreak;
Short options: <samp>-r</samp>&linebreak;
@@ -8975,7 +9044,7 @@ 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="911">command line switches</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="919">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.
@@ -9004,9 +9073,9 @@ 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="912">parser</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="913">lexer</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="914">arithmetic processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="920">parser</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="921">lexer</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="922">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>
<cartouche endspaces=" ">
@@ -9047,11 +9116,11 @@ 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="915">script file</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="916"><code>--script-file</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="917"><code>--fl_spt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="918"><code>--script</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="919"><code>--spt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="923">script file</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="924"><code>--script-file</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="925"><code>--fl_spt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="926"><code>--script</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="927"><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>)
@@ -9060,7 +9129,7 @@ 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="920">derived fields</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="928">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>.
@@ -9071,7 +9140,7 @@ 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="921">appending variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="929">appending variables</indexterm></cindex>
NB: As of 20120515, <command>ncap2</command> is unable to append to files that
already contain the appended dimensions.
</para>
@@ -9112,7 +9181,7 @@ 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="922">derived fields</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="930">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
@@ -9132,49 +9201,49 @@ 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="923">statement</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="924">syntax</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="931">statement</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="932">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="925">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="933">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="926">array syntax</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="927"><code>[]</code> (array delimiters)</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="934">array syntax</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="935"><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="928">array indexing</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="936">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="929">array storage</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="937">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="930">assignment statement</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="931">semi-colon</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="932"><code>;</code> (end of statement)</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="938">assignment statement</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="939">semi-colon</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="940"><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="933">comments</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="934"><code>/*...*/</code> (comment)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="935"><code>//</code> (comment)</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="941">comments</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="942"><code>/*...*/</code> (comment)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="943"><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="936">including files</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="937">nesting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="938"><code>#include</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="944">including files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="945">nesting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="946"><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="939">attribute syntax</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="940"><code>&arobase;</code> (attribute)</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="947">attribute syntax</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="948"><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>
@@ -9184,12 +9253,12 @@ 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="941">expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="949">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="942">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="950">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=" ">
@@ -9218,8 +9287,8 @@ 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="943">broadcasting variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="944">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="951">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="952">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
@@ -9277,7 +9346,7 @@ Consider now
</example>
<noindent></noindent> <para><strong>Binary Operators</strong> &linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="945">binary Operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="953">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
@@ -9339,7 +9408,7 @@ 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="946">conditional Operator</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="954">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
@@ -9359,7 +9428,7 @@ 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="947">clipping operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="955">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
@@ -9390,8 +9459,8 @@ 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="948">defining dimensions in <command>ncap2</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="949"><code>defdim()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="956">defining dimensions in <command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="957"><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);
@@ -9456,9 +9525,9 @@ 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="950">hybrid coordinate system</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="951">left hand casting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="952"><acronym><acronymword>LHS</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="958">hybrid coordinate system</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="959">left hand casting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="960"><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.
@@ -9522,10 +9591,10 @@ 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="953"><code>array</code> function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="954">arrays</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="955">findgen-equivalent</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="956">indgen-equivalent</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="961"><code>array</code> function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="962">arrays</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="963">findgen-equivalent</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="964">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
@@ -9563,7 +9632,7 @@ var_out=array(1+2-2,one,$time); // 1,2,3,4,5,6,7,8,9,10
var_out=array(1,2,three_dmn_rec_var); // 1,3,5,...155,157,159
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="957">hyperslabs</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="965">hyperslabs</indexterm></cindex>
<para>Hyperslabs in <command>ncap2</command> are more limited than hyperslabs with the
other <acronym><acronymword>NCO</acronymword></acronym> operators.
<command>ncap2</command> does not understand the shell command-line syntax
@@ -9680,7 +9749,7 @@ prs(:,1,:,:)=th1
</pre></example>
<noindent></noindent> <para><strong>Reverse method</strong>&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="958">reverse()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="966">reverse()</indexterm></cindex>
Use the <code>reverse()</code> method to reverse a dimension&textrsquo;s elements in a
variable with at least one dimension.
This is equivalent to a negative stride, e.g.,
@@ -9692,7 +9761,7 @@ od_rv=od.reverse($time); // {38,36,34,32,30,28,26,24,22,20}
</example>
<noindent></noindent> <para><strong>Permute method</strong>p&linebreak;
-<cindex index="cp" spaces=" "><indexterm index="cp" number="959">permute()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="967">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.
@@ -9723,7 +9792,7 @@ 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="960">attributes<command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="968">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=" ">
@@ -9741,7 +9810,7 @@ a1($time.size-1)=a1 at max;
</example>
<para>A <emph>value list</emph> can be used on the RHS of an assign...
-<cindex index="cp" spaces=" "><indexterm index="cp" number="961">value list</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="969">value list</indexterm></cindex>
</para><example endspaces=" ">
<verbatim xml:space="preserve">
a1 at trip1={1,2,3} ;
@@ -9773,8 +9842,8 @@ sng_arr[$sng_len]=a1 at long_name; // sng_arr now contains "Kelvin"
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="962">attribute propagation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="963">attribute inheritance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="970">attribute propagation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="971">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></listitem><listitem spaces=" "><prepend>•</prepend><para>Attribute Inheritance: The LHS variable &textldquo;inherits&textrdquo; attributes from an Input variable with the same name
@@ -9801,7 +9870,7 @@ 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="964">number literals <command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="972">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
@@ -9866,7 +9935,7 @@ n6 at units="kelvin" // attribute will be type @code{NC_CHAR}
</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="965">if()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="973">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.
@@ -9949,7 +10018,7 @@ 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="966">print() <command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="974">print() <command>ncap2</command></indexterm></cindex>
<example endspaces=" ">
<pre xml:space="preserve">print(variable_name/attribute name/string, format string);
</pre></example>
@@ -9989,7 +10058,7 @@ 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="967">missing values ncap2</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="975">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=" ">
@@ -10032,7 +10101,7 @@ 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="968"><code>set_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="976"><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.
@@ -10045,23 +10114,23 @@ 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="969"><code>change_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="977"><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="970"><code>get_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="978"><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="971"><code>delete_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="979"><code>delete_miss()</code></indexterm></cindex>
<para>Delete 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="972"><code>number_miss()</code></indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="980"><code>number_miss()</code></indexterm></cindex>
<para>Count the number of missing values a variable contains.
</para></tableitem></tableentry></table>
@@ -10124,26 +10193,26 @@ 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="973">avg()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="981">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="974">sqravg()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="982">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="975">max()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="983">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="976">min()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="984">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="977">rmssdn()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="985">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="978">ttl()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="986">ttl()</indexterm></cindex>
<para>Sum of values
</para></tableitem></tableentry></table>
@@ -10157,19 +10226,19 @@ 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="979">pack()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="987">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="980">pack_byte()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="988">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="981">pack_short()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="989">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="982">pack_int()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="990">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="983">unpack()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="991">unpack()</indexterm></cindex>
<para>The standard unpacking algorithm is applied.
</para></tableitem></tableentry></table>
@@ -10178,13 +10247,13 @@ 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="984">size()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="992">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="985">ndims()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="993">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="986">type()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="994">type()</indexterm></cindex>
<para>Returns the netcdf type (see previous section)
</para></tableitem></tableentry></table>
@@ -10230,38 +10299,38 @@ 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="987">byte()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="995">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="988">char()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="996">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="989">sshort()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="997">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="990">int()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="998">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="991">float()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="999">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="992">double()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1000">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="993">ubyte()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1001">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="994">ushort()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1002">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="995">uint()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1003">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="996">int64()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1004">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="997">unit64()</indexterm></cindex>
+</tableterm><tableitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1005">unit64()</indexterm></cindex>
<para>convert to <code>NC_UINT64</code>, an unsigned 8-byte integer
</para></tableitem></tableentry></table>
@@ -10285,7 +10354,7 @@ 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="998"><acronym><acronymword>RAM</acronymword></acronym> variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1006"><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>
@@ -10300,8 +10369,8 @@ 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="999">ram_write()</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1000">ram_delete()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1007">ram_write()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1008">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
@@ -10323,7 +10392,7 @@ 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="1001">where()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1009">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>
@@ -10392,10 +10461,10 @@ to set its values less than 8 or greater than 80 <w>to 0</w>:
<a name="wrf"></a> <!&textndash; http://nco.sf.net/nco.html#wrf &textndash;>
<a name="sld"></a> <!&textndash; http://nco.sf.net/nco.html#sld &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1002">Weather and Research Forecast (<acronym><acronymword>WRF</acronymword></acronym>) Model</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1003">Swath-like Data (<acronym><acronymword>SLD</acronymword></acronym>)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1004"><acronym><acronymword>WRF</acronymword></acronym> (Weather and Research Forecast Model)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1005"><acronym><acronymword>SLD</acronymword></acronym> (Swath-like Data)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1010">Weather and Research Forecast (<acronym><acronymword>WRF</acronymword></acronym>) Model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1011">Swath-like Data (<acronym><acronymword>SLD</acronymword></acronym>)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1012"><acronym><acronymword>WRF</acronymword></acronym> (Weather and Research Forecast Model)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1013"><acronym><acronymword>SLD</acronymword></acronym> (Swath-like Data)</indexterm></cindex>
<para>Consider irregularly gridded data, described using <w>rank 2</w> coordinates:
<code>double lat(south_north,east_west)</code>,
<code>double lon(south_north,east_west)</code>,
@@ -10422,8 +10491,8 @@ temp_max=temperature.max();
<a name="NARR"></a> <!&textndash; http://nco.sf.net/nco.html#NARR &textndash;>
<a name="narr"></a> <!&textndash; http://nco.sf.net/nco.html#narr &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1006"><acronym><acronymword>NARR</acronymword></acronym> (North American Regional Reanalysis)a</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1007">North American Regional Reanalysis (<acronym><acronymword>NARR</acronymword></acronym>)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1014"><acronym><acronymword>NARR</acronymword></acronym> (North American Regional Reanalysis)a</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1015">North American Regional Reanalysis (<acronym><acronymword>NARR</acronymword></acronym>)</indexterm></cindex>
<para>For North American Regional Reanalysis (<acronym><acronymword>NARR</acronymword></acronym>) data
(example
<uref><urefurl>http://dust.ess.uci.edu/diwg/narr_uwnd.199605.nc</urefurl><urefdesc spaces=" ">dataset</urefdesc></uref>)
@@ -10477,8 +10546,8 @@ We plan to extend such <acronym><acronymword>SLD</acronymword></acronym> feature
</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="1008">while()</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1009">for()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1016">while()</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1017">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.
@@ -10527,7 +10596,7 @@ 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="1010"><command>include</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1018"><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"
@@ -10553,12 +10622,12 @@ 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="1011"><command>sort</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1012"><command>asort</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1013"><command>dsort</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1014"><command>remap</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1015"><command>unmap</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1016"><command>invert_map</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1019"><command>sort</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1020"><command>asort</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1021"><command>dsort</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1022"><command>remap</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1023"><command>unmap</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1024"><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:
@@ -10832,11 +10901,11 @@ 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="1017">irregular grids</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1018">rectangular grids</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1019">non-rectangular grids</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1020">non-standard grids</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1021">mask</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1025">irregular grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1026">rectangular grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1027">non-rectangular grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1028">non-standard grids</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1029">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.
@@ -10872,7 +10941,7 @@ 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="1022">wrapped coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1030">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
@@ -10950,7 +11019,7 @@ 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="1023"><acronym><acronymword>WRF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1031"><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,
@@ -11116,7 +11185,7 @@ 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="1024"><acronym><acronymword>GSL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1032"><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 <acronym><acronymword>GNU</acronymword></acronym> Scientific Library (<acronym><acronymword>GSL</acronymword></acronym>).
<command>ncap2</command> can access most <acronym><acronymword>GSL</acronymword></acronym> special functions including
@@ -11144,8 +11213,8 @@ 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="1025">gamma function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1026"><var>gsl_sf_gamma</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1033">gamma function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1034"><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>
@@ -11165,8 +11234,8 @@ 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="1027">Bessel function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1028"><var>gsl_sf_bessel_Jn</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1035">Bessel function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1036"><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>
@@ -11197,7 +11266,7 @@ 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="1029">Elliptic integrals</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1037">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=" ">
@@ -11238,7 +11307,7 @@ 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="1030">Legendre polynomial</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1038">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();
@@ -11550,7 +11619,7 @@ 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="1031"><acronym><acronymword>GSL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1039"><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 [...]
@@ -11922,8 +11991,8 @@ 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="1032">growing dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1033">dimensions, growing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1040">growing dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1041">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
@@ -11946,7 +12015,7 @@ 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="1034">flags</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1042">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>,
@@ -11961,7 +12030,7 @@ 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="1035">mask</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1043">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,
@@ -11978,7 +12047,7 @@ 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="1036">covariance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1044">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
@@ -12001,7 +12070,7 @@ 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="1037">eddy covariance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1045">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=" ">
@@ -12026,11 +12095,11 @@ 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="1038">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1039">shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1040">quotes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1041">extended regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1042">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1046">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1047">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1048">quotes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1049">extended regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1050">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.
@@ -12062,13 +12131,13 @@ 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="1043">appending data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1044">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1051">appending data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1052">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="1045">degenerate dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1046"><samp>-b</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1053">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1054"><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.
@@ -12086,7 +12155,7 @@ 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="1047"><code>-C</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1055"><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.
@@ -12101,78 +12170,78 @@ 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="1048">addition</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1049">subtraction</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1050">multiplication</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1051">division</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1052">exponentiation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1053">power</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1054">modulus</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1055"><code>+</code> (addition)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1056"><code>-</code> (subtraction)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1057"><code>*</code> (multiplication)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1058"><code>/</code> (division)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1059"><code>^</code> (power)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1060"><code>%</code> (modulus)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1056">addition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1057">subtraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1058">multiplication</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1059">division</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1060">exponentiation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1061">power</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1062">modulus</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1063"><code>+</code> (addition)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1064"><code>-</code> (subtraction)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1065"><code>*</code> (multiplication)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1066"><code>/</code> (division)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1067"><code>^</code> (power)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1068"><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="1061"><var>abs</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1062"><var>acosh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1063"><var>acos</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1064"><var>asinh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1065"><var>asin</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1066"><var>atanh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1067"><var>atan</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1068"><var>ceil</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1069"><var>cosh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1070"><var>cos</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1071"><var>erfc</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1072"><var>erf</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1073"><var>exp</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1074"><var>floor</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1075"><var>gamma</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1076"><var>ln</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1077"><var>log10</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1078"><var>log</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1079"><var>nearbyint</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1080"><var>pow</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1081"><var>rint</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1082"><var>round</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1083"><var>sinh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1084"><var>sin</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1085"><var>sqrt</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1086"><var>tanh</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1087"><var>tan</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1088"><var>trunc</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1089">mathematical functions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1090">nearest integer function (inexact)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1091">nearest integer function (exact)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1092">rounding functions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1093">truncation function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1094">absolute value</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1095">arccosine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1096">arcsine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1097">arctangent function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1098">ceiling function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1099">complementary error function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1100">cosine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1101">error function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1102">exponentiation function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1103">floor function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1104">gamma function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1105">hyperbolic arccosine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1106">hyperbolic arcsine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1107">hyperbolic arctangent function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1108">hyperbolic cosine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1109">hyperbolic sine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1110">hyperbolic tangent</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1111">logarithm, base 10</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1112">logarithm, natural</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1113">power function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1114">sine function</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1115">square root function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1069"><var>abs</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1070"><var>acosh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1071"><var>acos</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1072"><var>asinh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1073"><var>asin</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1074"><var>atanh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1075"><var>atan</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1076"><var>ceil</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1077"><var>cosh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1078"><var>cos</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1079"><var>erfc</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1080"><var>erf</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1081"><var>exp</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1082"><var>floor</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1083"><var>gamma</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1084"><var>ln</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1085"><var>log10</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1086"><var>log</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1087"><var>nearbyint</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1088"><var>pow</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1089"><var>rint</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1090"><var>round</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1091"><var>sinh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1092"><var>sin</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1093"><var>sqrt</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1094"><var>tanh</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1095"><var>tan</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1096"><var>trunc</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1097">mathematical functions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1098">nearest integer function (inexact)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1099">nearest integer function (exact)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1100">rounding functions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1101">truncation function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1102">absolute value</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1103">arccosine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1104">arcsine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1105">arctangent function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1106">ceiling function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1107">complementary error function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1108">cosine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1109">error function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1110">exponentiation function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1111">floor function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1112">gamma function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1113">hyperbolic arccosine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1114">hyperbolic arcsine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1115">hyperbolic arctangent function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1116">hyperbolic cosine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1117">hyperbolic sine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1118">hyperbolic tangent</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1119">logarithm, base 10</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1120">logarithm, natural</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1121">power function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1122">sine function</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1123">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>
@@ -12371,7 +12440,7 @@ 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="1116">inexact conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1124">inexact conversion</indexterm></cindex>
No exceptions are raised for <dfn>inexact conversions</dfn>.
Example:
<tex endspaces=" ">
@@ -12380,8 +12449,8 @@ 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="1117">promotion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1118">automatic type conversion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1125">promotion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1126">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,
@@ -12472,14 +12541,14 @@ 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="1119"><code>ANSI C</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1120"><code>float</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1121">precision</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1122">quadruple-precision</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1123">single-precision</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1124">double-precision</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1125"><code>long double</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1126"><code>NC_DOUBLE</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1127"><code>ANSI C</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1128"><code>float</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1129">precision</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1130">quadruple-precision</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1131">single-precision</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1132">double-precision</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1133"><code>long double</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1134"><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>
@@ -12497,12 +12566,12 @@ 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="1127"><code>-f</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1128"><code>--prn_fnc_tbl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1129"><code>--fnc_tbl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1135"><code>-f</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1136"><code>--prn_fnc_tbl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1137"><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="1130">Linux</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1138">Linux</indexterm></cindex>
<footnote><para>Linux supports more of these intrinsic functions than
other OSs.</para></footnote>
</para>
@@ -12563,7 +12632,7 @@ 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="1131">ID Quoting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1139">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>
@@ -12640,9 +12709,9 @@ 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="1132">attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1133">attribute names</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1134">editing attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1140">attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1141">attribute names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1142">editing attributes</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="21" mergedindex="cp">ncatted</indexterm></findex>
<noindent></noindent>
@@ -12656,7 +12725,7 @@ netcdf-4.0 Final 2008/08/28&linebreak;
<noindent></noindent>
<para>DESCRIPTION
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1135"><command>ncattget</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1143"><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
@@ -12671,16 +12740,30 @@ 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="1136"><code>history</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1137"><code>-h</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1144"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1145"><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="1138">missing values</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1139">data, missing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1140"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1146">performance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1147">operator speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1148">speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1149">execution time</indexterm></cindex>
+<para>According to the <cite>netCDF User Guide</cite>, altering metadata in
+netCDF files does not incur the penalty of recopying the entire file
+when the new metadata occupies less space than the old metadata.
+Thus <command>ncatted</command> may run much faster (at least on netCDF3 files)
+if judicious use of header padding (<pxref label="Metadata-Optimization"><xrefnodename>Metadata Optimization</xrefnodename></pxref>) was
+made when producing the <var>input-file</var>.
+Similarly, using the <samp>--hdr_pad</samp> option with <command>ncatted</command>
+helps ensure that future metadata changes to <var>output-file</var> occur
+as swiftly as possible.
+</para>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1150">missing values</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1151">data, missing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1152"><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,
@@ -12708,10 +12791,10 @@ 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="1141">extended regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1142">regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1143">pattern matching</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1144">wildcards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1153">extended regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1154">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1155">pattern matching</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1156">wildcards</indexterm></cindex>
Regular expressions (<pxref label="Subsetting-Files"><xrefnodename>Subsetting Files</xrefnodename></pxref>) are accepted and will
select any matching variable (<emph>not</emph> attribute) names.
The names <code>global</code> and <code>group</code> have special meaning.
@@ -12742,8 +12825,8 @@ 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="1145">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1146">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1157">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1158">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.
@@ -12771,12 +12854,12 @@ 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="1147">attributes, appending</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1148">attributes, creating</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1149">attributes, deleting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1150">attributes, modifying</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1151">attributes, editing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1152">attributes, overwriting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1159">attributes, appending</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1160">attributes, creating</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1161">attributes, deleting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1162">attributes, modifying</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1163">attributes, editing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1164">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>.
@@ -12896,15 +12979,15 @@ 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="1153">Perl</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1154"><acronym><acronymword>ASCII</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1165">Perl</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1166"><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="1155"><code>printf()</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1156"><code>\n</code> (<acronym><acronymword>ASCII</acronymword></acronym> LF, linefeed)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1157">characters, special</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1158"><code>\t</code> (<acronym><acronymword>ASCII</acronymword></acronym> HT, horizontal tab)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1167"><code>printf()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1168"><code>\n</code> (<acronym><acronymword>ASCII</acronymword></acronym> LF, linefeed)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1169">characters, special</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1170"><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.
@@ -12918,27 +13001,27 @@ 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="1159"><code>\a</code> (<acronym><acronymword>ASCII</acronymword></acronym> BEL, bell)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1160"><code>\b</code> (<acronym><acronymword>ASCII</acronymword></acronym> BS, backspace)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1161"><code>\f</code> (<acronym><acronymword>ASCII</acronymword></acronym> FF, formfeed)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1162"><code>\r</code> (<acronym><acronymword>ASCII</acronymword></acronym> CR, carriage return)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1163"><code>\v</code> (<acronym><acronymword>ASCII</acronymword></acronym> VT, vertical tab)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1164"><code>\\</code> (<acronym><acronymword>ASCII</acronymword></acronym> \, backslash)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1171"><code>\a</code> (<acronym><acronymword>ASCII</acronymword></acronym> BEL, bell)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1172"><code>\b</code> (<acronym><acronymword>ASCII</acronymword></acronym> BS, backspace)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1173"><code>\f</code> (<acronym><acronymword>ASCII</acronymword></acronym> FF, formfeed)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1174"><code>\r</code> (<acronym><acronymword>ASCII</acronymword></acronym> CR, carriage return)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1175"><code>\v</code> (<acronym><acronymword>ASCII</acronymword></acronym> VT, vertical tab)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1176"><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="1165"><code>\'</code> (protected end quote)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1166"><code>\"</code> (protected double quote)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1167"><code>\?</code> (protected question mark)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1168"><code>\\</code> (protected backslash)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1169"><code>'</code> (end quote)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1170"><code>"</code> (double quote)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1171"><code>?</code> (question mark)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1172"><code>\</code> (backslash)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1173">special characters</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1174"><acronym><acronymword>ASCII</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1177"><code>\'</code> (protected end quote)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1178"><code>\"</code> (protected double quote)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1179"><code>\?</code> (protected question mark)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1180"><code>\\</code> (protected backslash)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1181"><code>'</code> (end quote)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1182"><code>"</code> (double quote)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1183"><code>?</code> (question mark)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1184"><code>\</code> (backslash)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1185">special characters</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1186"><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 &textldquo;protected&textrdquo; by a backslash.
The characters <code>"</code>, <code>'</code>, <code>?</code>, and <code>\</code> may be
@@ -12950,11 +13033,11 @@ 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="1175">strings</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1176">NUL-termination</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1177">NUL</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1178">C language</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1179"><code>0</code> (NUL)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1187">strings</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1188">NUL-termination</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1189">NUL</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1190">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1191"><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 -->
@@ -12994,9 +13077,9 @@ from whatever it currently is to &textldquo;temperature&textrdquo;:
<html endspaces=" ">
<a name="NaN"></a> <!&textndash; http://nco.sf.net/nco.html#NaN &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1180">NaN</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1181"><acronym><acronymword>IEEE</acronymword></acronym> NaN</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1182">Not-a-Number</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1192">NaN</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1193"><acronym><acronymword>IEEE</acronymword></acronym> NaN</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1194">Not-a-Number</indexterm></cindex>
<para><acronym><acronymword>NCO</acronymword></acronym> arithmetic operators may not work as expected on
<acronym><acronymword>IEEE</acronymword></acronym> NaN (short for Not-a-Number) and NaN-like numbers such as
positive infinity and negative infinity
@@ -13032,9 +13115,9 @@ 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="1183"><code>global</code> attribute</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1184">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1185">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1195"><code>global</code> attribute</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1196">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1197">attributes, global</indexterm></cindex>
<para>Delete all attributes associated with the <code>tpt</code> variable, and
delete all global attributes
</para><example endspaces=" ">
@@ -13046,13 +13129,13 @@ 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="1186"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1198"><code>units</code></indexterm></cindex>
<para>Modify all existing <code>units</code> attributes to <code>meter second-1</code>:
</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="1187"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1199"><code>units</code></indexterm></cindex>
<para>Add a <code>units</code> attribute of <code>kilogram kilogram-1</code> to all
variables whose first three characters are <samp>H2O</samp>:
</para><example endspaces=" ">
@@ -13065,10 +13148,10 @@ variables whose first three characters are <samp>H2O</samp>:
<pre xml:space="preserve">ncatted -a quanta,energy,o,s,'010,101,111,121' in.nc
</pre></example>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1188">extended regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1189">regular expressions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1190">pattern matching</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1191">wildcards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1200">extended regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1201">regular expressions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1202">pattern matching</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1203">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,
though not for attribute names.
@@ -13079,7 +13162,7 @@ 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="1192">groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1204">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.
@@ -13138,20 +13221,20 @@ 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="1193">binary operations</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1194">addition</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1195">subtraction</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1196">multiplication</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1197">adding data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1198">subtracting data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1199">multiplying data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1200">dividing data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1205">binary operations</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1206">addition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1207">subtraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1208">multiplication</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1209">adding data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1210">subtracting data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1211">multiplying data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1212">dividing data</indexterm></cindex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">ncbo [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [-h] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [--no_tmp_fl]
@@ -13172,18 +13255,18 @@ 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="1201"><code>add</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1202"><code>subtract</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1203"><code>multiply</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1204"><code>divide</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1205"><code>+</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1206"><code>-</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1207"><code>*</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1208"><code>/</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1209"><code>-y <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1210"><code>--operation <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1211"><code>--op_typ <var>op_typ</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1212">alternate invocations</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1213"><code>add</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1214"><code>subtract</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1215"><code>multiply</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1216"><code>divide</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1217"><code>+</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1218"><code>-</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1219"><code>*</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1220"><code>/</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1221"><code>-y <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1222"><code>--operation <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1223"><code>--op_typ <var>op_typ</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1224">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:
@@ -13214,12 +13297,12 @@ 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="1213">naked characters</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1225">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="1214">Bash shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1226">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
@@ -13229,9 +13312,9 @@ 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="1215">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1216">shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1217">quotes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1227">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1228">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1229">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)
@@ -13247,9 +13330,9 @@ 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="1218"><command>alias</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1219"><command>ln -s</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1220">symbolic links</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1230"><command>alias</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1231"><command>ln -s</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1232">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,
@@ -13291,12 +13374,12 @@ 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="1221">broadcasting variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1222">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1233">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1234">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="1223">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1235">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>
@@ -13319,12 +13402,12 @@ 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="1224">anomalies</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1236">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="1225">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1237">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>.
@@ -13344,8 +13427,8 @@ If <var>file_2</var> was 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="1226">degenerate dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1227"><samp>-b</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1238">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1239"><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
@@ -13359,14 +13442,14 @@ 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="1228">coordinate variable</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1229"><code>NC_CHAR</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1240">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1241"><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="1230"><acronym><acronymword>CF</acronymword></acronym> conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1242"><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>.
@@ -13382,7 +13465,7 @@ albeit in a more convoluted way than <command>ncbo</command>.
<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="1231">broadcasting groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1243">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
@@ -13417,8 +13500,8 @@ 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="1232">broadcasting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1233">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1244">broadcasting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1245">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
@@ -13465,7 +13548,7 @@ 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="1234">broadcasting groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1246">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
@@ -13518,9 +13601,9 @@ 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="1235">Bash Shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1236">Bourne Shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1237">C Shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1247">Bash Shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1248">Bourne Shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1249">C Shell</indexterm></cindex>
</para><example endspaces=" ">
<verbatim xml:space="preserve">
for idx in {1..12}; do # Bash Shell (version 3.0+)
@@ -13563,15 +13646,15 @@ 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="1238">averaging data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1239">ensemble average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1250">averaging data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1251">ensemble average</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="30" mergedindex="cp">nces</indexterm></findex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">nces [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [-h] [--hdf] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-n <var>loop</var>] [--no_tmp_fl] [--nsm_fl|grp] [--nsm_sfx sfx]
@@ -13594,7 +13677,7 @@ 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="1240">ensemble</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1252">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
@@ -13624,17 +13707,17 @@ 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="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="1253">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1254">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="1243"><acronym><acronymword>IPCC</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1244"><acronym><acronymword>AR4</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1245"><acronym><acronymword>CMIP</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1255"><acronym><acronymword>IPCC</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1256"><acronym><acronymword>AR4</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1257"><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).
@@ -13644,12 +13727,12 @@ 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="1246"><code>--nsm_fl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1247"><code>--nsm_grp</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1248"><code>--ensemble_file</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1249"><code>--ensemble_group</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1250"><code>--nsm_sfx</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1251"><code>--ensemble_suffix</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1258"><code>--nsm_fl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1259"><code>--nsm_grp</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1260"><code>--ensemble_file</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1261"><code>--ensemble_group</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1262"><code>--nsm_sfx</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1263"><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>)
@@ -13687,9 +13770,9 @@ 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="1252">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1253">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1254"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1264">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1265">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1266"><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
@@ -13787,15 +13870,15 @@ 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="1255">concatenation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1256">ensemble concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1267">concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1268">ensemble concatenation</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="31" mergedindex="cp">ncecat</indexterm></findex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">ncecat [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [--gag] [-h] [--hdf] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-M] [--md5_digest] [--mrd] [-n <var>loop</var>] [--no_tmp_fl]
@@ -13825,8 +13908,8 @@ 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="1257">record aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1258"><acronym><acronymword>RAG</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1269">record aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1270"><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
@@ -13839,27 +13922,27 @@ 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="1259">unlimited dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1260">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1261"><samp>-u <var>ulm_nm</var></samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1262"><samp>--ulm_nm <var>ulm_nm</var></samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1263"><samp>--rcd_nm <var>ulm_nm</var></samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1271">unlimited dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1272">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1273"><samp>-u <var>ulm_nm</var></samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1274"><samp>--ulm_nm <var>ulm_nm</var></samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1275"><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="1264">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1265">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1276">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1277">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="1266"><acronym><acronymword>CMIP</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1278"><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="1267">fixed dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1268">fix record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1279">fixed dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1280">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
@@ -13872,8 +13955,8 @@ 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="1269">group aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1270"><acronym><acronymword>GAG</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1281">group aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1282"><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
@@ -13882,7 +13965,7 @@ 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="1271"><option>--gag</option></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1283"><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>,
@@ -13911,17 +13994,17 @@ 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="1272">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1273">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1274"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1284">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1285">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1286"><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="1275"><code>-M</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1276"><code>--glb_mtd_spp</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1277">metadata, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1287"><code>-M</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1288"><code>--glb_mtd_spp</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1289">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>.
@@ -13935,7 +14018,7 @@ 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="1278">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1290">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.
@@ -13950,10 +14033,10 @@ 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="1279">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1280">unpacking</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1281"><code>add_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1282"><code>scale_factor</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1291">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1292">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1293"><code>add_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1294"><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>).
@@ -14014,10 +14097,10 @@ 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="1283">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1284">fixed dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1285">fix record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1286"><code>--mk_rec_dmn <var>dim</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1295">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1296">fixed dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1297">fix record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1298"><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.
@@ -14026,7 +14109,7 @@ 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="1287">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1299">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
@@ -14044,17 +14127,17 @@ 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="1288">interpolation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1289">adding data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1290">multiplying data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1291">addition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1300">interpolation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1301">adding data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1302">multiplying data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1303">addition</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="33" mergedindex="cp">ncflint</indexterm></findex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">ncflint [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]
[-F] [--fix_rec_crd] [-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [-h] [--hdr_pad <var>nbr</var>]
[-i <var>var</var>,<var>val3</var>] [-L <var>dfl_lvl</var>] [-l <var>path</var>] [--no_tmp_fl]
@@ -14090,9 +14173,9 @@ $val3 = wgt1 \times val1 + wgt2 \times val2$
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="1292"><code>-w <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1293"><code>--weight <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1294"><code>--wgt_var <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1304"><code>-w <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1305"><code>--weight <var>wgt1</var>[,<var>wgt2</var>]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1306"><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.
@@ -14111,7 +14194,7 @@ 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="1295">arrival value</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1307">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
@@ -14134,7 +14217,7 @@ 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="1296">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1308">degenerate dimension</indexterm></cindex>
Thus any dimensions associated with <var>var</var> must be <dfn>degenerate</dfn>,
i.e., of size one.
</para>
@@ -14161,8 +14244,8 @@ 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="1297">missing values</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1298"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1309">missing values</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1310"><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>,
@@ -14238,13 +14321,13 @@ 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="1299">null operation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1311">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="1300">multiplication</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1301">file multiplication</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1302">scaling</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1312">multiplication</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1313">file multiplication</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1314">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=" ">
@@ -14264,14 +14347,14 @@ 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="1303">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1315">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="1304"><code>units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1316"><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=" ">
@@ -14287,29 +14370,29 @@ 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="1305">kitchen sink</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1306">printing files contents</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1307">printing variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1317">kitchen sink</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1318">printing files contents</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1319">printing variables</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="34" mergedindex="cp">ncks</indexterm></findex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">ncks [-3] [-4] [-5] [-6] [-7] [-A] [-a] [-b <var>binary-file</var>] [-C] [-c] [--cdl]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F] [--fix_rec_dmn <var>dim</var>]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [--grp_xtr_var_xcl] [-H] [-h] [--hdn] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-M] [-m] [--mk_rec_dmn <var>dim</var>] [--md5_digest]
[--no_blank] [--no_tmp_fl] [-O] [-o <var>output-file</var>] [-P] [-p <var>path</var>]
[-Q] [-q] [-R] [-r] [--rad] [--ram_all] [-s <var>format</var>]
-[-u] [--unn] [-v <var>var</var>[,&dots;]] [-X ...] [-x] [--xml]
+[-u] [--unn] [-V] [-v <var>var</var>[,&dots;]] [-X ...] [-x] [--xml]
<var>input-file</var> [[<var>output-file</var>]]
</pre></example>
<noindent></noindent>
<para>DESCRIPTION
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1308"><command>ncextr</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1320"><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
@@ -14335,11 +14418,11 @@ including <acronym><acronymword>CDL</acronymword></acronym> and <acronym><acrony
</para>
<para>Options <samp>-5</samp>, <samp>-a</samp>, <samp>--cdl</samp>, <samp>-F</samp> , <samp>-H</samp>,
<samp>--hdn</samp>, <samp>-M</samp>, <samp>-m</samp>, <samp>-P</samp>, <samp>-Q</samp>, <samp>-q</samp>,
-<samp>-s</samp>, <samp>-u</samp>, <samp>--xml</samp> (and their long option counterparts)
-control the formatted appearance of the data.
+<samp>-s</samp>, <samp>-u</samp>, <samp>-V</samp>, and <samp>--xml</samp> (and their long option
+counterparts) control the formatted appearance of the data.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1309">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1310">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1321">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1322">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).
@@ -14356,8 +14439,8 @@ 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="1311">appending data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1312">merging files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1323">appending data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1324">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
@@ -14384,8 +14467,8 @@ 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="1313">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1314">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1325">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1326">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>.
@@ -14434,7 +14517,7 @@ Features common to many operators are described in
<a name="-5"></a> <!&textndash; http://nco.sf.net/nco.html#-5 &textndash;>
<a name="5"></a> <!&textndash; http://nco.sf.net/nco.html#5 &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1315"><code>-5</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1327"><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.
@@ -14447,11 +14530,11 @@ the future).
<a name="abc"></a> <!&textndash; http://nco.sf.net/nco.html#abc &textndash;>
<a name="alphabetize"></a> <!&textndash; http://nco.sf.net/nco.html#alphabetize &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1316">alphabetization</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1317">sort alphabetically</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1318"><code>-a</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1319"><code>--abc</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1320"><code>--alphabetize</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1328">alphabetization</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1329">sort alphabetically</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1330"><code>-a</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1331"><code>--abc</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1332"><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
@@ -14468,11 +14551,11 @@ Also <samp>--abc</samp> and <samp>--alphabetize</samp>.
<a name="bnr"></a> <!&textndash; http://nco.sf.net/nco.html#bnr &textndash;>
<a name="binary"></a> <!&textndash; http://nco.sf.net/nco.html#binary &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1321">binary format</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1322"><code>-b</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1323"><code>--fl_bnr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1324"><code>--bnr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1325"><code>--binary</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1333">binary format</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1334"><code>-b</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1335"><code>--fl_bnr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1336"><code>--bnr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1337"><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>.
@@ -14496,10 +14579,10 @@ coordinates to the binary file:
<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="1326">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1327">fixed dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1328"><code>--fix_rec_dmn <var>dim</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1329"><code>--no_rec_dmn <var>dim</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1338">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1339">fixed dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1340"><code>--fix_rec_dmn <var>dim</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1341"><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.
@@ -14531,19 +14614,19 @@ 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="1330">hidden attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1331">special attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1332"><code>--hdn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1333"><code>--hidden</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1334"><code>_SOURCE_FORMAT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1335"><code>_Format</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1336"><code>_DeflateLevel</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1337"><code>_Shuffle</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1338"><code>_Storage</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1339"><code>_ChunkSizes</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1340"><code>_Endianness</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1341"><code>_Fletcher32</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1342"><code>_NOFILL</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1342">hidden attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1343">special attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1344"><code>--hdn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1345"><code>--hidden</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1346"><code>_SOURCE_FORMAT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1347"><code>_Format</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1348"><code>_DeflateLevel</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1349"><code>_Shuffle</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1350"><code>_Storage</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1351"><code>_ChunkSizes</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1352"><code>_Endianness</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1353"><code>_Fletcher32</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1354"><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>.
@@ -14567,15 +14650,15 @@ 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="1343"><command>hdp</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1344"><command>ncgen</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1345"><command>ncgen-hdf</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1346"><command>hncgen</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1347"><command>ncdump</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1348"><code>--cdl</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1349"><acronym><acronymword>CDL</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1350"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1351"><acronym><acronymword>HDF4</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1355"><command>hdp</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1356"><command>ncgen</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1357"><command>ncgen-hdf</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1358"><command>hncgen</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1359"><command>ncdump</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1360"><code>--cdl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1361"><acronym><acronymword>CDL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1362"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1363"><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
@@ -14631,10 +14714,10 @@ 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="1352">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1353">fixed dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1354">fix record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1355"><code>--mk_rec_dmn <var>dim</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1364">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1365">fixed dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1366">fix record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1367"><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
@@ -14647,9 +14730,9 @@ changing variable dimensionality, including the record dimension.
<a name="H"></a> <!&textndash; http://nco.sf.net/nco.html#H &textndash;>
<a name="data"></a> <!&textndash; http://nco.sf.net/nco.html#data &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1356"><code>-H</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1357"><code>--data</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1358"><code>--hieronymus</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1368"><code>-H</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1369"><code>--data</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1370"><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>.
@@ -14709,10 +14792,10 @@ lat[0]=90 lev[0]=1000 lon[3]=270 three_dmn_var[3]=23
<a name="Metadata"></a> <!&textndash; http://nco.sf.net/nco.html#Metadata &textndash;>
<a name="M"></a> <!&textndash; http://nco.sf.net/nco.html#M &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1359"><code>-M</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1360"><code>--Mtd</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1361"><code>--Metadata</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1362">metadata, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1371"><code>-M</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1372"><code>--Mtd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1373"><code>--Metadata</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1374">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.
@@ -14768,20 +14851,20 @@ attributes, respectively.
<a name="mtd"></a> <!&textndash; http://nco.sf.net/nco.html#mtd &textndash;>
<a name="metadata"></a> <!&textndash; http://nco.sf.net/nco.html#metadata &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1363"><command>ncdump</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1364"><code>-m</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1365"><code>--mtd</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1366"><code>--metadata</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1367">metadata</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1375"><command>ncdump</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1376"><code>-m</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1377"><code>--mtd</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1378"><code>--metadata</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1379">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="1368">chunking</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1369">compression</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1370">deflation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1380">chunking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1381">compression</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1382">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>.
@@ -14797,11 +14880,11 @@ file.
<a name="noblank"></a> <!&textndash; http://nco.sf.net/nco.html#noblank &textndash;>
<a name="no-blank"></a> <!&textndash; http://nco.sf.net/nco.html#no-blank &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1371"><code>--no_blank</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1372"><code>--noblank</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1373"><code>--no-blank</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1374">blank</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1375">missing values</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1383"><code>--no_blank</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1384"><code>--noblank</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1385"><code>--no-blank</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1386">blank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1387">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>
@@ -14815,9 +14898,9 @@ Also activated using <samp>--noblank</samp> or <samp>--no-blank</samp>.
<a name="P"></a> <!&textndash; http://nco.sf.net/nco.html#P &textndash;>
<a name="prn"></a> <!&textndash; http://nco.sf.net/nco.html#prn &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1376"><code>-P</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1377"><code>--print</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1378"><code>--prn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1388"><code>-P</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1389"><code>--print</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1390"><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
@@ -14829,8 +14912,8 @@ This set of switches is useful for exploring file contents.
<a name="Q"></a> <!&textndash; http://nco.sf.net/nco.html#Q &textndash;>
<a name="quiet"></a> <!&textndash; http://nco.sf.net/nco.html#quiet &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1379"><code>-Q</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1380"><code>--quiet</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1391"><code>-Q</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1392"><code>--quiet</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-Q</itemformat></item>
</tableterm><tableitem><para>Print quietly, meaning omit dimension names, indices, and coordinate
values when printing arrays.
@@ -14852,9 +14935,9 @@ prints only variable values.
<a name="q"></a> <!&textndash; http://nco.sf.net/nco.html#q &textndash;>
<a name="quench"></a> <!&textndash; http://nco.sf.net/nco.html#quench &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1381"><code>-q</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1382"><code>--quench</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1383">quench</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1393"><code>-q</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1394"><code>--quench</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1395">quench</indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-q </itemformat></item>
</tableterm><tableitem><para>Quench (turn-off) all printing to screen.
This overrides the setting of all print-related switches, equivalent to
@@ -14870,11 +14953,11 @@ Also <samp>--quench</samp>.
<a name="orphan"></a> <!&textndash; http://nco.sf.net/nco.html#orphan &textndash;>
<a name="rph_dmn"></a> <!&textndash; http://nco.sf.net/nco.html#rph_dmn &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1384"><code>--rad</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1385">orphan dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1386"><code>--retain_all_dimensions</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1387"><code>--orphan_dimensions</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1388"><code>--rph_dmn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1396"><code>--rad</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1397">orphan dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1398"><code>--retain_all_dimensions</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1399"><code>--orphan_dimensions</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1400"><code>--rph_dmn</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">--rad</itemformat></item>
</tableterm><tableitem><para>Retain all dimensions.
When invoked with <code>--rad</code> (Retain All Dimensions),
@@ -14893,11 +14976,11 @@ Also <samp>--retain_all_dimensions</samp>, <samp>--orphan_dimensions</samp>, and
<a name="sng_fmt"></a> <!&textndash; http://nco.sf.net/nco.html#sng_fmt &textndash;>
<a name="string"></a> <!&textndash; http://nco.sf.net/nco.html#string &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1389"><code>-s</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1390"><code>--string</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1391"><code>--sng_fmt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1392"><code>printf()</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1393">C language</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1401"><code>-s</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1402"><code>--string</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1403"><code>--sng_fmt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1404"><code>printf()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1405">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.
@@ -14908,10 +14991,10 @@ Also <samp>--string</samp> and <samp>--sng_fmt</samp>.
<a name="scr"></a> <!&textndash; http://nco.sf.net/nco.html#scr &textndash;>
<a name="secret"></a> <!&textndash; http://nco.sf.net/nco.html#secret &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1394"><code>--ssh</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1395"><code>--scr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1396"><code>--secret</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1397">hidden features</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1406"><code>--ssh</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1407"><code>--scr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1408"><code>--secret</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1409">hidden features</indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">--secret</itemformat></item>
</tableterm><tableitem><para>Print summary of <command>ncks</command> hidden features.
These hidden or secret features are used mainly by developers.
@@ -14923,8 +15006,8 @@ Also <samp>--ssh</samp> and <samp>--scr</samp>.
<a name="units"></a> <!&textndash; http://nco.sf.net/nco.html#units &textndash;>
<a name="u"></a> <!&textndash; http://nco.sf.net/nco.html#u &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1398"><code>-u</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1399"><code>--units</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1410"><code>-u</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1411"><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.
@@ -14934,10 +15017,10 @@ Also <samp>--units</samp>.
<a name="V"></a> <!&textndash; http://nco.sf.net/nco.html#V &textndash;>
<a name="var_val"></a> <!&textndash; http://nco.sf.net/nco.html#var_val &textndash;>
</html>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1400"><code>-V</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1401"><code>--var_val</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1402"><code>--no_dmn_var_nm</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1403"><code>--no_nm_prn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1412"><code>-V</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1413"><code>--var_val</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1414"><code>--no_dmn_var_nm</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1415"><code>--no_nm_prn</code></indexterm></cindex>
</tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="samp">-V</itemformat></item>
</tableterm><tableitem><para>Print variable values only.
Do not print variable and dimension names, indices, and coordinate
@@ -14958,11 +15041,11 @@ Using <samp>-V</samp> is the same as specifying <samp>-Q --no_nm_prn</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="1404"><code>--xml</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1405"><code>--ncml</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1406"><command>ncdump</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1407"><acronym><acronymword>XML</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1408"><acronym><acronymword>NcML</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1416"><code>--xml</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1417"><code>--ncml</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1418"><command>ncdump</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1419"><acronym><acronymword>XML</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1420"><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
@@ -15001,10 +15084,10 @@ 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="1409"><code>--xml_no_location</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1410"><code>--xml_spr_chr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1411"><code>--xml_spr_nmr</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1412">separator</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1421"><code>--xml_no_location</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1422"><code>--xml_spr_chr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1423"><code>--xml_spr_nmr</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1424">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>.
@@ -15080,25 +15163,25 @@ 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="1413"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1414"><command>ncattget</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1415"><command>ncavg</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1416"><command>ncdmnsz</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1417"><command>nclist</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1418"><command>ncmax</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1419"><command>ncmdn</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1420"><command>ncmin</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1421"><command>ncrecsz</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1422"><command>ncrng</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1423"><command>ncunits</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1424"><file>.bashrc</file></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1425">filters</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1426">alias</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1427">shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1428">Bash shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1429">Csh shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1430">Sh shell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1431"><command>bash</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1425"><acronym><acronymword>UNIX</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1426"><command>ncattget</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1427"><command>ncavg</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1428"><command>ncdmnsz</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1429"><command>nclist</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1430"><command>ncmax</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1431"><command>ncmdn</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1432"><command>ncmin</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1433"><command>ncrecsz</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1434"><command>ncrng</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1435"><command>ncunits</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1436"><file>.bashrc</file></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1437">filters</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1438">alias</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1439">shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1440">Bash shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1441">Csh shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1442">Sh shell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1443"><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
@@ -15225,12 +15308,12 @@ 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="1432"><code>history</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1444"><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="1433">alphabetize output</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1434">sort alphabetically</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1435"><code>-a</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1445">alphabetize output</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1446">sort alphabetically</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1447"><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
@@ -15240,16 +15323,16 @@ 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="1436">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1437">attributes, global</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1438">subsetting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1439">exclusion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1440">extraction</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1441"><code>-v <var>var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1442"><code>--variable <var>var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1443"><code>-x</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1444"><code>--exclude</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1445"><code>--xcl</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1448">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1449">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1450">subsetting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1451">exclusion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1452">extraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1453"><code>-v <var>var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1454"><code>--variable <var>var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1455"><code>-x</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1456"><code>--exclude</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1457"><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=" ">
@@ -15260,10 +15343,10 @@ 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="1446"><code>-A</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1447"><code>--apn</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1448"><code>--append</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1449">appending to files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1458"><code>-A</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1459"><code>--apn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1460"><code>--append</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1461">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.
@@ -15291,12 +15374,12 @@ 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="1450"><code>-s</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1451"><code>--string</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1452"><code>--sng_fmt</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1453"><code>printf()</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1454"><code>\n</code> (linefeed)</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1455"><code>\t</code> (horizontal tab)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1462"><code>-s</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1463"><code>--string</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1464"><code>--sng_fmt</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1465"><code>printf()</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1466"><code>\n</code> (linefeed)</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1467"><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.
@@ -15329,7 +15412,7 @@ files like reports or papers.
<xref label="ncatted-netCDF-Attribute-Editor"><xrefnodename>ncatted netCDF Attribute Editor</xrefnodename></xref>, for more details on string
formatting and special characters.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1456"><code>--no_blank</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1468"><code>--no_blank</code></indexterm></cindex>
<para>As of <acronym><acronymword>NCO</acronymword></acronym> version 4.2.2 (October, 2012), <acronym><acronymword>NCO</acronymword></acronym> prints
missing values as blanks (i.e., the underscore character <samp>_</samp>) by
default:
@@ -15345,12 +15428,12 @@ lon[3]=270 mss_val[3]=_
<para>To print the numeric value of the missing value instead of a blank,
use the <samp>--no_blank</samp> option.
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1457"><code>-Q</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1458"><code>--quiet</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1459"><code>-V</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1460"><code>--var_val</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1461"><code>--no_dmn_var_nm</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1462"><code>--no_nm_prn</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1469"><code>-Q</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1470"><code>--quiet</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1471"><code>-V</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1472"><code>--var_val</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1473"><code>--no_dmn_var_nm</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1474"><code>--no_nm_prn</code></indexterm></cindex>
<para><command>ncks</command> prints in a verbose fashion by default and supplies a
number of switches to pare-down (or even spruce-up) the output.
The interplay of the <samp>-Q</samp>, <samp>-V</samp>, and (otherwise undocumented)
@@ -15383,13 +15466,13 @@ 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="1463"><code>core dump</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1475"><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="1464">subsetting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1465">exclusion</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1466">extraction</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1476">subsetting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1477">exclusion</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1478">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=" ">
@@ -15448,7 +15531,7 @@ 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="1467">wrapped coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1479">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.
@@ -15473,19 +15556,19 @@ 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="1468">reshape variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1469">permute dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1470">reverse dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1471">re-order dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1472">re-dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1473">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1474">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1480">reshape variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1481">permute dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1482">reverse dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1483">re-order dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1484">re-dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1485">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1486">unpacking</indexterm></cindex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">ncpdq [-3] [-4] [-6] [-7] [-A] [-a [-]<var>dim</var>[,&dots;]] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]]
[-F] [-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [-h] [--hdf] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-M <var>pck_map</var>] [--mrd] [--no_tmp_fl]
@@ -15504,10 +15587,10 @@ 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="1475"><code>add_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1476"><code>scale_factor</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1477"><command>ncap2</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1478">packing policy</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1487"><code>add_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1488"><code>scale_factor</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1489"><command>ncap2</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1490">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
@@ -15515,10 +15598,10 @@ 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="1479"><var>pck_plc</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1480"><code>-P <var>pck_plc</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1481"><code>--pck_plc <var>pck_plc</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1482"><code>--pack_policy <var>pck_plc</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1491"><var>pck_plc</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1492"><code>-P <var>pck_plc</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1493"><code>--pck_plc <var>pck_plc</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1494"><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.
@@ -15583,9 +15666,9 @@ 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="1483"><code>-U</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1484"><code>--upk</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1485"><code>--unpack</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1495"><code>-U</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1496"><code>--upk</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1497"><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.
@@ -15600,20 +15683,20 @@ 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="1486"><command>alias</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1487"><command>ln -s</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1488">symbolic links</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1498"><command>alias</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1499"><command>ln -s</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1500">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="1489">packing map</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1490"><var>pck_map</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1491"><code>-M <var>pck_map</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1492"><code>--pck_map <var>pck_map</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1493"><code>--map <var>pck_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1501">packing map</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1502"><var>pck_map</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1503"><code>-M <var>pck_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1504"><code>--pck_map <var>pck_map</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1505"><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,
@@ -15622,22 +15705,22 @@ 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="1494"><samp>hgh_sht</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1495"><samp>hgh_byt</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1496"><samp>flt_sht</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1497"><samp>flt_byt</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1498"><samp>nxt_lsr</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1499"><code>NC_DOUBLE</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1500"><code>NC_FLOAT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1501"><code>NC_INT64</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1502"><code>NC_UINT64</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1503"><code>NC_INT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1504"><code>NC_UINT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1505"><code>NC_SHORT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1506"><code>NC_USHORT</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1507"><code>NC_CHAR</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1508"><code>NC_BYTE</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1509"><code>NC_UBYTE</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1506"><samp>hgh_sht</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1507"><samp>hgh_byt</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1508"><samp>flt_sht</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1509"><samp>flt_byt</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1510"><samp>nxt_lsr</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1511"><code>NC_DOUBLE</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1512"><code>NC_FLOAT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1513"><code>NC_INT64</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1514"><code>NC_UINT64</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1515"><code>NC_INT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1516"><code>NC_UINT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1517"><code>NC_SHORT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1518"><code>NC_USHORT</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1519"><code>NC_CHAR</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1520"><code>NC_BYTE</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1521"><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;
@@ -15676,9 +15759,9 @@ 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="1510"><var>_FillValue</var></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1511"><code>_FillValue</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1512"><code>NUL</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1522"><var>_FillValue</var></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1523"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1524"><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.
@@ -15716,16 +15799,16 @@ 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="1513">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1525">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="1514">concatenation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1515">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1526">concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1527">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="1516">record variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1528">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
@@ -15740,7 +15823,7 @@ 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="1517">transpose</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1529">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>).
@@ -15861,9 +15944,9 @@ 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="1518">appending variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1519"><samp>-A</samp></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1520"><samp>-v</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1530">appending variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1531"><samp>-A</samp></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1532"><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>).
@@ -15871,8 +15954,8 @@ 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="1521"><command>ncl_convert2nc</command></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1522"><acronym><acronymword>NCL</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1533"><command>ncl_convert2nc</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1534"><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
@@ -15930,7 +16013,7 @@ 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="1523">reverse dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1535">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
@@ -15948,8 +16031,8 @@ 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="1524">long options</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1525">quotes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1536">long options</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1537">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.
@@ -15960,7 +16043,7 @@ 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="1526">reverse dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1538">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>:
@@ -15984,7 +16067,7 @@ 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="1527">reverse data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1539">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.
@@ -16019,7 +16102,7 @@ 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="1528">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1540">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
@@ -16038,7 +16121,7 @@ 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="1529">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1541">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"
@@ -16068,17 +16151,17 @@ 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="1530">averaging data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1531">record average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1532">record dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1533">running average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1542">averaging data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1543">record average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1544">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1545">running average</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="38" mergedindex="cp">ncra</indexterm></findex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">ncra [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>][,[<var>subcycle</var>]]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [-h] [--hdf] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [--mro] [-n <var>loop</var>] [--no_tmp_fl]
@@ -16092,15 +16175,15 @@ 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="1534">degenerate dimension</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1535">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1546">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1547">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="1536">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1537">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1538"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1548">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1549">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1550"><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
@@ -16109,10 +16192,10 @@ 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="1539">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1551">hyperslab</indexterm></cindex>
Hyperslabs of the record dimension which include more than one file
work correctly.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1540">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1552">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.
@@ -16122,7 +16205,7 @@ 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="1541">operation types</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1553">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>).
@@ -16135,10 +16218,10 @@ 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="1542">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1543"><code>NINTAP</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1544">Processor</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1545"><acronym><acronymword>CCM</acronymword></acronym> Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1554">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1555"><code>NINTAP</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1556">Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1557"><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
@@ -16148,7 +16231,7 @@ 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="1546">Fortran</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1558">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,
@@ -16162,7 +16245,7 @@ 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="1547">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1559">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=" ">
@@ -16185,15 +16268,15 @@ 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="1548">concatenation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1549">record concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1560">concatenation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1561">record concatenation</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="39" mergedindex="cp">ncrcat</indexterm></findex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">ncrcat [-3] [-4] [-6] [-7] [-A] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>][,[<var>subcycle</var>]]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [-h] [--hdr_pad <var>nbr</var>]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [--md5_digest] [-n <var>loop</var>] [--no_tmp_fl]
@@ -16207,14 +16290,14 @@ 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="1550">record dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1562">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="1551">multi-file operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1552">standard input</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1553"><code>stdin</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1563">multi-file operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1564">standard input</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1565"><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
@@ -16223,19 +16306,19 @@ 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="1554">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1566">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="1555">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1567">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="1556">packing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1557">unpacking</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1558"><code>add_offset</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1559"><code>scale_factor</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1568">packing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1569">unpacking</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1570"><code>add_offset</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1571"><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>).
@@ -16252,7 +16335,7 @@ 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="1560">ARM conventions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1572">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.
@@ -16265,10 +16348,10 @@ 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="1561">globbing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1562"><code>NINTAP</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1563">Processor</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1564"><acronym><acronymword>CCM</acronymword></acronym> Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1573">globbing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1574"><code>NINTAP</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1575">Processor</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1576"><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
@@ -16279,7 +16362,7 @@ 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="1565">Fortran</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1577">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
@@ -16296,7 +16379,7 @@ 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="1566">stride</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1578">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
@@ -16320,14 +16403,14 @@ 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="1567">renaming variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1568">renaming groups</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1569">renaming dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1570">renaming attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1571">variable names</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1572">dimension names</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1573">attribute names</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1574">group names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1579">renaming variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1580">renaming groups</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1581">renaming dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1582">renaming attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1583">variable names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1584">dimension names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1585">attribute names</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1586">group names</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="41" mergedindex="cp">ncrename</indexterm></findex>
<noindent></noindent>
@@ -16343,7 +16426,7 @@ concatenates June, 1985&textndash;June, 1989:
<noindent></noindent>
<para>DESCRIPTION
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1575"><kbd>.</kbd></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1587"><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
@@ -16357,9 +16440,28 @@ indicates the presence of <var>old_name</var> is optional, and <var>old_name</va
is not present in <var>input-file</var>, then <command>ncrename</command> will abort.
The <var>new_name</var> should never be prefixed by a <samp>.</samp> (or else the
period will be included as part of the new name).
+As of <acronym><acronymword>NCO</acronymword></acronym> version 4.4.6 (released October, 2014), the
+<var>old_name</var> and <var>new_name</var> arguments may include (or be, for
+groups) partial or full group paths.
The OPTIONS and EXAMPLES show how to select specific variables
whose attributes are to be renamed.
</para>
+<html endspaces=" ">
+<a name="bug_nc4_rename"></a> <!&textndash; http://nco.sf.net/nco.html#bug_nc4_rename &textndash;>
+</html>
+<cartouche endspaces=" ">
+<para>Caveat lector: Unforunately from 2007&textndash;present (October, 2014) the
+netCDF library (versions 4.0.0&textndash;4.3.2) contained bugs or limitations
+that sometimes prevent <acronym><acronymword>NCO</acronymword></acronym> from correctly renaming coordinate
+variables, dimensions, and groups in netCDF4 files.
+(To our knowledge the netCDF library calls for renaming always work
+well on netCDF3 files so one workaround to some netCDF4 issues is
+convert to netCDF3, rename, then convert back).
+To understand the renaming limitations associated with particular
+netCDF versions, read the <command>ncrename</command> documentation below in
+its entirety.
+</para></cartouche>
+
<para>Although <command>ncrename</command> supports full pathnames for both
<var>old_name</var> and <var>new_name</var>, this is really &textldquo;window dressing&textrdquo;.
The full-path to <var>new_name</var> must be identical to the full-path to
@@ -16373,16 +16475,16 @@ 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="1576">data safety</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1577">safeguards</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1578">temporary output files</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1588">data safety</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1589">safeguards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1590">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
during the operation.
If only <var>input-file</var> is specified, then <command>ncrename</command> changes
-the names of the <var>input-file</var> in place without prompting and without
-creating a temporary copy of <code>input-file</code>.
+object names in the <var>input-file</var> in place without prompting and
+without creating a temporary copy of <code>input-file</code>.
This is because the renaming operation is considered reversible if the
user makes a mistake.
The <var>new_name</var> can easily be changed back to <var>old_name</var> by using
@@ -16395,13 +16497,19 @@ 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="1579">performance</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1580">operator speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1581">speed</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1582">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>.
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1591">performance</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1592">operator speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1593">speed</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1594">execution time</indexterm></cindex>
+<para>According to the <cite>netCDF User Guide</cite>, renaming objects 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>.
+Thus <command>ncrename</command> may run much faster (at least on netCDF3 files)
+if judicious use of header padding (<pxref label="Metadata-Optimization"><xrefnodename>Metadata Optimization</xrefnodename></pxref>) was
+made when producing the <var>input-file</var>.
+Similarly, using the <samp>--hdr_pad</samp> option with <command>ncrename</command>
+helps ensure that future metadata changes to <var>output-file</var> occur
+as swifly as possible.
</para>
<noindent></noindent>
<para>OPTIONS
@@ -16412,9 +16520,9 @@ 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="1583"><code>global</code> attribute</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1584">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1585">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1595"><code>global</code> attribute</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1596">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1597">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
@@ -16425,11 +16533,12 @@ The <samp>&arobase;</samp> symbol delimits the variable from the attribute name.
If the attribute is uniquely named (no other variables contain the
attribute) then the <var>old_var_name&arobase;old_att_name</var> syntax is
redundant.
-The <var>var_nm</var> <code>global</code> has special significance&textmdash;it indicates
-that <var>att_nm</var> refers to a global or group attribute, and not to a
-variable named <code>global</code>.
-In other words, a <var>var_nm</var> of <code>global</code> is syntactically
-equivalent to a <var>var_nm</var> that is empty.
+The <var>old_var_name</var> variable names <code>global</code> and <code>group</code>
+have special significance.
+They indicate that <var>old_att_nm</var> should only be renamed where it
+occurs as a global (i.e., root group) metadata attribute (for
+<code>global</code>), or (for <code>group</code>) as <emph>any</emph> group attribute, and
+not where it occurs as a variable attribute.
The <var>var_name&arobase;att_name</var> syntax is accepted, though not required,
for the <var>new_name</var>.
</para>
@@ -16496,7 +16605,7 @@ 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="1586">coordinate variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1598">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
@@ -16508,8 +16617,8 @@ the variable:
<pre xml:space="preserve">ncrename -d lon,longitude -v lon,longitude in.nc
</pre></example>
<para>Unfortunately, the netCDF4 library had a longstanding bug (all versions
-until 4.3.1-rc5 released in December, 2013) that caused <acronym><acronymword>NCO</acronymword></acronym> to
-crash when performing this operation.
+until 4.3.1-rc5 released in December, 2013) that crashed <acronym><acronymword>NCO</acronymword></acronym>
+when performing this operation.
Simultaneously renaming variables and dimensions in netCDF4 files with
earlier versions of netCDF is impossible; it must instead be done in two
separate <command>ncrename</command> invocations (e.g., first rename the
@@ -16520,7 +16629,7 @@ bug.
also built with all versions of the netCDF4 library until 4.3.1-rc5
released in December, 2013):
This bug caused renaming <emph>either</emph> a dimension <emph>or</emph> its
-assosiated coordinate variable (not both, which would fail as above) in
+associated coordinate variable (not both, which would fail as above) in
a netCDF4 file to inadvertently rename both:
</para><example endspaces=" ">
<pre xml:space="preserve"># Demonstate bug in netCDF4/HDF5 library prior to netCDF-4.3.1-rc5
@@ -16531,11 +16640,40 @@ ncrename -O -d lat_T42,lat ~/foo.nc ~/foo2.nc # Also renames variable
<para>To avoid this faulty behavior, either build <acronym><acronymword>NCO</acronymword></acronym> with netCDF
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="1587">global attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1588">attributes, global</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1589"><code>_FillValue</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1590"><code>missing_value</code></indexterm></cindex>
+Unforunately while this bug and the related coordinate renaming bug
+were fixed in 4.3.1-rc5 (released in December, 2013), a new and related
+bug was discovered in October 2014.
+</para>
+<para>The final known netCDF bug that causes unintended side-effects with
+<command>ncrename</command> affects (at least) versions 4.3.1&textndash;4.3.2 of the
+netCDF4 library (and snapshots at least until October, 2014):
+This bug corrupts values or renamed netCDF4 coordinate variables
+(i.e., variables with underlying dimensions of the same name) and
+other (non-coordinate) variables that include an underlying dimension
+that was renamed.
+In other words, <emph>renaming</emph> coordinate variables and dimensions
+succeeds yet it corrupts the values contained by the affected array
+variables.
+This bug corrupts affected variables by replacing their values with the
+default <code>_FillValue</code> for that variable&textrsquo;s type:
+</para><example endspaces=" ">
+<pre xml:space="preserve"># Demonstate bug in netCDF4/HDF5 library prior to netCDF-4.3.3
+ncks -O -4 -C -M -v lat ~/nco/data/in.nc ~/bug.nc
+ncrename -O -v lat,tal ~/bug.nc ~/foo.nc # Broken until netCDF-4.3.3
+ncrename -O -d lat,tal ~/bug.nc ~/foo.nc # Broken until netCDF-4.3.3
+ncrename -O -d lat,tal -v lat,tal ~/bug.nc ~/foo.nc # Broken too
+ncks --cdl ~/foo.nc
+</pre></example>
+<para>To avoid this faulty behavior, either build <acronym><acronymword>NCO</acronymword></acronym> with netCDF
+version 4.3.3 (TBD) or later, or convert the file to netCDF3 first, then
+rename as intended, then convert back.
+This bug does not affect renaming of groups or of attributes.
+</para>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1599">global attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1600">group attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1601">attributes, global</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1602"><code>_FillValue</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1603"><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
@@ -16564,10 +16702,12 @@ The variable <code>prs_sfc</code> need not exist, and need not contain the
<code>Conventions</code>
</para><example endspaces=" ">
<verbatim xml:space="preserve">
-ncrename -a Convention,Conventions in.nc # Variable and global atts.
-ncrename -a .Convention,Conventions in.nc # Variable and global atts.
-ncrename -a @Convention,Conventions in.nc # Global atts. only
-ncrename -a @.Convention,Conventions in.nc # Global atts. only
+ncrename -a Convention,Conventions in.nc # Variable and group atts.
+ncrename -a .Convention,Conventions in.nc # Variable and group atts.
+ncrename -a @Convention,Conventions in.nc # Group atts. only
+ncrename -a @.Convention,Conventions in.nc # Group atts. only
+ncrename -a global at Convention,Conventions in.nc # Group atts. only
+ncrename -a .global at .Convention,Conventions in.nc # Group atts. only
ncrename -a global at Convention,Conventions in.nc # Global atts. only
ncrename -a .global at .Convention,Conventions in.nc # Global atts. only
</verbatim>
@@ -16592,17 +16732,17 @@ 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="1591">averaging data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1592">weighted average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1593">masked average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1594">broadcasting variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1604">averaging data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1605">weighted average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1606">masked average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1607">broadcasting variables</indexterm></cindex>
<findex index="fn" spaces=" "><indexterm index="fn" number="42" mergedindex="cp">ncwa</indexterm></findex>
<noindent></noindent>
<para>SYNTAX
</para><example endspaces=" ">
<pre xml:space="preserve">ncwa [-3] [-4] [-6] [-7] [-A] [-a <var>dim</var>[,&dots;]] [-B <var>mask_cond</var>] [-b] [-C] [-c]
-[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz]
+[--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min sz] [--cnk_plc plc] [--cnk_scl sz]
[-D <var>dbg</var>] [-d <var>dim</var>,[<var>min</var>][,[<var>max</var>][,[<var>stride</var>]]] [-F]
[-G <var>gpe_dsc</var>] [-g <var>grp</var>[,&dots;]] [-h] [--hdr_pad <var>nbr</var>] [-I]
[-L <var>dfl_lvl</var>] [-l <var>path</var>] [-M <var>mask_val</var>] [-m <var>mask_var</var>] [-N] [--no_tmp_fl]
@@ -16623,7 +16763,7 @@ 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="1595">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1608">degenerate dimension</indexterm></cindex>
<para>Averaged dimensions are, by default, eliminated as dimensions.
Their corresponding coordinates, if any, are output as scalar
variables.
@@ -16637,9 +16777,9 @@ 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="1596">arithmetic operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1597">hyperslab</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1598"><code>-d <var>dim</var>,[<var>min</var>][,[<var>max</var>]]</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1609">arithmetic operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1610">hyperslab</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1611"><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>).
@@ -16654,20 +16794,20 @@ 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="1599"><code>-w <var>weight</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1600"><code>--weight <var>weight</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1601"><code>--wgt_var <var>weight</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1602"><code>-m <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1603"><code>--mask-variable <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1604"><code>--mask_variable <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1605"><code>--msk_nm <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1606"><code>--msk_var <var>mask_var</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1607"><code>-B <var>mask_cond</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1608"><code>--msk_cnd <var>mask_cond</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1609"><code>--mask_condition <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1612"><code>-w <var>weight</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1613"><code>--weight <var>weight</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1614"><code>--wgt_var <var>weight</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1615"><code>-m <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1616"><code>--mask-variable <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1617"><code>--mask_variable <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1618"><code>--msk_nm <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1619"><code>--msk_var <var>mask_var</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1620"><code>-B <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1621"><code>--msk_cnd <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1622"><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="1610">rank</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1623">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
@@ -16702,8 +16842,8 @@ 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="1611">coordinate variable</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1612"><code>-I</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1624">coordinate variable</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1625"><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
@@ -16721,8 +16861,8 @@ 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="1613">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1614">operation types</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1626">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1627">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.
@@ -16742,8 +16882,8 @@ 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="1615">mask condition</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1616">truth condition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1628">mask condition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1629">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).
@@ -16758,12 +16898,12 @@ 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="1617"><code>--op_rlt <var>mask_comp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1618"><code>--mask_comparator <var>mask_comp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1619"><code>--msk_cmp_typ <var>mask_comp</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1620"><code>--msk_cnd_sng <var>mask_cond</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1621"><code>--mask_condition <var>mask_cond</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1622"><code>-B <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1630"><code>--op_rlt <var>mask_comp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1631"><code>--mask_comparator <var>mask_comp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1632"><code>--msk_cmp_typ <var>mask_comp</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1633"><code>--msk_cnd_sng <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1634"><code>--mask_condition <var>mask_cond</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1635"><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
@@ -16778,7 +16918,7 @@ 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="1623">comparator</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1636">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>).
@@ -16797,9 +16937,9 @@ 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="1624"><code>--mask-value <var>mask_val</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1625"><code>--mask_value <var>mask_val</var></code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1626"><code>--msk_val <var>mask_val</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1637"><code>--mask-value <var>mask_val</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1638"><code>--mask_value <var>mask_val</var></code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1639"><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>.
@@ -16852,11 +16992,11 @@ 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="1627">normalization</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1628"><code>-N</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1629"><code>numerator</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1630">integration</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1631">dot product</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1640">normalization</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1641"><code>-N</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1642"><code>numerator</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1643">integration</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1644">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
@@ -16881,7 +17021,7 @@ 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="1632">dot product</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1645">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
@@ -16962,7 +17102,7 @@ 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="1633">degenerate dimension</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1646">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=" ">
@@ -16974,9 +17114,9 @@ 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="1634"><code>gw</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1635">Gaussian weights</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1636">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1647"><code>gw</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1648">Gaussian weights</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1649">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
@@ -17002,8 +17142,8 @@ $64 \times 128 = 8192$.
64 times 128 = 8192.
<clear name="flg" line=" flg"></clear>
</para>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1637"><code>ORO</code></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1638">climate model</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1650"><code>ORO</code></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1651">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=" ">
@@ -17058,8 +17198,8 @@ 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="1639">mask condition</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1640">truth condition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1652">mask condition</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1653">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=" ">
@@ -17089,17 +17229,17 @@ 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="1641">contributing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1654">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="1642">PayPal</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1655">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="1643">chocolate</indexterm></cindex>
+<footnote spaces="\n"><cindex index="cp" spaces=" "><indexterm index="cp" number="1656">chocolate</indexterm></cindex>
<para>Happy users have sent me a few gifts, though.
This includes a box of imported chocolate.
Mmm.
@@ -17126,13 +17266,13 @@ 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="1644">Russ Rew</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1645">John Caron</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1646">Glenn Davis</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1647">Steve Emmerson</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1648">James Gallagher</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1649">Ed Hartnett</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1650">Dennis Heimbigner</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1657">Russ Rew</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1658">John Caron</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1659">Glenn Davis</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1660">Steve Emmerson</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1661">James Gallagher</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1662">Ed Hartnett</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1663">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,
@@ -17147,10 +17287,10 @@ 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="1651">contributors</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1664">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="1652">Charlie Zender</indexterm></cindex>
+<beforefirstitem><cindex index="cp" spaces=" "><indexterm index="cp" number="1665">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&textndash;2000.
Since then autotools, bug-squashing, <acronym><acronymword>CDL</acronymword></acronym>, chunking,
@@ -17159,7 +17299,7 @@ documentation, anchoring, recursion, <acronym><acronymword>GPE</acronymword></ac
<command>ncbo</command>, <command>ncpdq</command>, <acronym><acronymword>SMP</acronymword></acronym> threading and <acronym><acronymword>MPI</acronymword></acronym> parallelization,
netCDF4 integration, external funding, project management, science
research, releases.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1653">Henry Butowsky</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1666">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>.
@@ -17170,115 +17310,115 @@ Multislabbing algorithm.
Variable wildcarding.
Numerous hacks.
<command>ncap2</command> language.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1654">Rorik Peterson</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1667">Rorik Peterson</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Rorik Peterson</itemformat></item>
</tableterm><tableitem><para>Original autotools build support.
Long command-line options.
Original UDUnits support.
Debianization.
Numerous bug-fixes.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1655">Joe Hamman</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1668">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="1656">Daniel Wang</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1669">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 (<acronym><acronymword>SWAMP</acronymword></acronym>).
<acronym><acronymword>RPM</acronymword></acronym> support.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1657">Harry Mangalam</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1670">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="1658">Pedro Vicente</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1671">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="1659">Russ Rew</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1672">Russ Rew</indexterm></cindex>
</para></tableitem></tableentry><tableentry><tableterm><item spaces=" "><itemformat command="asis">Russ Rew</itemformat></item>
</tableterm><tableitem><para>Advice on <acronym><acronymword>NCO</acronymword></acronym> structural algorithms
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1660">Brian Mays</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1673">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="1661">George Shapovalov</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1674">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="1662">Bill Kocik</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1675">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="1663">Len Makin</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1676">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="1664">Jim Edwards</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1677">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="1665">Juliana Rew</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1678">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="1666">Karen Schuchardt</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1679">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="1667">Gayathri Venkitachalam</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1680">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="1668">Scott Capps</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1681">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="1669">Peter Campbell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1670">Martin Dix</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1671">Mark Flanner</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1672">Markus Liebig</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1673">Keith Lindsay</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1674">Stu Muller</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1675">Mike Page</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1676">Martin Schmidt</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1677">Lori Sentman</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1678">Michael Schulz</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1679">Rich Signell</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1680">Gary Strand</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1681">Andrew Wittenberg</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1682">George White</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1683">Remik Ziemlinski</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1682">Peter Campbell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1683">Martin Dix</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1684">Mark Flanner</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1685">Markus Liebig</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1686">Keith Lindsay</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1687">Stu Muller</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1688">Mike Page</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1689">Martin Schmidt</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1690">Lori Sentman</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1691">Michael Schulz</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1692">Rich Signell</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1693">Gary Strand</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1694">Andrew Wittenberg</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1695">George White</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1696">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, Rich Signell, 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="1684">Daniel Baumann</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1685">Nick Bower</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1686">Luk Claes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1687">Barry deFreese</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1688">Aleksandar Jelenak</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1689">Francesco Lovergine</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1690">Matej Vela</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1697">Daniel Baumann</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1698">Nick Bower</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1699">Luk Claes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1700">Barry deFreese</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1701">Aleksandar Jelenak</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1702">Francesco Lovergine</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1703">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="1691">Patrice Dumas</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1692">Ed Hill</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1693">Orion Powlawski</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1704">Patrice Dumas</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1705">Ed Hill</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1706">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="1694">George Shapavalov</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1695">Patrick Kursawe</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1707">George Shapavalov</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1708">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="1696">Filipe Fernandes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1709">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="1697">Alexander Hansen</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1698">Takeshi Enomoto</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1710">Alexander Hansen</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1711">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="1699">Eric Blake</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1712">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="1700">Gavin Burris</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1701">Kyle Wilcox</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1713">Gavin Burris</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1714">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="1702">Andrea Cimatoribus</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1715">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="1703">Martin Otte</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1704">Etienne Tourigny</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1716">Martin Otte</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1717">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="1705">Wenshan Wang</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1718">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>
@@ -17290,7 +17430,7 @@ netCDF4 groups.
</section>
<node name="Citation" spaces=" "><nodename>Citation</nodename><nodenext spaces=" ">Proposals for Institutional Funding</nodenext><nodeprev spaces=" ">Contributors</nodeprev><nodeup spaces=" ">Contributing</nodeup></node>
<section spaces=" "><sectiontitle>Citation</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1706">citation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1719">citation</indexterm></cindex>
<para>The recommended citations for <acronym><acronymword>NCO</acronymword></acronym> software are
</para><example endspaces=" ">
<verbatim xml:space="preserve">
@@ -17324,27 +17464,27 @@ This list links to the full papers and seminars themselves.
</section>
<node name="Proposals-for-Institutional-Funding" spaces=" "><nodename>Proposals for Institutional Funding</nodename><nodenext spaces=" "></nodenext><nodeprev spaces=" ">Citation</nodeprev><nodeup spaces=" ">Contributing</nodeup></node>
<section spaces=" "><sectiontitle>Proposals for Institutional Funding</sectiontitle>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1707">funding</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1708">proposals</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1709"><acronym><acronymword>NSF</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1710">server-side processing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1711">Distributed Data Reduction & Analysis</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1712">Scientific Data Operators</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1713"><acronym><acronymword>DDRA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1714">Server-Side Distributed Data Reduction & Analysis</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1715"><acronym><acronymword>SSDDRA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1716"><acronym><acronymword>CCSM</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1717"><acronym><acronymword>IPCC</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1718"><acronym><acronymword>NSF</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1719"><acronym><acronymword>SDO</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1720"><acronym><acronymword>SEIII</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1721">OptIPuter</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1720">funding</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1721">proposals</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1722"><acronym><acronymword>NSF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1723">server-side processing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1724">Distributed Data Reduction & Analysis</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1725">Scientific Data Operators</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1726"><acronym><acronymword>DDRA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1727">Server-Side Distributed Data Reduction & Analysis</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1728"><acronym><acronymword>SSDDRA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1729"><acronym><acronymword>CCSM</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1730"><acronym><acronymword>IPCC</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1731"><acronym><acronymword>NSF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1732"><acronym><acronymword>SDO</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1733"><acronym><acronymword>SEIII</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1734">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="1722">parallelism</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1735">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>
@@ -17352,9 +17492,9 @@ 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="1723"><acronym><acronymword>NASA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1724"><acronym><acronymword>NRA</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1725"><acronym><acronymword>HDF</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1736"><acronym><acronymword>NASA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1737"><acronym><acronymword>NRA</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1738"><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
@@ -17374,7 +17514,7 @@ 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="1726">Quick Start</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1739">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
@@ -17389,15 +17529,15 @@ 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="1727">daily data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1740">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="1728">monthly average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1729">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1730">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1741">monthly average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1742">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1743">time-averaging</indexterm></cindex>
</para><example endspaces=" ">
<verbatim xml:space="preserve">
for yyyy in {1990..2005}; do # Loop over years
@@ -17417,9 +17557,9 @@ ncrcat -O in_??????.nc out.nc
<noindent></noindent>
<para><strong>Annual average:</strong>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1731">annual average from daily data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1732">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1733">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1744">annual average from daily data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1745">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1746">time-averaging</indexterm></cindex>
</para><example endspaces=" ">
<verbatim xml:space="preserve">
for yyyy in {1990..2005}; do # Loop over years
@@ -17438,23 +17578,23 @@ 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="1734">monthly data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1747">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="1735">seasonal average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1736">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1737">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1748">seasonal average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1749">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1750">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="1738">annual average from monthly data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1739">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1740">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1751">annual average from monthly data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1752">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1753">time-averaging</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve">ncra -O --mro -d time,,,12,12 in.nc out.nc
</pre></example>
@@ -17479,10 +17619,10 @@ 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="1741">daily data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1742">monthly data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1743">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1744">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1754">daily data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1755">monthly data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1756">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1757">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.
@@ -17505,8 +17645,8 @@ 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="1745">daily data</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1746">monthly data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1758">daily data</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1759">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.
@@ -17520,8 +17660,8 @@ 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="1747"><acronym><acronymword>CMIP5</acronymword></acronym></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1748"><acronym><acronymword>GODAD</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1760"><acronym><acronymword>CMIP5</acronymword></acronym></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1761"><acronym><acronymword>GODAD</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.
@@ -17596,7 +17736,7 @@ 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="1749">file combination</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1762">file combination</indexterm></cindex>
<para>Sometimes, the data of one ensemble member will be stored in several
files to reduce single file size.
It is more convenient to concatenate these files into a single
@@ -17625,10 +17765,10 @@ conditions to produce an ensemble of realizations.
These ensemble members comprise the third level of the hierarchy.
The script selects two variables, <var>snc</var> and <var>snd</var> (snow cover
and snow depth).
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1750"><option>--gag</option></indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1751">aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1752">group aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1753">groups, creating</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1763"><option>--gag</option></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1764">aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1765">group aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1766">groups, creating</indexterm></cindex>
</para><example endspaces=" ">
<verbatiminclude file="xmp/cmb_fl_grp.sh" spaces=" ">xmp/cmb_fl_grp.sh</verbatiminclude>
</example>
@@ -17636,10 +17776,10 @@ and snow depth).
</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="1754">spatial distribution</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1755">long-term average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1756">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1757">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1767">spatial distribution</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1768">long-term average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1769">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1770">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>
@@ -17660,7 +17800,7 @@ Key steps include:
</example>
<para>With the use of <key>group</key>, the above script will be shortened to <w>ONE LINE</w>.
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1758">groups, averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1771">groups, averaging</indexterm></cindex>
</para><example endspaces=" ">
<pre xml:space="preserve"># Data from cmb_fl_grp.sh
# ensemble averaging
@@ -17684,20 +17824,20 @@ ensembles with only one ensemble member will be left untouched.
</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="1759">annual average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1760">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1761">time-averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1762">area-averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1763">dimension order</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1764">anomalies</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1765">standard deviation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1766">renaming variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1767">attributes, editing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1768">attributes, modifying</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1769">attributes, overwriting</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1770">regression</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1771">nco script file</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1772">variables, appending</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1772">annual average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1773">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1774">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1775">area-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1776">dimension order</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1777">anomalies</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1778">standard deviation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1779">renaming variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1780">attributes, editing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1781">attributes, modifying</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1782">attributes, overwriting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1783">regression</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1784">nco script file</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1785">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>
@@ -17732,12 +17872,12 @@ 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="1773">group, spatial averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1774">group, temporal averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1775">group, anomaly</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1776">group, standard deviation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1777">group, aggregation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1778">group, dimension permutation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1786">group, spatial averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1787">group, temporal averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1788">group, anomaly</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1789">group, standard deviation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1790">group, aggregation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1791">group, dimension permutation</indexterm></cindex>
</para><example endspaces=" ">
<verbatiminclude file="xmp/ann_avg_grp.sh" spaces=" ">xmp/ann_avg_grp.sh</verbatiminclude>
</example>
@@ -17745,12 +17885,12 @@ 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="1779">monthly average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1780">average</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1781">time-averaging</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1782">anomalies</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1783">geographical weight</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1784">weighted average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1792">monthly average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1793">average</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1794">time-averaging</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1795">anomalies</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1796">geographical weight</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1797">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>
@@ -17776,16 +17916,16 @@ 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="1785">regrid</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1786">MODIS</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1787">bilinear interpolation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1788">interpolation</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1789">renaming variables</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1790">renaming attributes</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1791">renaming dimensions</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1792">attributes, editing</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1793">attributes, modifying</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1794">attributes, overwriting</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1798">regrid</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1799">MODIS</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1800">bilinear interpolation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1801">interpolation</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1802">renaming variables</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1803">renaming attributes</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1804">renaming dimensions</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1805">attributes, editing</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1806">attributes, modifying</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1807">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.
@@ -17807,8 +17947,8 @@ 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="1795">MODIS</indexterm></cindex>
-<cindex index="cp" spaces=" "><indexterm index="cp" number="1796">coordinates</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1808">MODIS</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1809">coordinates</indexterm></cindex>
<para><strong>Main Script</strong>
</para><example endspaces=" ">
<verbatiminclude file="xmp/add_crd.sh" spaces=" ">xmp/add_crd.sh</verbatiminclude>
@@ -17821,7 +17961,7 @@ 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="1797">coordinates, modifying</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1810">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
@@ -17868,7 +18008,7 @@ 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="1798"><command>parallel</command></indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1811"><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=" ">
@@ -17883,7 +18023,7 @@ ls *historical*.nc | parallel ncks -O -d time,"1950-01-01","2000-
</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="1799">CCSM</indexterm></cindex>
+<cindex index="cp" spaces=" "><indexterm index="cp" number="1812">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/nco_news.shtml b/doc/nco_news.shtml
index 959a1f0..6f9a552 100644
--- a/doc/nco_news.shtml
+++ b/doc/nco_news.shtml
@@ -1,4 +1,4 @@
-<!-- $Header: /cvsroot/nco/nco/doc/nco_news.shtml,v 1.23 2014/06/13 19:43:51 zender Exp $
+<!-- $Header: /cvsroot/nco/nco/doc/nco_news.shtml,v 1.24 2014/10/13 15:35:04 zender Exp $
Purpose: NCO news archive
@@ -177,7 +177,7 @@ future directions for NCO.</li>
<li><a href="http://sf.net/forum/forum.php?forum_id=9830">Help
Forum</a>: Installation problems, user's questions (e.g., "How do I
average x and y...?")</li>
-<li><a href="https://sf.net/projects/nco/forums/forum/9831">Developers
+<li><a href="https://sf.net/p/nco/discussion/9831">Developers
forum</a>: Discussion of patches, technical questions related to
modifying NCO, and discussion of specific items on the
<a href="./TODO">TODO list</a> and how best to address them</li>
diff --git a/doc/nco_src_frg.txt b/doc/nco_src_frg.txt
index 1c80b4d..9da9c3e 100644
--- a/doc/nco_src_frg.txt
+++ b/doc/nco_src_frg.txt
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/doc/nco_src_frg.txt,v 1.66 2012/06/14 20:20:14 zender Exp $ -*-text-*-
+# $Header: /cvsroot/nco/nco/doc/nco_src_frg.txt,v 1.67 2014/10/13 15:35:04 zender Exp $ -*-text-*-
# Purpose: Potpurri of Sourceforge information for NCO netCDF Operators project
@@ -170,7 +170,7 @@ since they were released. Eventually, therefore, you must learn to
use CVS so that you can make serious code changes and keep up with the
development branch. NCO-specific instructions on how to check out the
code with CVS are posted to the Developer's forum on Sourceforge
-http://sf.net/projects/nco/forums/forum/9831
+http://sf.net/p/nco/discussion/9831
in the message dated June 21, 2000.
Once you have NCO, build it! If you must make non-trivial
diff --git a/doc/xmp/cmb_fl_grp.sh b/doc/xmp/cmb_fl_grp.sh
index 6a1a13d..ff157c8 100644
--- a/doc/xmp/cmb_fl_grp.sh
+++ b/doc/xmp/cmb_fl_grp.sh
@@ -66,15 +66,13 @@ mv ${drc_out}${var[0]}_${rlm}_${mdl[0]}_${xpt[0]}_all-nsm_${tms}.${flt} \
# Remove temporary files
rm ${drc_out}sn?_${rlm}*.nc
-#!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
-# Coming soon!
-#- Group names:
+#- Rename Group:
# E.g., file snc_LImon_CESM1-CAM5_historical_r1i1p1_199001-200512.nc
-# will be group /historical/CESM1-CAM5/00
-#- You can rename groups on the last level to be more meaningful by
-#ncrename -g ${xpt}/${mdl}/02,${xpt}/${mdl}/r3i1p1 \
-# ${drc_out}${var}_${rlm}_${mdl}_all-nsm_${tms}.${flt}
-#!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
+# is now group /historical/CESM1-CAM5/CESM1-CAM5_00.
+# You can rename it to /historical/CESM1-CAM5/r1i1p1 to make more sense.
+# Note: You don't need to write the full path of the new name.
+ncrename -g ${xpt}/${mdl}/${mdl}_00,r1i1p1 \
+ ${drc_out}${var}_${rlm}_${mdl}_all-nsm_${tms}.${flt}
#------------------------------------------------------------
# Output file structure
@@ -114,7 +112,7 @@ rm ${drc_out}sn?_${rlm}*.nc
# }
# CESM1-CAM5
# {
-# CESM1-CAM5_00 { ... }
+# r1i1p1 { ... }
# CESM1-CAM5_01 { ... }
# CESM1-CAM5_02 { ... }
# }
diff --git a/man/Makefile.in b/man/Makefile.in
index 87d9f26..a19020e 100644
--- a/man/Makefile.in
+++ b/man/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/man/Makefile.in,v 1.112 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/man/Makefile.in,v 1.113 2014/10/22 18:47:06 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
am__is_gnu_make = test -n '$(MAKEFILE_LIST)' && test -n '$(MAKELEVEL)'
am__make_running_with_option = \
@@ -204,9 +204,9 @@ MANIFEST_TOOL = @MANIFEST_TOOL@
MKDIR_P = @MKDIR_P@
NCOXX = @NCOXX@
NCO_CXX = @NCO_CXX@
-NETCDF4_ROOT = @NETCDF4_ROOT@
NETCDF_INC = @NETCDF_INC@
NETCDF_LIB = @NETCDF_LIB@
+NETCDF_ROOT = @NETCDF_ROOT@
NM = @NM@
NMEDIT = @NMEDIT@
OBJDUMP = @OBJDUMP@
diff --git a/man/ncbo.1 b/man/ncbo.1
index 57e8c3a..6ececfb 100644
--- a/man/ncbo.1
+++ b/man/ncbo.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/ncbo.1,v 1.27 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncbo.1,v 1.28 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for ncbo
.\" Usage:
.\" nroff -man ~/nco/man/ncbo.1 | less
@@ -13,6 +13,8 @@ ncbo [\-3] [\-4] [\-6] [\-7] [\-A] [\-\-bfr
.IR nm,sz ]
[\-\-cnk_map
.IR map ]
+[\-\-cnk_min
+.IR sz ]
[\-\-cnk_plc
.IR plc ]
[\-\-cnk_scl
@@ -337,7 +339,7 @@ ncrcat t_anm_8589_??.nc t_anm_8589_0112.nc
.RE
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/ncbo.1,v 1.27 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncbo.1,v 1.28 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/man/ncecat.1 b/man/ncecat.1
index fe25871..1d884bd 100644
--- a/man/ncecat.1
+++ b/man/ncecat.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/ncecat.1,v 1.32 2014/01/06 06:46:04 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncecat.1,v 1.33 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for ncecat
.\" Usage:
.\" nroff -man ~/nco/man/ncecat.1 | less
@@ -12,6 +12,8 @@ ncecat [\-3] [\-4] [\-6] [\-7] [\-A] [\-\-bfr
.IR nm,sz ]
[\-\-cnk_map
.IR map ]
+[\-\-cnk_min
+.IR sz ]
[\-\-cnk_plc
.IR plc ]
[\-\-cnk_scl
@@ -119,7 +121,7 @@ It contains 60 months of data (which might or might not be stored in the
record dimension, depending on the input files).
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/ncecat.1,v 1.32 2014/01/06 06:46:04 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncecat.1,v 1.33 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/man/nces.1 b/man/nces.1
index 23c05df..4531cbb 100644
--- a/man/nces.1
+++ b/man/nces.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/nces.1,v 1.4 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/nces.1,v 1.5 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for nces
.\" Usage:
.\" nroff -man ~/nco/man/nces.1 | less
@@ -12,6 +12,8 @@ nces [\-3] [\-4] [\-6] [\-7] [\-A] [\-\-bfr
.IR nm,sz ]
[\-\-cnk_map
.IR map ]
+[\-\-cnk_min
+.IR sz ]
[\-\-cnk_plc
.IR plc ]
[\-\-cnk_scl
@@ -135,7 +137,7 @@ input files.
Additionally, only data inside the tropics is included.
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/nces.1,v 1.4 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/nces.1,v 1.5 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/man/ncflint.1 b/man/ncflint.1
index aa49269..0e48613 100644
--- a/man/ncflint.1
+++ b/man/ncflint.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/ncflint.1,v 1.25 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncflint.1,v 1.26 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for ncflint
.\" Usage:
.\" nroff -man ~/nco/man/ncflint.1
@@ -7,7 +7,17 @@
ncflint \- netCDF File Interpolator
.SH SYNTAX
ncflint [\-3] [\-4] [\-6] [\-7] [\-A] [\-\-bfr
-.IR sz ] [\-C] [\-c] [\-D
+.IR sz ] [\-C] [\-c] [\-\-cnk_byt
+.IR sz ] [\-\-cnk_dmn
+.IR nm,sz ]
+[\-\-cnk_map
+.IR map ]
+[\-\-cnk_min
+.IR sz ]
+[\-\-cnk_plc
+.IR plc ]
+[\-\-cnk_scl
+.IR sz ] [\-D
.IR dbg_lvl ]
[\-d
.IR dim ,[
@@ -160,7 +170,7 @@ and
This behavior is hardcoded.
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/ncflint.1,v 1.25 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncflint.1,v 1.26 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/man/ncks.1 b/man/ncks.1
index 9e4b367..c81c92b 100644
--- a/man/ncks.1
+++ b/man/ncks.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/ncks.1,v 1.48 2014/09/12 04:16:51 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncks.1,v 1.49 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for ncks
.\" Usage:
.\" nroff -man ~/nco/man/ncks.1 | less
@@ -15,6 +15,8 @@ ncks [\-3] [\-4] [\-5] [\-6] [\-7] [\-A] [\-a] [\-b
.IR nm,sz ]
[\-\-cnk_map
.IR map ]
+[\-\-cnk_min
+.IR sz ]
[\-\-cnk_plc
.IR plc ]
[\-\-cnk_scl
@@ -593,7 +595,7 @@ ncks \-d lon,260.,45. in.nc out.nc
.RE
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/ncks.1,v 1.48 2014/09/12 04:16:51 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncks.1,v 1.49 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/man/ncpdq.1 b/man/ncpdq.1
index 4d26493..75ac549 100644
--- a/man/ncpdq.1
+++ b/man/ncpdq.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/ncpdq.1,v 1.31 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncpdq.1,v 1.32 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for ncpdq
.\" Usage:
.\" nroff -man ~/nco/man/ncpdq.1 | less
@@ -14,6 +14,8 @@ ncpdq [\-3] [\-4] [\-6] [\-7] [\-A] [\-a
.IR nm,sz ]
[\-\-cnk_map
.IR map ]
+[\-\-cnk_min
+.IR sz ]
[\-\-cnk_plc
.IR plc ]
[\-\-cnk_scl
@@ -117,7 +119,7 @@ The specified re-ordering will fail if it requires creating more than
one record dimension amongst all the output variables.
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/ncpdq.1,v 1.31 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncpdq.1,v 1.32 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/man/ncra.1 b/man/ncra.1
index 6a6687a..02d0817 100644
--- a/man/ncra.1
+++ b/man/ncra.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/ncra.1,v 1.37 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncra.1,v 1.38 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for ncra
.\" Usage:
.\" nroff -man ~/nco/man/ncra.1 | less
@@ -12,6 +12,8 @@ ncra [\-3] [\-4] [\-6] [\-7] [\-A] [\-\-bfr
.IR nm,sz ]
[\-\-cnk_map
.IR map ]
+[\-\-cnk_min
+.IR sz ]
[\-\-cnk_plc
.IR plc ]
[\-\-cnk_scl
@@ -144,7 +146,7 @@ ncra \-d time,6.,54. ??.nc 8506_8906.nc
.RE
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/ncra.1,v 1.37 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncra.1,v 1.38 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/man/ncrcat.1 b/man/ncrcat.1
index 3c64ed1..484f60c 100644
--- a/man/ncrcat.1
+++ b/man/ncrcat.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/ncrcat.1,v 1.32 2014/07/15 18:48:54 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncrcat.1,v 1.33 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for ncrcat
.\" Usage:
.\" nroff -man ~/nco/man/ncrcat.1 | less
@@ -12,6 +12,8 @@ ncrcat [\-3] [\-4] [\-6] [\-7] [\-A] [\-\-bfr
.IR nm,sz ]
[\-\-cnk_map
.IR map ]
+[\-\-cnk_min
+.IR sz ]
[\-\-cnk_plc
.IR plc ]
[\-\-cnk_scl
@@ -163,7 +165,7 @@ and finally to repack the result using
.B ncpdq.
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/ncrcat.1,v 1.32 2014/07/15 18:48:54 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncrcat.1,v 1.33 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/man/ncwa.1 b/man/ncwa.1
index 843a82a..fe1513f 100644
--- a/man/ncwa.1
+++ b/man/ncwa.1
@@ -1,4 +1,4 @@
-.\" $Header: /cvsroot/nco/nco/man/ncwa.1,v 1.31 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncwa.1,v 1.32 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: ROFF man page for ncwa
.\" Usage:
.\" nroff -man ~/nco/man/ncwa.1 | less
@@ -16,6 +16,8 @@ ncwa [\-3] [\-4] [\-6] [\-7] [\-A] [\-a
.IR nm,sz ]
[\-\-cnk_map
.IR map ]
+[\-\-cnk_min
+.IR sz ]
[\-\-cnk_plc
.IR plc ]
[\-\-cnk_scl
@@ -202,7 +204,7 @@ The mathematical definition of operations involving rank reduction
is given above.
.\" NB: Append man_end.txt here
-.\" $Header: /cvsroot/nco/nco/man/ncwa.1,v 1.31 2014/05/29 18:00:26 zender Exp $ -*-nroff-*-
+.\" $Header: /cvsroot/nco/nco/man/ncwa.1,v 1.32 2014/10/31 17:55:56 zender Exp $ -*-nroff-*-
.\" Purpose: Trailer file for common ending to NCO man pages
.\" Usage:
.\" Append this file to end of NCO man pages immediately after marker
diff --git a/qt/libnco/libnco.vcxproj b/qt/libnco/libnco.vcxproj
index e6b1ce2..d751ca2 100644
--- a/qt/libnco/libnco.vcxproj
+++ b/qt/libnco/libnco.vcxproj
@@ -55,7 +55,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
diff --git a/qt/libnco_c++/libnco_c++.vcxproj b/qt/libnco_c++/libnco_c++.vcxproj
index 01a6133..6d32ced 100644
--- a/qt/libnco_c++/libnco_c++.vcxproj
+++ b/qt/libnco_c++/libnco_c++.vcxproj
@@ -55,7 +55,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"..\..\src\nco_c++";"$(HEADER_NETCDF)";"$(HEADER_GSL)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>..\..\src\nco_c++;$(HEADER_NETCDF);$(HEADER_GSL);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
diff --git a/qt/ncap2/ncap2.vcxproj b/qt/ncap2/ncap2.vcxproj
index 4288882..3d247be 100644
--- a/qt/ncap2/ncap2.vcxproj
+++ b/qt/ncap2/ncap2.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";"$(HEADER_ANTLR)";"..\..\src\nco";"..\..\src\nco++";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(HEADER_ANTLR);..\..\src\nco;..\..\src\nco++;$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_ANTLR);$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_ANTLR);$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncatted/ncatted.vcxproj b/qt/ncatted/ncatted.vcxproj
index d03a5cd..0dfe724 100644
--- a/qt/ncatted/ncatted.vcxproj
+++ b/qt/ncatted/ncatted.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncbo/ncbo.vcxproj b/qt/ncbo/ncbo.vcxproj
index ac2768f..912694c 100644
--- a/qt/ncbo/ncbo.vcxproj
+++ b/qt/ncbo/ncbo.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncea/ncea.vcxproj b/qt/ncea/ncea.vcxproj
index 7310c39..ecda11a 100644
--- a/qt/ncea/ncea.vcxproj
+++ b/qt/ncea/ncea.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncecat/ncecat.vcxproj b/qt/ncecat/ncecat.vcxproj
index 4784e4d..d352029 100644
--- a/qt/ncecat/ncecat.vcxproj
+++ b/qt/ncecat/ncecat.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncflint/ncflint.vcxproj b/qt/ncflint/ncflint.vcxproj
index cb41664..f87c7f6 100644
--- a/qt/ncflint/ncflint.vcxproj
+++ b/qt/ncflint/ncflint.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncks/ncks.vcxproj b/qt/ncks/ncks.vcxproj
index 3d03217..2980ef4 100644
--- a/qt/ncks/ncks.vcxproj
+++ b/qt/ncks/ncks.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
diff --git a/qt/nco.pri b/qt/nco.pri
index 9385d3c..0ff084f 100644
--- a/qt/nco.pri
+++ b/qt/nco.pri
@@ -47,8 +47,6 @@ win32{
} else {
INCLUDEPATH += $(HEADER_NETCDF)
LIBS += $(LIB_NETCDF)
- LIBS += $(LIB_DISPATCH)
- LIBS += $(LIB_NETCDF4)
LIBS += $(LIB_HDF5)
LIBS += $(LIB_HDF5_HL)
LIBS += $(LIB_ZLIB)
diff --git a/qt/ncpdq/ncpdq.vcxproj b/qt/ncpdq/ncpdq.vcxproj
index 78bcd12..6a9fa99 100644
--- a/qt/ncpdq/ncpdq.vcxproj
+++ b/qt/ncpdq/ncpdq.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncra/ncra.vcxproj b/qt/ncra/ncra.vcxproj
index bdf3bdf..26ed833 100644
--- a/qt/ncra/ncra.vcxproj
+++ b/qt/ncra/ncra.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncrcat/ncrcat.vcxproj b/qt/ncrcat/ncrcat.vcxproj
index 4e75ff9..32d3f28 100644
--- a/qt/ncrcat/ncrcat.vcxproj
+++ b/qt/ncrcat/ncrcat.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncrename/ncrename.vcxproj b/qt/ncrename/ncrename.vcxproj
index 2e5dc5d..2efaf31 100644
--- a/qt/ncrename/ncrename.vcxproj
+++ b/qt/ncrename/ncrename.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/ncwa/ncwa.vcxproj b/qt/ncwa/ncwa.vcxproj
index a24508a..3e1a826 100644
--- a/qt/ncwa/ncwa.vcxproj
+++ b/qt/ncwa/ncwa.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"$(HEADER_GSL)";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>$(HEADER_GSL);$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco/debug/libnco.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_GSL);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/qt/tst_nco_c++/tst_nco_c++.vcxproj b/qt/tst_nco_c++/tst_nco_c++.vcxproj
index 46de417..ef54d5c 100644
--- a/qt/tst_nco_c++/tst_nco_c++.vcxproj
+++ b/qt/tst_nco_c++/tst_nco_c++.vcxproj
@@ -56,7 +56,7 @@
</PropertyGroup>
<ItemDefinitionGroup Condition="'$(Configuration)|$(Platform)'=='Debug|Win32'">
<ClCompile>
- <AdditionalIncludeDirectories>"..\..\src\nco_c++";"$(HEADER_NETCDF)";$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
+ <AdditionalIncludeDirectories>..\..\src\nco_c++;$(HEADER_NETCDF);$(QTDIR)\mkspecs\default;%(AdditionalIncludeDirectories)</AdditionalIncludeDirectories>
<AdditionalOptions>-Zm200 -w34100 -w34189 %(AdditionalOptions)</AdditionalOptions>
<AssemblerListingLocation>debug\</AssemblerListingLocation>
<BrowseInformation>false</BrowseInformation>
@@ -76,7 +76,7 @@
<WarningLevel>Level3</WarningLevel>
</ClCompile>
<Link>
- <AdditionalDependencies>../libnco_c++/debug/libnco_c++.lib;$(LIB_NETCDF);$(LIB_DISPATCH);$(LIB_NETCDF4);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
+ <AdditionalDependencies>../libnco_c++/debug/libnco_c++.lib;$(LIB_NETCDF);$(LIB_HDF5);$(LIB_HDF5_HL);$(LIB_ZLIB);$(LIB_SZIP);$(LIB_CURL);%(AdditionalDependencies)</AdditionalDependencies>
<AdditionalLibraryDirectories>$(QTDIR)\lib;%(AdditionalLibraryDirectories)</AdditionalLibraryDirectories>
<AdditionalOptions>"/MANIFESTDEPENDENCY:type='win32' name='Microsoft.Windows.Common-Controls' version='6.0.0.0' publicKeyToken='6595b64144ccf1df' language='*' processorArchitecture='*'" %(AdditionalOptions)</AdditionalOptions>
<DataExecutionPrevention>true</DataExecutionPrevention>
diff --git a/src/Makefile.in b/src/Makefile.in
index e70d5b7..26ff6ea 100644
--- a/src/Makefile.in
+++ b/src/Makefile.in
@@ -14,7 +14,7 @@
@SET_MAKE@
-# $Header: /cvsroot/nco/nco/src/Makefile.in,v 1.110 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/Makefile.in,v 1.111 2014/10/22 18:47:06 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
am__is_gnu_make = test -n '$(MAKEFILE_LIST)' && test -n '$(MAKELEVEL)'
am__make_running_with_option = \
@@ -233,9 +233,9 @@ MANIFEST_TOOL = @MANIFEST_TOOL@
MKDIR_P = @MKDIR_P@
NCOXX = @NCOXX@
NCO_CXX = @NCO_CXX@
-NETCDF4_ROOT = @NETCDF4_ROOT@
NETCDF_INC = @NETCDF_INC@
NETCDF_LIB = @NETCDF_LIB@
+NETCDF_ROOT = @NETCDF_ROOT@
NM = @NM@
NMEDIT = @NMEDIT@
OBJDUMP = @OBJDUMP@
diff --git a/src/nco++/Makefile.in b/src/nco++/Makefile.in
index 0084728..0267503 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 1.99 2014/08/03 23:49:17 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/nco++/Makefile.in,v 1.100 2014/10/22 18:47:06 zender Exp $ -*-makefile-*-
# Purpose: Template builds for nco++ directory
# Process this file with automake to produce Makefile.in
@@ -254,9 +254,9 @@ MANIFEST_TOOL = @MANIFEST_TOOL@
MKDIR_P = @MKDIR_P@
NCOXX = @NCOXX@
NCO_CXX = @NCO_CXX@
-NETCDF4_ROOT = @NETCDF4_ROOT@
NETCDF_INC = @NETCDF_INC@
NETCDF_LIB = @NETCDF_LIB@
+NETCDF_ROOT = @NETCDF_ROOT@
NM = @NM@
NMEDIT = @NMEDIT@
OBJDUMP = @OBJDUMP@
diff --git a/src/nco++/Makefile.old b/src/nco++/Makefile.old
index 9f5f0c5..03aa500 100644
--- a/src/nco++/Makefile.old
+++ b/src/nco++/Makefile.old
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/src/nco++/Makefile.old,v 1.132 2014/07/07 06:04:23 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/nco++/Makefile.old,v 1.134 2014/11/24 19:24:19 zender Exp $ -*-makefile-*-
# Purpose: Makefile for NCO C++ directory nco++
# Requires GNU Make---AT&T Make chokes on GNU syntax
@@ -295,14 +295,14 @@ ifeq (${GSL},Y)
# Build GSL-enabled NCO
# Place GSL block after DAP blocks for both to work together
ifdef GSL_INC
- GSL_INC := -I${GSL_INC}
+ GSL_INC_FLG := -I${GSL_INC}
else
- GSL_INC := $(shell gsl-config --cflags)
+ GSL_INC_FLG := $(shell gsl-config --cflags)
endif # endif GSL_INC
ifdef GSL_LIB
- GSL_LIB := -L${GSL_LIB} -lgsl
+ GSL_LIB_LIB := -L${GSL_LIB} -lgsl
else
- GSL_LIB := $(shell gsl-config --libs)
+ GSL_LIB_FLG := $(shell gsl-config --libs)
endif # endif GSL_LIB
ifndef GSL_MINOR_VERSION
GSL_MINOR_VERSION := $(shell gsl-config --version | sed s/^[1-9]\.// )
@@ -315,14 +315,14 @@ endif # end if GSL
ifeq (${UDUNITS},Y)
# 20130607: -lexpat needed on .deb systems, not on RPM systems
ifdef UDUNITS_INC
- UDUNITS_INC := -I${UDUNITS_INC}
+ UDUNITS_INC_FLG := -I${UDUNITS_INC}
else
- UDUNITS_INC := -I/usr/include/udunits2
+ UDUNITS_INC_FLG := -I/usr/include/udunits2
endif # endif UDUNITS_INC
ifdef UDUNITS_LIB
- UDUNITS_LIB := -L${UDUNITS_LIB} -ludunits2
+ UDUNITS_LIB_FLG := -L${UDUNITS_LIB} -ludunits2
else
- UDUNITS_LIB := -ludunits2
+ UDUNITS_LIB_FLG := -ludunits2
endif # end if UDUNITS_LIB
endif # end if UDUNITS
@@ -343,8 +343,8 @@ ifdef LIB_NCAR
NC_LDFLAGS := ${LIB_NCAR} ${NC_LDFLAGS}
endif
-OTHER_CFLAGS := ${NC_CFLAGS} ${MPI_CFLAGS} ${GSL_INC} ${UDUNITS_INC} ${ANTLR_INC}
-OTHER_LDFLAGS := ${NCO_LDFLAGS} ${NC_LDFLAGS} ${MPI_LDFLAGS} ${GSL_LIB} ${UDUNITS_LIB} ${ANTLR_LIB}
+OTHER_CFLAGS := ${NC_CFLAGS} ${MPI_CFLAGS} ${GSL_INC_FLG} ${UDUNITS_INC_FLG} ${ANTLR_INC}
+OTHER_LDFLAGS := ${NCO_LDFLAGS} ${NC_LDFLAGS} ${MPI_LDFLAGS} ${GSL_LIB_FLG} ${UDUNITS_LIB_FLG} ${ANTLR_LIB}
# sort removes duplicates but unfortunately changes precedence too
# fxm: use uniq instead
diff --git a/src/nco++/fmc_all_cls.cc b/src/nco++/fmc_all_cls.cc
index 82e9e65..2e70dc4 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 1.70 2014/08/11 11:44:24 hmb Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/fmc_all_cls.cc,v 1.71 2014/10/31 11:19:38 hmb Exp $ */
/* Purpose: netCDF arithmetic processor class methods: families of functions/methods */
@@ -1065,13 +1065,16 @@ var_sct * utl_cls::is_fnd(bool &is_mtd, std::vector<RefAST> &args_vtr, fmc_cls &
err_prn(sfnm,os.str());
}
- // Check location of record dimension
- for(idx=0 ; idx<nbr_dim ; idx++)
- if( idx>0 && dmn_vtr[idx]->is_rec_dmn){
- ostringstream os;
- os<<"The record dimension \""<< dmn_vtr[idx]->nm <<"\" must be the first dimension in the list.";
- err_prn(fnc_nm,os.str());
- }
+ // Check location of record dimension if not a netcdf4 file
+ if( walker.prs_arg->fl_out_fmt != NC_FORMAT_NETCDF4){
+ for(idx=0 ; idx<nbr_dim ; idx++){
+ if( idx>0 && dmn_vtr[idx]->is_rec_dmn){
+ ostringstream os;
+ os<<"The record dimension \""<< dmn_vtr[idx]->nm <<"\" must be the first dimension in the list.";
+ err_prn(fnc_nm,os.str());
+ }
+ }
+ }
}
diff --git a/src/nco++/ncap2.cc b/src/nco++/ncap2.cc
index 00d754a..6db2a78 100644
--- a/src/nco++/ncap2.cc
+++ b/src/nco++/ncap2.cc
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco++/ncap2.cc,v 1.196 2014/09/16 14:14:56 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncap2.cc,v 1.200 2014/11/05 23:39:04 zender Exp $ */
/* ncap2 -- netCDF arithmetic processor */
@@ -144,8 +144,8 @@ 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 1.196 2014/09/16 14:14:56 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.196 $";
+ const char * const CVS_Id="$Id: ncap2.cc,v 1.200 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.200 $";
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 */
@@ -209,6 +209,7 @@ main(int argc,char **argv)
nm_id_sct *xtr_lst_a=NULL_CEWI; /* Initialize to ALL variables in OUTPUT file */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -246,18 +247,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -334,6 +337,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
@@ -640,14 +647,13 @@ main(int argc,char **argv)
} /* Existing file */
/* Create structure with all chunking information */
- if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_sz_byt,cnk_sz_scl,&cnk);
+ if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_min_byt,cnk_sz_byt,cnk_sz_scl,&cnk);
/* Copy global attributes */
(void)nco_att_cpy(in_id,out_id,NC_GLOBAL,NC_GLOBAL,(nco_bool)True);
/* Catenate time-stamped command line to "history" global attribute */
if(HISTORY_APPEND) (void)nco_hst_att_cat(out_id,cmd_ln);
-
if(thr_nbr > 0 && HISTORY_APPEND) (void)nco_thr_att_cat(out_id,thr_nbr);
/* Take output file out of define mode */
@@ -665,6 +671,8 @@ main(int argc,char **argv)
prs_arg.in_id=in_id; /* [id] Input data file ID */
prs_arg.fl_out=fl_out; /* [sng] Output data file */
prs_arg.out_id=out_id; /* [id] Output data file ID */
+ prs_arg.fl_out_fmt=fl_out_fmt; /* [sng] Output data file format */
+
if(RAM_OPEN) md_open=NC_NOWRITE|NC_DISKLESS; else md_open=NC_NOWRITE;
rcd+=nco_fl_open(fl_out_tmp,md_open,&bfr_sz_hnt,&prs_arg.out_id_readonly);
diff --git a/src/nco++/ncap2_utl.cc b/src/nco++/ncap2_utl.cc
index dfa3799..d46fb20 100644
--- a/src/nco++/ncap2_utl.cc
+++ b/src/nco++/ncap2_utl.cc
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco++/ncap2_utl.cc,v 1.160 2014/09/30 23:03:29 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncap2_utl.cc,v 1.162 2014/11/04 19:40:22 pvicente Exp $ */
/* Purpose: netCDF arithmetic processor */
@@ -267,6 +267,23 @@ ncap_att_gnrl
} /* end ncap_att_gnrl() */
+int
+ncap_att_cpy_sct
+(var_sct *var1,
+ var_sct *var2,
+ prs_cls *prs_arg){
+
+ NcapVar *Nvar=prs_arg->var_vtr.find(var1->nm);
+ // Do attribute propagation only if
+ // var doesn't already exist
+
+ if(!Nvar || Nvar->flg_stt==1)
+ (void)ncap_att_cpy(var1->nm,var2->nm,prs_arg);
+
+ return 0;
+
+}
+
int
ncap_att_cpy
(const std::string s_dst,
@@ -1203,7 +1220,8 @@ ncap_def_dim(
long sz,
prs_cls *prs_arg){
const char fnc_nm[]="ncap_def_dim";
-
+
+ int is_rec_dmn=False;
dmn_sct *dmn_nw;
dmn_sct *dmn_in_e;
dmn_sct *dmn_out_e;
@@ -1216,13 +1234,22 @@ ncap_def_dim(
wrn_prn(fnc_nm,"dim \""+ dmn_nm + "\" - already exists in input/output.");
return False;
}
-
+
+ /** hidden feature if size negative then this indicates a record dimension */
+ if( sz < 0 ){
+ sz=-sz;
+ is_rec_dmn=True;
+ }
+
+ /*
if( sz < 0 ){
std::ostringstream os;
os<<"dim " << dmn_nm << "(size=" <<sz <<") dimension can't be negative.";
wrn_prn(fnc_nm,os.str());
return False;
}
+ */
+
dmn_nw=(dmn_sct *)nco_malloc(sizeof(dmn_sct));
@@ -1232,7 +1259,7 @@ ncap_def_dim(
dmn_nw->xrf=NULL_CEWI;
dmn_nw->val.vp=NULL_CEWI;
dmn_nw->is_crd_dmn=False;
- dmn_nw->is_rec_dmn=False;
+ dmn_nw->is_rec_dmn=is_rec_dmn;
dmn_nw->sz=sz;
dmn_nw->cnt=sz;
dmn_nw->srt=0L;
@@ -1288,7 +1315,7 @@ nco_shp_chk(
/* check sizes again */
if( nbr_rdmn1-srt1 != nbr_rdmn2-srt2 )
return False;
-
+
nbr_cmp=nbr_rdmn1-srt1;
/* Now compare values */
for(idx=0 ; idx < nbr_cmp ;idx++)
diff --git a/src/nco++/ncoLexer.hpp b/src/nco++/ncoLexer.hpp
index bfc9877..36a759c 100644
--- a/src/nco++/ncoLexer.hpp
+++ b/src/nco++/ncoLexer.hpp
@@ -10,7 +10,7 @@
#include <antlr/CharScanner.hpp>
#line 1 "ncoGrammer.g"
-/* $Header: /cvsroot/nco/nco/src/nco++/ncoLexer.hpp,v 1.135 2014/06/16 23:04:51 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncoLexer.hpp,v 1.137 2014/10/31 17:55:57 zender Exp $ */
/* Purpose: ANTLR Grammar and support files for ncap2 */
diff --git a/src/nco++/ncoParser.hpp b/src/nco++/ncoParser.hpp
index 699aba9..8ab6d14 100644
--- a/src/nco++/ncoParser.hpp
+++ b/src/nco++/ncoParser.hpp
@@ -10,7 +10,7 @@
#line 1 "ncoGrammer.g"
-/* $Header: /cvsroot/nco/nco/src/nco++/ncoParser.hpp,v 1.132 2014/06/16 23:04:51 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncoParser.hpp,v 1.134 2014/10/31 17:55:57 zender Exp $ */
/* Purpose: ANTLR Grammar and support files for ncap2 */
diff --git a/src/nco++/ncoTree.hpp b/src/nco++/ncoTree.hpp
index 8257546..dc60af7 100644
--- a/src/nco++/ncoTree.hpp
+++ b/src/nco++/ncoTree.hpp
@@ -8,7 +8,7 @@
#line 1 "ncoGrammer.g"
-/* $Header: /cvsroot/nco/nco/src/nco++/ncoTree.hpp,v 1.155 2014/06/16 23:04:52 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco++/ncoTree.hpp,v 1.157 2014/10/31 17:55:57 zender Exp $ */
/* Purpose: ANTLR Grammar and support files for ncap2 */
diff --git a/src/nco++/prs_cls.hh b/src/nco++/prs_cls.hh
index bdd447e..597660b 100644
--- a/src/nco++/prs_cls.hh
+++ b/src/nco++/prs_cls.hh
@@ -25,6 +25,7 @@ class fmc_cls;
char *fl_in; /* [sng] Input data file */
int in_id; /* [id] Input data file ID */
char *fl_out; /* [sng] Output data file */
+ int fl_out_fmt; /* format of output file */
int out_id; /* [id] Output data file ID -Handle for reading & writing */
int out_id_readonly; /* [id] Output data file ID -Handle for reading only */
NcapVector<dmn_sct*> &dmn_in_vtr; //Vector of dimensions in input file nb doesn't change
@@ -53,7 +54,8 @@ class fmc_cls;
dmn_out_vtr(p_dmn_out_vtr) ,
fmc_vtr(p_fmc_vtr) ,
var_vtr(p_var_vtr) ,
- int_vtr(p_int_vtr) {; }
+ int_vtr(p_int_vtr) { ; }
+
// Copy Constructor
prs_cls( const prs_cls &prs_cpy) :
@@ -67,6 +69,7 @@ class fmc_cls;
fl_in=prs_cpy.fl_in;
in_id=prs_cpy.in_id;
fl_out=prs_cpy.fl_out;
+ fl_out_fmt=prs_cpy.fl_out_fmt;
out_id=prs_cpy.out_id;
out_id_readonly=prs_cpy.out_id_readonly;
@@ -101,6 +104,7 @@ class fmc_cls;
fl_in=prs_cpy.fl_in;
in_id=prs_cpy.in_id;
fl_out=prs_cpy.fl_out;
+ fl_out_fmt=prs_cpy.fl_out_fmt;
out_id=prs_cpy.out_id;
out_id_readonly=prs_cpy.out_id_readonly;
diff --git a/src/nco/Makefile.in b/src/nco/Makefile.in
index 92f7074..e29d6de 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 1.153 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/nco/Makefile.in,v 1.154 2014/10/22 18:47:06 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
@@ -558,9 +558,9 @@ MANIFEST_TOOL = @MANIFEST_TOOL@
MKDIR_P = @MKDIR_P@
NCOXX = @NCOXX@
NCO_CXX = @NCO_CXX@
-NETCDF4_ROOT = @NETCDF4_ROOT@
NETCDF_INC = @NETCDF_INC@
NETCDF_LIB = @NETCDF_LIB@
+NETCDF_ROOT = @NETCDF_ROOT@
NM = @NM@
NMEDIT = @NMEDIT@
OBJDUMP = @OBJDUMP@
diff --git a/src/nco/mpncbo.c b/src/nco/mpncbo.c
index f2e213a..9d616f5 100644
--- a/src/nco/mpncbo.c
+++ b/src/nco/mpncbo.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/mpncbo.c,v 1.147 2014/09/16 14:14:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/mpncbo.c,v 1.150 2014/11/05 23:39:04 zender Exp $ */
/* mpncbo -- netCDF binary operator */
@@ -125,8 +125,8 @@ main(int argc,char **argv)
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
- const char * const CVS_Id="$Id: mpncbo.c,v 1.147 2014/09/16 14:14:55 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.147 $";
+ const char * const CVS_Id="$Id: mpncbo.c,v 1.150 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.150 $";
const char * const opt_sht_lst="3467ACcD:d:FhL:l:Oo:p:rRSt:v:X:xy:-:";
cnk_dmn_sct **cnk_dmn=NULL_CEWI;
@@ -203,6 +203,7 @@ main(int argc,char **argv)
nm_id_sct *xtr_lst_2=NULL; /* xtr_lst_2 may be alloc()'d from NULL with -c option */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -259,17 +260,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
+ {"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -351,6 +355,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
diff --git a/src/nco/mpncecat.c b/src/nco/mpncecat.c
index 38954ad..961d04e 100644
--- a/src/nco/mpncecat.c
+++ b/src/nco/mpncecat.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/mpncecat.c,v 1.125 2014/09/16 14:14:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/mpncecat.c,v 1.128 2014/11/05 23:39:04 zender Exp $ */
/* ncecat -- netCDF ensemble concatenator */
@@ -100,8 +100,8 @@ main(int argc,char **argv)
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
- const char * const CVS_Id="$Id: mpncecat.c,v 1.125 2014/09/16 14:14:55 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.125 $";
+ const char * const CVS_Id="$Id: mpncecat.c,v 1.128 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.128 $";
const char * const opt_sht_lst="3467ACcD:d:FHhL:l:n:Oo:p:rRSt:u:v:X:x-:";
cnk_dmn_sct **cnk_dmn=NULL_CEWI;
@@ -160,6 +160,7 @@ main(int argc,char **argv)
nm_id_sct *xtr_lst=NULL; /* xtr_lst may be alloc()'d from NULL with -c option */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -213,17 +214,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
+ {"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -307,6 +311,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
diff --git a/src/nco/mpncflint.c b/src/nco/mpncflint.c
index 9c64766..425b612 100644
--- a/src/nco/mpncflint.c
+++ b/src/nco/mpncflint.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/mpncflint.c,v 1.124 2014/09/16 14:14:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/mpncflint.c,v 1.127 2014/11/05 23:39:04 zender Exp $ */
/* mpncflint -- netCDF file interpolator */
@@ -111,8 +111,8 @@ main(int argc,char **argv)
char *optarg_lcl=NULL; /* [sng] Local copy of system optarg */
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
- const char * const CVS_Id="$Id: mpncflint.c,v 1.124 2014/09/16 14:14:55 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.124 $";
+ const char * const CVS_Id="$Id: mpncflint.c,v 1.127 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.127 $";
const char * const opt_sht_lst="3467ACcD:d:Fhi:L:l:Oo:p:rRSt:v:xw:-:";
cnk_dmn_sct **cnk_dmn=NULL_CEWI;
@@ -176,6 +176,7 @@ main(int argc,char **argv)
nm_id_sct *xtr_lst=NULL; /* xtr_lst may be alloc()'d from NULL with -c option */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -233,17 +234,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
+ {"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -324,6 +328,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
diff --git a/src/nco/mpncpdq.c b/src/nco/mpncpdq.c
index 7c32020..3eab0db 100644
--- a/src/nco/mpncpdq.c
+++ b/src/nco/mpncpdq.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/mpncpdq.c,v 1.118 2014/09/16 14:14:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/mpncpdq.c,v 1.121 2014/11/05 23:39:04 zender Exp $ */
/* mpncpdq -- netCDF pack, re-dimension, query */
@@ -117,8 +117,8 @@ main(int argc,char **argv)
char add_fst_sng[]="add_offset"; /* [sng] Unidata standard string for add offset */
char scl_fct_sng[]="scale_factor"; /* [sng] Unidata standard string for scale factor */
- const char * const CVS_Id="$Id: mpncpdq.c,v 1.118 2014/09/16 14:14:55 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.118 $";
+ const char * const CVS_Id="$Id: mpncpdq.c,v 1.121 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.121 $";
const char * const opt_sht_lst="3467Aa:CcD:d:FhL:l:M:Oo:P:p:RrSt:v:Ux-:";
cnk_dmn_sct **cnk_dmn=NULL_CEWI;
@@ -185,6 +185,7 @@ main(int argc,char **argv)
nm_id_sct *xtr_lst=NULL; /* xtr_lst may be alloc()'d from NULL with -c option */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -232,17 +233,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
+ {"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -331,6 +335,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
diff --git a/src/nco/mpncra.c b/src/nco/mpncra.c
index c89cced..c2f3df2 100644
--- a/src/nco/mpncra.c
+++ b/src/nco/mpncra.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/mpncra.c,v 1.155 2014/09/30 23:03:29 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/mpncra.c,v 1.158 2014/11/05 23:39:04 zender Exp $ */
/* This single source file may be called as three separate executables:
ncra -- netCDF record averager
@@ -150,8 +150,8 @@ main(int argc,char **argv)
char *optarg_lcl=NULL; /* [sng] Local copy of system optarg */
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
- const char * const CVS_Id="$Id: mpncra.c,v 1.155 2014/09/30 23:03:29 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.155 $";
+ const char * const CVS_Id="$Id: mpncra.c,v 1.158 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.158 $";
const char * const opt_sht_lst="3467ACcD:d:FHhL:l:n:Oo:p:P:rRSt:v:xY:y:-:";
dmn_sct **dim;
@@ -211,6 +211,7 @@ main(int argc,char **argv)
nm_id_sct *xtr_lst=NULL; /* xtr_lst may be alloc()'d from NULL with -c option */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -264,17 +265,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
+ {"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -367,6 +371,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
diff --git a/src/nco/mpncwa.c b/src/nco/mpncwa.c
index f9d14b2..9294254 100644
--- a/src/nco/mpncwa.c
+++ b/src/nco/mpncwa.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/mpncwa.c,v 1.148 2014/09/30 23:03:29 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/mpncwa.c,v 1.151 2014/11/05 23:39:04 zender Exp $ */
/* mpncwa -- netCDF weighted averager */
@@ -126,8 +126,8 @@ main(int argc,char **argv)
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
char *wgt_nm=NULL;
- const char * const CVS_Id="$Id: mpncwa.c,v 1.148 2014/09/30 23:03:29 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.148 $";
+ const char * const CVS_Id="$Id: mpncwa.c,v 1.151 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.151 $";
const char * const opt_sht_lst="3467Aa:B:bCcD:d:FhIL:l:M:m:nNOo:p:rRST:t:v:Ww:xy:-:";
cnk_dmn_sct **cnk_dmn=NULL_CEWI;
@@ -197,6 +197,7 @@ main(int argc,char **argv)
prs_sct prs_arg; /* I/O [sct] Global information required in ncwa parser */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -253,17 +254,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
+ {"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -374,6 +378,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
diff --git a/src/nco/ncap.c b/src/nco/ncap.c
index fc95ea0..e16f06c 100644
--- a/src/nco/ncap.c
+++ b/src/nco/ncap.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncap.c,v 1.288 2014/09/16 14:14:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncap.c,v 1.291 2014/11/05 23:39:04 zender Exp $ */
/* ncap -- netCDF arithmetic processor */
@@ -126,8 +126,8 @@ main(int argc,char **argv)
char *sng_cnv_rcd=NULL_CEWI; /* [sng] strtol()/strtoul() return code */
- const char * const CVS_Id="$Id: ncap.c,v 1.288 2014/09/16 14:14:55 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.288 $";
+ const char * const CVS_Id="$Id: ncap.c,v 1.291 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.291 $";
const char * const opt_sht_lst="3467ACcD:FfhL:l:n:Oo:p:Rrs:S:vx-:"; /* [sng] Single letter command line options */
cnk_dmn_sct **cnk_dmn=NULL_CEWI;
@@ -229,6 +229,7 @@ main(int argc,char **argv)
nm_id_sct *xtr_lst_a=NULL; /* Initialize to ALL variables in OUTPUT file */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -271,18 +272,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -358,6 +361,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
diff --git a/src/nco/ncap_yacc.y b/src/nco/ncap_yacc.y
index 6bfc4ad..ea00439 100644
--- a/src/nco/ncap_yacc.y
+++ b/src/nco/ncap_yacc.y
@@ -1,4 +1,4 @@
-%{ /* $Header: /cvsroot/nco/nco/src/nco/ncap_yacc.y,v 1.68 2014/06/17 00:10:32 zender Exp $ -*-C-*- */
+%{ /* $Header: /cvsroot/nco/nco/src/nco/ncap_yacc.y,v 1.69 2014/10/10 02:41:34 zender Exp $ -*-C-*- */
/* Begin C declarations section */
@@ -61,7 +61,7 @@
/* Get YYSTYPE prior to prototyping scanner */
#include "ncap_yacc.h" /* ncap_yacc.h (ncap.tab.h) is produced from ncap_yacc.y by parser generator */
- #define YY_DECL int yylex(YYSTYPE *lval_ptr,prs_sct *prs_arg)
+#define YY_DECL int yylex(YYSTYPE *lval_ptr,prs_sct *prs_arg)
YY_DECL;
/* Turn on parser debugging option (Bison manual p. 85) */
diff --git a/src/nco/ncatted.c b/src/nco/ncatted.c
index 96e2115..8ba9444 100644
--- a/src/nco/ncatted.c
+++ b/src/nco/ncatted.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncatted.c,v 1.194 2014/09/23 18:43:06 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncatted.c,v 1.195 2014/11/05 17:35:15 zender Exp $ */
/* ncatted -- netCDF attribute editor */
@@ -174,8 +174,8 @@ 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 1.194 2014/09/23 18:43:06 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.194 $";
+ const char * const CVS_Id="$Id: ncatted.c,v 1.195 2014/11/05 17:35:15 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.195 $";
const char * const opt_sht_lst="Aa:D:hl:Oo:p:Rr-:";
#if defined(__cplusplus) || defined(PGI_CC)
@@ -382,8 +382,8 @@ main(int argc,char **argv)
if(!FORCE_OVERWRITE) nco_fl_overwrite_prm(fl_out);
/* Copy input file to output file and then search through output,
- changing names on the fly. This avoids possible XDR translation
- performance penalty of copying each variable with netCDF. */
+ changing names on the fly. This avoids possible XDR translation
+ performance penalty of copying each variable with netCDF. */
(void)nco_fl_cp(fl_in,fl_out);
/* Ensure output file is user/owner-writable */
@@ -409,7 +409,6 @@ main(int argc,char **argv)
rcd+=nco_ddra((char *)NULL,(char *)NULL,&ddra_info);
ddra_info.tmr_flg=nco_tmr_rgl;
- /* Loop input names */
for(int idx_aed=0;idx_aed<nbr_aed;idx_aed++){
if(aed_lst[idx_aed].var_nm == NULL){
/* Variable name is blank so edit same attribute for all variables ... */
@@ -438,7 +437,7 @@ main(int argc,char **argv)
/* Inquire if any variable matches (absolute, relative) */
(void)nco_aed_prc_var_nm(nc_id,aed_lst[idx_aed],trv_tbl);
} /* end var_nm */
- } /* Loop input names */
+ } /* end loop over aed structures */
/* Catenate the time-stamped command line to the "history" global attribute */
if(HISTORY_APPEND) (void)nco_hst_att_cat(nc_id,cmd_ln);
diff --git a/src/nco/ncbo.c b/src/nco/ncbo.c
index 02a5200..c00d1d2 100644
--- a/src/nco/ncbo.c
+++ b/src/nco/ncbo.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncbo.c,v 1.308 2014/09/16 14:14:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncbo.c,v 1.311 2014/11/05 23:39:04 zender Exp $ */
/* ncbo -- netCDF binary operator */
@@ -144,8 +144,8 @@ main(int argc,char **argv)
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncbo.c,v 1.308 2014/09/16 14:14:55 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.308 $";
+ const char * const CVS_Id="$Id: ncbo.c,v 1.311 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.311 $";
const char * const opt_sht_lst="3467ACcD:d:FG:g:hL:l:Oo:p:rRt:v:X:xzy:-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -213,6 +213,7 @@ main(int argc,char **argv)
int var_lst_in_nbr=0;
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -267,18 +268,20 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
+ {"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
{"header_pad",required_argument,0,0},
/* Long options with short counterparts */
@@ -365,6 +368,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
@@ -596,7 +603,7 @@ main(int argc,char **argv)
fl_out_tmp=nco_fl_out_open(fl_out,FORCE_APPEND,FORCE_OVERWRITE,fl_out_fmt,&bfr_sz_hnt,RAM_CREATE,RAM_OPEN,WRT_TMP_FL,&out_id);
/* Create structure with all chunking information */
- if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_sz_byt,cnk_sz_scl,&cnk);
+ if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_min_byt,cnk_sz_byt,cnk_sz_scl,&cnk);
if(gpe){
if(nco_dbg_lvl >= nco_dbg_fl) (void)fprintf(stderr,"%s: INFO Group Path Edit (GPE) feature enabled\n",nco_prg_nm_get());
diff --git a/src/nco/ncecat.c b/src/nco/ncecat.c
index 8f04488..d75ea00 100644
--- a/src/nco/ncecat.c
+++ b/src/nco/ncecat.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncecat.c,v 1.373 2014/09/16 04:02:05 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncecat.c,v 1.376 2014/11/05 23:39:04 zender Exp $ */
/* ncecat -- netCDF ensemble concatenator */
@@ -140,8 +140,8 @@ 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 1.373 2014/09/16 04:02:05 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.373 $";
+ const char * const CVS_Id="$Id: ncecat.c,v 1.376 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.376 $";
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 */
@@ -200,6 +200,7 @@ main(int argc,char **argv)
md5_sct *md5=NULL; /* [sct] MD5 configuration */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t grp_out_lng; /* [nbr] Length of original, canonicalized GPE specification filename component */
@@ -257,16 +258,18 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
{"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
@@ -359,6 +362,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
@@ -606,7 +613,7 @@ main(int argc,char **argv)
fl_out_tmp=nco_fl_out_open(fl_out,FORCE_APPEND,FORCE_OVERWRITE,fl_out_fmt,&bfr_sz_hnt,RAM_CREATE,RAM_OPEN,WRT_TMP_FL,&out_id);
/* Create structure with all chunking information */
- if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_sz_byt,cnk_sz_scl,&cnk);
+ if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_min_byt,cnk_sz_byt,cnk_sz_scl,&cnk);
/* ncecat-specific operations */
if(RECORD_AGGREGATE){
diff --git a/src/nco/ncflint.c b/src/nco/ncflint.c
index 9bbd067..e5fe875 100644
--- a/src/nco/ncflint.c
+++ b/src/nco/ncflint.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncflint.c,v 1.295 2014/07/15 18:48:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncflint.c,v 1.298 2014/11/05 23:39:04 zender Exp $ */
/* ncflint -- netCDF file interpolator */
@@ -133,8 +133,8 @@ 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 1.295 2014/07/15 18:48:55 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.295 $";
+ const char * const CVS_Id="$Id: ncflint.c,v 1.298 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.298 $";
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 */
@@ -198,6 +198,7 @@ main(int argc,char **argv)
md5_sct *md5=NULL; /* [sct] MD5 configuration */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -258,16 +259,18 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
{"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
@@ -357,6 +360,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
@@ -627,7 +634,7 @@ main(int argc,char **argv)
fl_out_tmp=nco_fl_out_open(fl_out,FORCE_APPEND,FORCE_OVERWRITE,fl_out_fmt,&bfr_sz_hnt,RAM_CREATE,RAM_OPEN,WRT_TMP_FL,&out_id);
/* Create structure with all chunking information */
- if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_sz_byt,cnk_sz_scl,&cnk);
+ if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_min_byt,cnk_sz_byt,cnk_sz_scl,&cnk);
/* Transfer variable type to table. NOTE: Using var/xtr_nbr containing all variables (processed, fixed) */
(void)nco_var_typ_trv(xtr_nbr,var,trv_tbl);
diff --git a/src/nco/ncks.c b/src/nco/ncks.c
index 1b73700..2bdc3e4 100644
--- a/src/nco/ncks.c
+++ b/src/nco/ncks.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncks.c,v 1.738 2014/09/12 04:16:51 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncks.c,v 1.741 2014/11/05 23:39:04 zender Exp $ */
/* ncks -- netCDF Kitchen Sink */
@@ -183,8 +183,8 @@ main(int argc,char **argv)
char trv_pth[]="/"; /* [sng] Root path of traversal tree */
- const char * const CVS_Id="$Id: ncks.c,v 1.738 2014/09/12 04:16:51 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.738 $";
+ const char * const CVS_Id="$Id: ncks.c,v 1.741 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.741 $";
const char * const opt_sht_lst="34567aABb:CcD:d:FG:g:HhL:l:MmOo:Pp:qQrRs:uVv:X:xz-:";
cnk_sct cnk; /* [sct] Chunking structure */
@@ -235,6 +235,7 @@ main(int argc,char **argv)
md5_sct *md5=NULL; /* [sct] MD5 configuration */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -320,16 +321,18 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
{"file_format",required_argument,0,0},
{"fix_rec_dmn",required_argument,0,0}, /* [sng] Fix record dimension */
@@ -463,6 +466,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
@@ -883,7 +890,7 @@ main(int argc,char **argv)
fl_out_tmp=nco_fl_out_open(fl_out,FORCE_APPEND,FORCE_OVERWRITE,fl_out_fmt,&bfr_sz_hnt,RAM_CREATE,RAM_OPEN,WRT_TMP_FL,&out_id);
/* Create structure with all chunking information */
- if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_sz_byt,cnk_sz_scl,&cnk);
+ if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_min_byt,cnk_sz_byt,cnk_sz_scl,&cnk);
/* Define extracted groups, variables, and attributes in output file */
(void)nco_xtr_dfn(in_id,out_id,&cnk,dfl_lvl,gpe,md5,PRN_GLB_METADATA,PRN_VAR_METADATA,RETAIN_ALL_DIMS,nco_pck_plc_nil,rec_dmn_nm,trv_tbl);
diff --git a/src/nco/nco.h b/src/nco/nco.h
index 8b15ed7..fd34280 100644
--- a/src/nco/nco.h
+++ b/src/nco/nco.h
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco.h,v 1.518 2014/09/25 05:12:09 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco.h,v 1.526 2014/11/26 05:18:52 zender Exp $ */
/* Purpose: netCDF Operator (NCO) definitions */
@@ -150,6 +150,9 @@ extern "C" {
NCO uses netCDF token DEFAULT_CHUNK_SIZE and default algorithm when user specifies no chunking option */
#define NCO_CNK_SZ_BYT_DFL 4194304
+ /* 20141105 Minimum size of a variable to chunk */
+#define NCO_CNK_SZ_MIN_BYT_DFL 8192
+
/* Linux default blocksize is 4096 B---a good chunk size for 1-D record dimension variables */
#define NCO_CNK_SZ_BYT_R1D_DFL 4096
@@ -249,17 +252,46 @@ extern "C" {
/* 20140924: netCDF meta-information available in library versions 4.3.3-rc2
Define compatibility tokens for earlier libraries equivalent to 3.6.0 */
#ifndef NC_VERSION_MAJOR
- #define NC_VERSION_MAJOR 3
+# define NC_VERSION_MAJOR 3
#endif /* !NC_VERSION_MAJOR */
#ifndef NC_VERSION_MINOR
- #define NC_VERSION_MINOR 6
+# define NC_VERSION_MINOR 6
#endif /* !NC_VERSION_MINOR */
#ifndef NC_VERSION_PATCH
- #define NC_VERSION_PATCH 0
+# define NC_VERSION_PATCH 0
#endif /* !NC_VERSION_PATCH */
-#ifndef NCO_NC_LIB_VERSION
-# define NCO_NC_LIB_VERSION ( NC_VERSION_MAJOR * 100 + NC_VERSION_MINOR * 10 + NC_VERSION_PATCH )
-#endif /* !NCO_NC_LIB_VERSION */
+#ifndef NC_VERSION_NOTE
+# define NC_VERSION_NOTE "" /* My be blank */
+#endif /* !NC_VERSION_NOTE */
+#ifndef NC_VERSION
+# define NC_VERSION "3.6.0"
+#endif /* !NC_VERSION */
+ /* Define NC_LIB_VERSION as three-digit number for arithmetic comparisons by CPP */
+#ifndef NC_LIB_VERSION
+# define NC_LIB_VERSION ( NC_VERSION_MAJOR * 100 + NC_VERSION_MINOR * 10 + NC_VERSION_PATCH )
+#endif /* !NC_LIB_VERSION */
+
+ /* NCO meta-information available in VERSION token since forever
+ 20141008: Define NCO tokens consistent with new netcdf_meta.h tokens */
+#ifndef NCO_VERSION_MAJOR
+# define NCO_VERSION_MAJOR 4
+#endif /* !NCO_VERSION_MAJOR */
+#ifndef NCO_VERSION_MINOR
+# define NCO_VERSION_MINOR 4
+#endif /* !NCO_VERSION_MINOR */
+#ifndef NCO_VERSION_PATCH
+# define NCO_VERSION_PATCH 7
+#endif /* !NCO_VERSION_PATCH */
+#ifndef NCO_VERSION_NOTE
+# define NCO_VERSION_NOTE "" /* My be blank */
+#endif /* !NCO_VERSION_NOTE */
+#ifndef NCO_LIB_VERSION
+ /* Define NC_LIB_VERSION as three-digit number for arithmetic comparisons by CPP */
+# define NCO_LIB_VERSION ( NCO_VERSION_MAJOR * 100 + NCO_VERSION_MINOR * 10 + NCO_VERSION_PATCH )
+#endif /* !NCO_LIB_VERSION */
+#ifndef NCO_VERSION
+# define NCO_VERSION "4.4.7"
+#endif /* !NCO_VERSION */
/* Compatibility tokens new to netCDF4 netcdf.h: */
#ifndef NC_NETCDF4
@@ -467,20 +499,20 @@ extern "C" {
#define TRV_MAP_SIZE NC_MAX_DIMS
enum nco_prg_id{ /* [enm] Key value for all netCDF operators */
- ncap,
- ncatted,
- ncbo,
- ncfe,
- ncecat,
- ncflint,
- ncks,
- ncpdq,
- ncra,
- ncrcat,
- ncrename,
- ncwa,
- ncge, /* 20131018: New operator */
- ncmv /* 20131018: Potential new operator */
+ ncap, /* 0 [enm] */
+ ncatted, /* 1 [enm] */
+ ncbo, /* 2 [enm] */
+ ncfe, /* 3 [enm] */
+ ncecat, /* 4 [enm] */
+ ncflint, /* 5 [enm] */
+ ncks, /* 6 [enm] */
+ ncpdq, /* 7 [enm] */
+ ncra, /* 8 [enm] */
+ ncrcat, /* 9 [enm] */
+ ncrename, /* 10 [enm] */
+ ncwa, /* 11 [enm] */
+ ncge, /* 12 [enm] */ /* 20131018: New operator */
+ ncmv /* 13 [enm] */ /* 20131018: Potential new operator */
}; /* end nco_prg_id enum */
enum nco_dbg_typ_enm{ /* [enm] Debugging levels */
@@ -488,7 +520,7 @@ extern "C" {
nco_dbg_quiet, /* 0 [enm] Quiet all non-error messages */
nco_dbg_std, /* 1 [enm] Standard mode. Minimal, but some, messages */
nco_dbg_fl, /* 2 [enm] Filenames */
- nco_dbg_scl, /* 3 [enm] Scalars, other per-file information */
+ nco_dbg_scl, /* 3 [enm] Scalars, other per-file information */
nco_dbg_grp, /* 4 [enm] Groups, highest level per-file loop information */
nco_dbg_var, /* 5 [enm] Variables, highest level per-group loop information */
nco_dbg_crr, /* 6 [enm] Current task */
@@ -848,8 +880,9 @@ extern "C" {
cnk_dmn_sct **cnk_dmn; /* [sct] User-specified per-dimension chunking information */
int cnk_map; /* [enm] Chunking map */
int cnk_plc; /* [enm] Chunking policy */
- size_t cnk_sz_scl; /* [nbr] Chunk size scalar */
+ size_t cnk_min_byt; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt; /* [B] Chunk size in Bytes */
+ size_t cnk_sz_scl; /* [nbr] Chunk size scalar */
} cnk_sct;
/* GTT structure to break full path name into components */
@@ -1155,15 +1188,15 @@ extern "C" {
} var_sct; /* end var_sct_tag */
/* Dimension utility structure to share common fields; used in nco_cnk_sz_set_trv() */
- typedef struct{
- char nm[NC_MAX_NAME+1L];/* [sng] Name of dimension/coordinate */
+ typedef struct{
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 */
+ char nm[NC_MAX_NAME+1L];/* [sng] Name of dimension/coordinate */
+ int id; /* [id] Dimension ID */
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;
+ nco_bool is_rec_dmn; /* [flg] Dimension is unlimited/record dimension */
+ size_t dmn_cnt; /* [nbr] Hyperslabbed size of dimension (= sz iff !NON_HYP_DMN) */
+ size_t sz; /* [nbr] Size (non-hyperslabbed) of dimension */
+ } dmn_cmn_sct;
#ifdef __cplusplus
} /* end extern "C" */
diff --git a/src/nco/nco_aux.c b/src/nco/nco_aux.c
index 9633f1b..78ed361 100644
--- a/src/nco/nco_aux.c
+++ b/src/nco/nco_aux.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_aux.c,v 1.83 2014/07/15 18:48:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_aux.c,v 1.84 2014/10/31 17:55:56 zender Exp $ */
/* Copyright (C) 1995--2014 Charlie Zender
This file is part of NCO, the netCDF Operators. NCO is free software.
@@ -53,11 +53,9 @@ nco_find_lat_lon
nc_type var_typ; /* [enm] variable type */
- /* Make sure CF tag exists. Currently require CF-1.0 value */
- if(NCO_GET_ATT_CHAR(nc_id,NC_GLOBAL,"Conventions",att_val) || !strstr(att_val,"CF-1.")){
- if(nco_dbg_lvl_get() >= nco_dbg_dev)
- (void)fprintf(stderr,"%s: WARNING %s reports file \"Convention\" attribute is missing or is present but not of the form \"CF-1.X\". Auxiliary coordinate support (i.e., the -X option) cannot be expected to behave well file does not support CF-1.X metadata conventions. Continuing anyway...\n",nco_prg_nm_get(),fnc_nm);
- } /* !CF */
+ /* Make sure CF tag exists. Currently require CF-1.X value */
+ if(NCO_GET_ATT_CHAR(nc_id,NC_GLOBAL,"Conventions",att_val) || !strstr(att_val,"CF-1."))
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stderr,"%s: WARNING %s reports file \"Convention\" attribute is missing or is present but not of the form \"CF-1.X\". Auxiliary coordinate support (i.e., the -X option) cannot be expected to behave well file does not support CF-1.X metadata conventions. Continuing anyway...\n",nco_prg_nm_get(),fnc_nm);
/* Get number of variables */
rcd=nco_inq_nvars(nc_id,&nvars);
@@ -93,17 +91,14 @@ nco_find_lat_lon
crd_nbr++;
} /* endif longitude */
- if(nco_dbg_lvl_get() >= nco_dbg_dev){
- (void)fprintf(stdout,"%s: DEBUG %s variable <%s>\n",nco_prg_nm_get(),fnc_nm,
- 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,var_nm);
} /* endif standard_name */
} /* end loop over vars */
if(crd_nbr != 2){
- if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"nco_find_lat_lon() unable to identify lat/lon auxiliary coordinate variables.\n");
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: %s unable to identify lat/lon auxiliary coordinate variables.\n",nco_prg_nm_get(),fnc_nm);
return False;
}else return True;
@@ -244,7 +239,7 @@ nco_aux_evl
lmt_tpl.ssc=1L;
/* malloc() lmt structure to return
- No way to know exact size in advance though maximum is about dim_sz/2 */
+ No way to know exact size in advance though maximum is about dim_sz/2 */
int MAX_LMT_NBR=dmn_sz/2;
if(aux_nbr > 0) lmt=(lmt_sct **)nco_malloc(MAX_LMT_NBR*sizeof(lmt_sct *));
@@ -311,8 +306,8 @@ nco_aux_evl
if(vp_lon) vp_lon=nco_free(vp_lon);
/* With some loss of generality, we assume cell-based coordinates are not
- record coordinates spanning multiple files. Thus finding no cells within
- any bounding box constitutes a domain error. */
+ record coordinates spanning multiple files. Thus finding no cells within
+ any bounding box constitutes a domain error. */
if(*lmt_nbr == 0){
(void)fprintf(stdout,"%s: ERROR %s reports that none of the %d specified auxiliary-coordinate bounding-box(es) contain any latitude/longitude coordinate pairs. This condition was not flagged as an error until 20110221. Prior to that, when no coordinates were in any of the user-specified auxiliary-coordinate hyperslab(s), NCO mistakenly returned the entire coordinate range as being within the hyperslab(s).\n",nco_prg_nm_get(),fnc_nm,aux_nbr);
nco_exit(EXIT_FAILURE);
@@ -379,11 +374,11 @@ nco_aux_evl_trv
int *aux_lmt_nbr) /* I/O [nbr] Number of coordinate limits */
{
/* Purpose: Create lmt structure of slabs of continguous cells that
- match rectangular region specified by -X arguments.
- Intended for use with non-monotonic grids
- Requires CF-1.0 conventions
- Uses latitude/longitude centers rather than cell_bounds to detect matches
- Code assumes units are degrees if they are not radians */
+ match rectangular region specified by -X arguments.
+ Intended for use with non-monotonic grids
+ Requires CF-1.0 conventions
+ Uses latitude/longitude centers rather than cell_bounds to detect matches
+ Code assumes units are degrees if they are not radians */
const char fnc_nm[]="nco_aux_evl_trv()";
@@ -472,7 +467,7 @@ nco_aux_evl_trv
lmt_tpl.ssc=1L;
/* malloc() lmt structure to return
- No way to know exact size in advance though maximum is about dim_sz/2 */
+ No way to know exact size in advance though maximum is about dim_sz/2 */
int MAX_LMT_NBR=dmn_sz/2;
if(aux_nbr > 0) lmt=(lmt_sct **)nco_malloc(MAX_LMT_NBR*sizeof(lmt_sct *));
@@ -528,9 +523,7 @@ nco_aux_evl_trv
cll_idx_min=-1;
} /* end if one or more consecutive matching cells */
} /* end loop over cells */
- if(nco_dbg_lvl_get() > nco_dbg_scl && nco_dbg_lvl_get() != nco_dbg_dev){
- (void)fprintf(stdout,"%s: %s reports bounding-box %g <= %s <= %g and %g <= %s <= %g brackets %d distinct group(s) comprising %d total gridpoint(s)\n",nco_prg_nm_get(),fnc_nm,lon_min,var_nm_lon,lon_max,lat_min,var_nm_lat,lat_max,cll_grp_nbr,cll_nbr_ttl);
- }
+ if(nco_dbg_lvl_get() > nco_dbg_scl && nco_dbg_lvl_get() != nco_dbg_dev) (void)fprintf(stdout,"%s: %s reports bounding-box %g <= %s <= %g and %g <= %s <= %g brackets %d distinct group(s) comprising %d total gridpoint(s)\n",nco_prg_nm_get(),fnc_nm,lon_min,var_nm_lon,lon_max,lat_min,var_nm_lat,lat_max,cll_grp_nbr,cll_nbr_ttl);
} /* end loop over user supplied -X options */
/* Free allocated memory */
@@ -538,9 +531,7 @@ nco_aux_evl_trv
if(vp_lon) vp_lon=nco_free(vp_lon);
/* No limits found */
- if(*aux_lmt_nbr == 0){
- return NULL;
- } /* No limits found */
+ if(*aux_lmt_nbr == 0) return NULL;
lmt=(lmt_sct **)nco_realloc(lmt,(*aux_lmt_nbr)*sizeof(lmt_sct *));
@@ -610,8 +601,8 @@ nco_find_lat_lon_trv
NCO_GET_ATT_CHAR(grp_id,var_id,"standard_name",att_val);
att_val[att_lng]='\0';
- /* Match parameter name to find ( "latitude" or "longitude" ) */
- if(strcmp(att_val,att_val_trg) == 0){
+ /* Match parameter name to find ("latitude" or "longitude") */
+ if(!strcmp(att_val,att_val_trg)){
/* Export full name */
*var_nm_fll=(char *)strdup(var_trv->nm_fll);
@@ -619,11 +610,9 @@ nco_find_lat_lon_trv
/* Get units; assume same for both lat and lon */
int rcd=nco_inq_attlen_flg(grp_id,var_id,"units",&att_lng);
if(rcd != NC_NOERR){
- if(nco_dbg_lvl_get() >= nco_dbg_var){
- (void)fprintf(stdout,"nco_find_lat_lon() reports CF convention requires \"latitude\" to have units attribute\n");
- }
+ if(nco_dbg_lvl_get() >= nco_dbg_var) (void)fprintf(stdout,"%s: %s reports CF convention requires \"latitude\" to have units attribute\n",nco_prg_nm_get(),fnc_nm);
return False;
- }
+ } /* endif */
NCO_GET_ATT_CHAR(grp_id,var_id,"units",units);
units[att_lng]='\0';
@@ -643,4 +632,3 @@ nco_find_lat_lon_trv
return False;
} /* end nco_find_lat_lon_trv() */
-
diff --git a/src/nco/nco_cnk.c b/src/nco/nco_cnk.c
index 1541704..069122a 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 1.129 2014/09/25 04:41:15 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_cnk.c,v 1.151 2014/11/26 04:15:26 zender Exp $ */
/* Purpose: NCO utilities for chunking */
@@ -66,6 +66,10 @@ nco_cnk_map_sng_get /* [fnc] Convert chunking map enum to string */
return "xst";
case nco_cnk_map_rew:
return "rew";
+ case nco_cnk_map_nc4:
+ return "nc4";
+ case nco_cnk_map_nco:
+ return "nco";
default: nco_dfl_case_cnk_map_err(); break;
} /* end switch */
/* Some compilers, e.g., SGI cc, need return statement to end non-void functions */
@@ -133,6 +137,7 @@ nco_cnk_ini /* [fnc] Create structure with all chunking information */
const int cnk_nbr, /* I [nbr] Number of chunksizes specified */
const int cnk_map, /* I [enm] Chunking map */
const int cnk_plc, /* I [enm] Chunking policy */
+ const size_t cnk_min_byt, /* I [B] Minimize size of variable to chunk */
const size_t cnk_sz_byt, /* I [B] Chunk size in bytes */
const size_t cnk_sz_scl, /* I [nbr] Chunk size scalar */
cnk_sct * const cnk) /* O [sct] Chunking structure */
@@ -148,11 +153,12 @@ nco_cnk_ini /* [fnc] Create structure with all chunking information */
cnk->cnk_nbr=cnk_nbr;
cnk->cnk_map=cnk_map;
cnk->cnk_plc=cnk_plc;
+ cnk->cnk_min_byt=cnk_min_byt;
+ cnk->cnk_sz_byt=cnk_sz_byt;
cnk->cnk_sz_scl=cnk_sz_scl;
- cnk->cnk_sz_byt=cnk_sz_byt; /* For now, let cnk_sz_scl play double duty */
/* Did user explicitly request chunking? */
- if(cnk_nbr > 0 || cnk_sz_byt > 0UL || cnk_sz_scl > 0UL || cnk_map != nco_cnk_map_nil || cnk_plc != nco_cnk_plc_nil) cnk->flg_usr_rqs=True;
+ if(cnk_nbr > 0 || cnk_min_byt > 0UL || cnk_sz_byt > 0UL || cnk_sz_scl > 0UL || cnk_map != nco_cnk_map_nil || cnk_plc != nco_cnk_plc_nil) cnk->flg_usr_rqs=True;
/* Chunks are atomic unit of HDF5 read/write
Variables are compressed and check-summed one chunk at-a-time
@@ -179,6 +185,10 @@ nco_cnk_ini /* [fnc] Create structure with all chunking information */
cnk->cnk_sz_byt= (fl_sys_blk_sz > 0ULL) ? fl_sys_blk_sz : NCO_CNK_SZ_BYT_DFL;
} /* end else */
+ /* Java chunking defaults:
+ http://www.unidata.ucar.edu/software/thredds/current/netcdf-java/reference/netcdf4Clibrary.html */
+ if(cnk_min_byt == 0ULL) cnk->cnk_min_byt= (fl_sys_blk_sz > 0ULL) ? 2*fl_sys_blk_sz : NCO_CNK_SZ_MIN_BYT_DFL;
+
if(cnk_sz_byt <= 0ULL) cnk->cnk_sz_byt=NCO_CNK_SZ_BYT_DFL;
/* Make uniform list of user-specified per-dimension chunksizes */
@@ -186,17 +196,22 @@ nco_cnk_ini /* [fnc] Create structure with all chunking information */
/* Set actual chunk policy and map to defaults as necessary
20140821: Until today, defaults for map and policy were set independently
- Now we consider four distinct cases:
+ 20141013: Tweak defaults so chunking always called (required to preserve input chunking)
+ Now we consider three distinct cases:
1. Neither map nor policy was explicitly set, and something else, e.g., size, was
2. User set map not policy
3. User set policy not map */
- if(cnk->flg_usr_rqs && (cnk_map == nco_cnk_map_nil) && (cnk_plc == nco_cnk_plc_nil)){
- cnk->cnk_map=nco_cnk_map_rd1;
- cnk->cnk_plc=nco_cnk_plc_g2d;
+ if(cnk_map == nco_cnk_map_nil && cnk_plc == nco_cnk_plc_nil){
+ cnk->cnk_map=nco_cnk_map_xst;
+ cnk->cnk_plc=nco_cnk_plc_xst;
} /* endif */
if(cnk_map == nco_cnk_map_nil && cnk_plc != nco_cnk_plc_nil) cnk->cnk_map=nco_cnk_map_rd1;
if(cnk_plc == nco_cnk_plc_nil && cnk_map != nco_cnk_map_nil) cnk->cnk_plc=nco_cnk_plc_g2d;
+ /* NCO-recommended chunking map is expected to change over time
+ cnk_map=nco assigns current NCO-recommended map */
+ if(cnk_map == nco_cnk_map_nco) cnk->cnk_map=nco_cnk_map_rd1;
+
return rcd;
} /* end nco_cnk_ini() */
@@ -333,6 +348,10 @@ nco_cnk_map_get /* [fnc] Convert user-specified chunking map to key */
if(!strcmp(nco_cnk_map_sng,"cnk_map_xst")) return nco_cnk_map_xst;
if(!strcmp(nco_cnk_map_sng,"rew")) return nco_cnk_map_rew;
if(!strcmp(nco_cnk_map_sng,"cnk_map_rew")) return nco_cnk_map_rew;
+ if(!strcmp(nco_cnk_map_sng,"nc4")) return nco_cnk_map_nc4;
+ if(!strcmp(nco_cnk_map_sng,"cnk_map_nc4")) return nco_cnk_map_nc4;
+ if(!strcmp(nco_cnk_map_sng,"nco")) return nco_cnk_map_nco;
+ if(!strcmp(nco_cnk_map_sng,"cnk_map_nco")) return nco_cnk_map_nco;
(void)fprintf(stderr,"%s: ERROR %s reports unknown user-specified chunking map %s\n",nco_prg_nm_get(),fnc_nm,nco_cnk_map_sng);
nco_exit(EXIT_FAILURE);
@@ -798,7 +817,7 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
int cnk_plc; /* [enm] Chunking policy */
int deflate; /* [enm] Deflate filter is on */
int dmn_idx; /* [idx] Dimension index */
- int dmn_nbr; /* [nbr] Number of dimensions for variable */
+ int dmn_nbr; /* [nbr] Number of dimensions for variable in output file */
int fl_fmt; /* [enm] Input file format */
int shuffle; /* [enm] Shuffle filter is on */
int srg_typ; /* [enm] Storage type */
@@ -807,8 +826,6 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
nc_type var_typ_dsk; /* [nbr] Variable type */
- nco_bool *flg_mch; /* [flg] Name match (absolute or relative) between chunking structure 'cnk_sct' and dimension 'dmn_cmn' */
- nco_bool flg_ovr; /* [flg] Override default chunking with user-specified chunking for this dimension */
nco_bool flg_usr_rqs; /* [flg] User requested checking */
nco_bool is_rec_var; /* [flg] Record variable */
nco_bool is_chk_var; /* [flg] Check-summed variable */
@@ -817,10 +834,12 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
nco_bool is_xpl_cnk; /* [flg] Explicitly chunked variable */
nco_bool must_be_chunked; /* [flg] Variable must be chunked */
- size_t *cnk_sz=NULL; /* [nbr] Chunksize list */
+ size_t *cnk_sz=NULL; /* [nbr] Chunksize list in output file */
+ size_t cnk_min_byt; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_dfl; /* [nbr] Chunksize default */
size_t cnk_sz_scl; /* [nbr] Chunk size scalar */
size_t typ_sz; /* [B] Bytes per value */
+ size_t var_sz_byt; /* [B] Size of variable in output file */
static short FIRST_CALL=True;
@@ -831,8 +850,9 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
cnk_nbr=cnk->cnk_nbr;
cnk_map=cnk->cnk_map;
cnk_plc=cnk->cnk_plc;
- cnk_sz_scl=cnk->cnk_sz_scl;
+ cnk_min_byt=cnk->cnk_min_byt;
cnk_sz_byt=cnk->cnk_sz_byt;
+ cnk_sz_scl=cnk->cnk_sz_scl;
cnk_dmn=cnk->cnk_dmn;
/* Only use NCO chunking when user explicitly sets a chunking option */
@@ -861,11 +881,10 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
(void)fprintf(stdout,"%s: INFO User requested chunking or unchunking\n",nco_prg_nm_get());
if(nco_dbg_lvl_get() >= nco_dbg_scl && nco_dbg_lvl_get() != nco_dbg_dev){
(void)fprintf(stdout,"cnk_plc, cnk_map: %s, %s\n",nco_cnk_plc_sng_get(cnk_plc),nco_cnk_map_sng_get(cnk_map));
- (void)fprintf(stdout,"cnk_sz_scl, cnk_sz_byt: %lu, %lu\n",(unsigned long)cnk_sz_scl,(unsigned long)cnk_sz_byt);
+ (void)fprintf(stdout,"cnk_sz_scl, cnk_sz_byt, cnk_min_byt: %lu, %lu, %lu\n",(unsigned long)cnk_sz_scl,(unsigned long)cnk_sz_byt,(unsigned long)cnk_min_byt);
if(cnk_nbr > 0){
- (void)fprintf(stdout,"idx dmn_nm\tcnk_sz:\n");
- for(cnk_idx=0;cnk_idx<cnk_nbr;cnk_idx++)
- (void)fprintf(stdout,"%2d %s\t%lu\n",cnk_idx,cnk_dmn[cnk_idx]->nm,(unsigned long)cnk_dmn[cnk_idx]->sz);
+ (void)fprintf(stdout,"idx cnk_nm\tcnk_sz:\n");
+ for(cnk_idx=0;cnk_idx<cnk_nbr;cnk_idx++) (void)fprintf(stdout,"%2d %s\t%lu\n",cnk_idx,cnk_dmn[cnk_idx]->nm ? cnk_dmn[cnk_idx]->nm : cnk_dmn[cnk_idx]->nm_fll,(unsigned long)cnk_dmn[cnk_idx]->sz);
} /* cnk_nbr == 0 */
} /* endif dbg */
} /* endif dbg */
@@ -896,6 +915,11 @@ 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++)
if(dmn_cmn[dmn_idx].is_rec_dmn) is_rec_var=True;
+ /* How big is variable? */
+ var_sz_byt=typ_sz;
+ for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++)
+ var_sz_byt*= dmn_cmn[dmn_idx].NON_HYP_DMN ? dmn_cmn[dmn_idx].sz : dmn_cmn[dmn_idx].dmn_cnt;
+
/* Is variable compressed? */
(void)nco_inq_var_deflate(grp_id_out,var_id_out,&shuffle,&deflate,(int *)NULL);
if(deflate) is_cmp_var=True;
@@ -908,37 +932,42 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
if(is_rec_var || is_chk_var || is_cmp_var) must_be_chunked=True; else must_be_chunked=False;
/* Is variable currently chunked? */
- if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NCO_NC_LIB_VERSION >= 433) is_chunked=nco_cnk_dsk_inq(grp_id_in,var_id_in);
+ if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NC_LIB_VERSION >= 433) is_chunked=nco_cnk_dsk_inq(grp_id_in,var_id_in);
- /* Does this variable have any user-chunked dimensions? */
- if(cnk_plc == nco_cnk_plc_xpl){
- for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++)
- for(cnk_idx=0;cnk_idx<cnk_nbr;cnk_idx++){
- if(cnk_dmn[cnk_idx]->nm_fll){
- if(!strcmp(cnk_dmn[cnk_idx]->nm_fll,dmn_cmn[dmn_idx].nm_fll)) break;
- }else{
- if(!strcmp(cnk_dmn[cnk_idx]->nm,dmn_cmn[dmn_idx].nm)) break;
- } /* end else */
- } /* end loop over cnk_idx */
- if(dmn_idx != dmn_nbr) is_xpl_cnk=True;
- } /* end plc_xpl */
+ /* Does variable have any user-chunked dimensions? */
+ for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++){
+ for(cnk_idx=0;cnk_idx<cnk_nbr;cnk_idx++){
+ if(cnk_dmn[cnk_idx]->nm_fll){
+ if(!strcmp(cnk_dmn[cnk_idx]->nm_fll,dmn_cmn[dmn_idx].nm_fll)) break;
+ }else{
+ if(!strcmp(cnk_dmn[cnk_idx]->nm,dmn_cmn[dmn_idx].nm)) break;
+ } /* end else */
+ } /* end loop over cnk_idx */
+ if(cnk_idx != cnk_nbr) break;
+ } /* end loop over dmn_idx */
+ if(dmn_idx != dmn_nbr) is_xpl_cnk=True;
+
+ /* Let netCDF layer determine chunking */
+ if(cnk_map == nco_cnk_map_nc4) return;
if(must_be_chunked){
/* Some variables simply must be chunked */
if(nco_dbg_lvl_get() >= nco_dbg_var && nco_dbg_lvl_get() != nco_dbg_dev) (void)fprintf(stdout,"%s: INFO %s %s must be chunked (record, compressed, or check-summed variable)\n",nco_prg_nm_get(),fnc_nm,var_nm);
}else{
- /* Explicitly exit this chunking function now (and thus implement netCDF4-default chunking behavior) for variables that are... */
- if((cnk_plc == nco_cnk_plc_xpl && !is_xpl_cnk) || /* ...not explicitly chunked... */
+ /* Exit chunking function now (and thus implement netCDF4-default chunking behavior) for variables that are... */
+ if((var_sz_byt < cnk_min_byt) || /* ...too small in size... */
+ (cnk_plc == nco_cnk_plc_xpl && !is_xpl_cnk) || /* ...not explicitly chunked... */
(cnk_plc == nco_cnk_plc_xst && !is_chunked) || /* ...not already chunked... */
- (cnk_plc == nco_cnk_plc_g2d && dmn_nbr < 2) || /* ...much too small... */
- (cnk_plc == nco_cnk_plc_g3d && dmn_nbr < 3) || /* ...too small... */
+ (cnk_plc == nco_cnk_plc_g2d && dmn_nbr < 2) || /* ...much too small in rank... */
+ (cnk_plc == nco_cnk_plc_g3d && dmn_nbr < 3) || /* ...too small in rank... */
(cnk_plc == nco_cnk_plc_uck) || /* ...intentionally unchunked... */
False){
- /* If variable is chunked */
+ /* If variable is chunked in input */
if(is_chunked){
/* Turn-off chunking for this variable */
if(nco_dbg_lvl_get() >= nco_dbg_var && nco_dbg_lvl_get() != nco_dbg_dev) (void)fprintf(stdout,"%s: INFO %s unchunking %s\n",nco_prg_nm_get(),fnc_nm,var_nm);
if(shuffle) (void)fprintf(stdout,"%s: WARNING %s reports variable %s has shuffle flag set before unchunking. Expect the worst.",nco_prg_nm_get(),fnc_nm,var_nm);
+ /* Redundant since default netCDF srg_typ = NC_CONTIGUOUS for variables that need not be chunked */
(void)nco_def_var_chunking(grp_id_out,var_id_out,srg_typ,cnk_sz);
}else{ /* !chunked */
if(nco_dbg_lvl_get() >= nco_dbg_var && nco_dbg_lvl_get() != nco_dbg_dev) (void)fprintf(stdout,"%s: INFO %s not unchunking %s because it is not chunked\n",nco_prg_nm_get(),fnc_nm,var_nm);
@@ -949,7 +978,7 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
} /* !turn-off chunking */
} /* !must_be_chunked */
- /* Since routine has not returned yet, this variable will definitely be chunked */
+ /* Routine has not returned yet so this variable will definitely be chunked */
srg_typ=NC_CHUNKED; /* [enm] Storage type */
if(nco_dbg_lvl_get() >= nco_dbg_var && nco_dbg_lvl_get() != nco_dbg_dev) (void)fprintf(stdout,"%s: INFO %s %schunking %s\n",nco_prg_nm_get(),fnc_nm,(is_chunked ? "re-" : "" ),var_nm);
@@ -958,8 +987,56 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
if(cnk_map == nco_cnk_map_xst){
/* Set chunksizes to existing sizes for this variable */
+
if(is_chunked){
- (void)nco_inq_var_chunking(grp_id_in,var_id_in,(int *)NULL,cnk_sz);
+ char **dmn_nm_in; /* [sng] Dimension names for this variable in input file */
+ int *dmn_id_in; /* [id] Dimension IDs for this variable in input file */
+ int dmn_idx_in; /* [idx] Counter for input dimensions */
+ int dmn_nbr_in; /* [nbr] Number of dimensions for variable in input file */
+ size_t *cnk_in=NULL; /* [nbr] Chunksize list in input file */
+
+ (void)nco_inq_varndims(grp_id_in,var_id_in,&dmn_nbr_in);
+ cnk_in=(size_t *)nco_malloc(dmn_nbr_in*sizeof(size_t));
+ dmn_id_in=(int *)nco_malloc(dmn_nbr_in*sizeof(int));
+ dmn_nm_in=(char **)nco_malloc(dmn_nbr_in*sizeof(char *));
+ for(dmn_idx=0;dmn_idx<dmn_nbr_in;dmn_idx++)
+ dmn_nm_in[dmn_idx]=(char *)nco_calloc(NC_MAX_NAME+1L,sizeof(char));
+
+ (void)nco_inq_var_chunking(grp_id_in,var_id_in,(int *)NULL,cnk_in);
+ (void)nco_inq_vardimid(grp_id_in,var_id_in,dmn_id_in);
+ for(dmn_idx=0;dmn_idx<dmn_nbr_in;dmn_idx++)
+ (void)nco_inq_dimname(grp_id_in,dmn_id_in[dmn_idx],dmn_nm_in[dmn_idx]);
+
+ /* 20141124:
+ In most cases cnk_in may be safely assigned to cnk_sz
+ However, operators like ncecat and ncwa change variable dimensionality, and ncpdq changes order
+ With these operators, re-arrange input chunksizes for output */
+ for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++){
+ for(dmn_idx_in=0;dmn_idx_in<dmn_nbr_in;dmn_idx_in++){
+ if(!strcmp(dmn_cmn[dmn_idx].nm,dmn_nm_in[dmn_idx_in])){
+ cnk_sz[dmn_idx]=cnk_in[dmn_idx_in];
+ break;
+ } /* endif */
+ } /* end loop over dmn_idx_in */
+ if(dmn_idx_in == dmn_nbr_in){
+ /* Output file dimension not found in input file */
+ assert(nco_prg_id_get() == ncecat);
+ if(dmn_cmn[dmn_idx].NON_HYP_DMN){
+ if(dmn_cmn[dmn_idx].sz == 0) cnk_sz[dmn_idx]=1UL; else cnk_sz[dmn_idx]=dmn_cmn[dmn_idx].sz;
+ }else{ /* !NON_HYP_DMN */
+ cnk_sz[dmn_idx]=dmn_cmn[dmn_idx].dmn_cnt;
+ } /* !NON_HYP_DMN */
+ if(nco_dbg_lvl_get() >= nco_dbg_var) (void)fprintf(stdout,"%s: INFO %s reports variable %s output dimension %s not found in input file. Setting default chunksize for this dimension to = %lu\n",nco_prg_nm_get(),fnc_nm,var_nm,dmn_cmn[dmn_idx].nm,(unsigned long)cnk_sz[dmn_idx]);
+ } /* endif dimension not in input file */
+ } /* end loop over dmn_idx */
+
+ /* Memory management */
+ if(cnk_in) cnk_in=(size_t *)nco_free(cnk_in);
+ if(dmn_id_in) dmn_id_in=(int *)nco_free(dmn_id_in);
+ for(dmn_idx=0;dmn_idx<dmn_nbr_in;dmn_idx++)
+ if(dmn_nm_in[dmn_idx]) dmn_nm_in[dmn_idx]=(char *)nco_free(dmn_nm_in[dmn_idx]);
+ if(dmn_nm_in) dmn_nm_in=(char **)nco_free(dmn_nm_in);
+
/* Allow existing chunksizes to be over-ridden by explicitly specified chunksizes */
goto cnk_xpl_override;
} /* !is_chunked */
@@ -991,9 +1068,10 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
/* 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].NON_HYP_DMN){
- /* When not hyperslabbed, use input record dimension size ... */
- cnk_sz[dmn_idx]=dmn_cmn[dmn_idx].sz;
- /* 20140518: As of netCDF 4.3.2, employ smarter defaults for record dimension */
+ /* When not hyperslabbed, use input record dimension size, except workaround zero size
+ reported for new record dimensions before anything is written */
+ if(dmn_cmn[dmn_idx].sz == 0) cnk_sz[dmn_idx]=1UL; else cnk_sz[dmn_idx]=dmn_cmn[dmn_idx].sz;
+ /* 20140518: As of netCDF 4.3.2, employ smarter defaults for record dimension in 1-D variables */
if(dmn_nbr == 1) cnk_sz[dmn_idx]=NCO_CNK_SZ_BYT_R1D_DFL/typ_sz;
}else{ /* !NON_HYP_DMN */
/* ... and when hyperslabbed, use user-specified count */
@@ -1041,24 +1119,39 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
} /* !nco_cnk_map_lfp */
if(cnk_map == nco_cnk_map_rew){
- /* Described by Russ Rew at http://www.unidata.ucar.edu/staff/russ/public/chunk_shape_3D.py
- ncks -O -C -4 -D 6 -v four_dmn_rec_var --cnk_map=rew -p ~/nco/data in.nc ~/foo.nc */
+
+ /* Apply only to 3-D variables */
+ if(dmn_nbr != 3) goto cnk_xpl_override;
+
+ /* Implementation by Russ Rew at http://www.unidata.ucar.edu/staff/russ/public/chunk_shape_3D.py
+ >>> import cnk
+ >>> cnk.chunk_shape_3D(varShape=(98128,277,349),valSize=4,chunkSize=4096)
+ [33, 5, 6]
+ Test case is (time,lat,lon) = 98128 x 277 x 349
+ ncks -O -C -4 -D 5 -v three_dmn_rec_var --cnk_byt=128 --cnk_map=rew -p ~/nco/data in.nc ~/foo.nc
+ ncks -O -C -4 -D 5 -v var --cnk_byt=4096 --cnk_map=rew -p ~/nco/data cnk.nc ${DATA}/nco_bm/cnk_rew.nc */
double cnk_val_nbr;
double dmn_sz_prd=1.0; /* [nbr] Number of elements in output variable */
double cnk_nbr_xct; /* [nbr] Exact number of ideal chunks needed to store variable */
double cnk_nbr_2D_axs; /* [nbr] Exact number of ideal chunks along each 2D axis */
double fct_ncr=1.0; /* [frc] Factor by which to increase chunk size */
+ size_t *cnk_sz_prt; /* [nbr] Perturbed chunk size (base chunk size plus zero or one) */
+ size_t *cnk_sz_rgn; /* [nbr] Original (first-guess) chunk size (no adjustments) */
+ size_t *prt_cff; /* [nbr] Rerturbation to base chunk size for each dimension, also [0,1] multiplier for each power of two in this permutation index */
+ size_t *two_pwr_idx; /* [nbr] Two-to-the-power-of-the-array-index */
size_t *var_shp; /* [nbr] Shape of variable */
/* Allocate space to hold variable shape */
+ cnk_sz_rgn=(size_t *)nco_malloc(dmn_nbr*sizeof(size_t));
+ cnk_sz_prt=(size_t *)nco_malloc(dmn_nbr*sizeof(size_t));
+ prt_cff=(size_t *)nco_malloc(dmn_nbr*sizeof(size_t));
+ two_pwr_idx=(size_t *)nco_malloc(dmn_nbr*sizeof(size_t));
var_shp=(size_t *)nco_malloc(dmn_nbr*sizeof(size_t));
cnk_val_nbr=cnk_sz_byt/(double)typ_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].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);
+ var_shp[dmn_idx]= (dmn_cmn[dmn_idx].NON_HYP_DMN) ? dmn_cmn[dmn_idx].sz : dmn_cmn[dmn_idx].dmn_cnt;
/* Determine hyperslab size */
dmn_sz_prd*=var_shp[dmn_idx];
} /* end loop over dmn_idx */
@@ -1067,26 +1160,84 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
cnk_nbr_2D_axs=pow(cnk_nbr_xct,0.25);
if(var_shp[0]/(cnk_nbr_2D_axs*cnk_nbr_2D_axs) < 1.0){
- cnk_sz[0]=1L;
- cnk_nbr_2D_axs=1.0/sqrt((double)var_shp[0]);
+ cnk_sz_rgn[0]=1L;
+ cnk_nbr_2D_axs/=sqrt((double)var_shp[0]/(cnk_nbr_2D_axs*cnk_nbr_2D_axs));
}else{
- cnk_sz[0]=var_shp[0]/(cnk_nbr_2D_axs*cnk_nbr_2D_axs);
+ cnk_sz_rgn[0]=var_shp[0]/(cnk_nbr_2D_axs*cnk_nbr_2D_axs); // Rew13 uses // for integer arithmetic here
} /* endif */
for(dmn_idx=1;dmn_idx<=dmn_nbr-1;dmn_idx++) /* NB: Start at 1 */
if(var_shp[dmn_idx]/cnk_nbr_2D_axs < 1.0) fct_ncr*=cnk_nbr_2D_axs/var_shp[dmn_idx];
for(dmn_idx=1;dmn_idx<=dmn_nbr-1;dmn_idx++) /* NB: Start at 1 */
- if(var_shp[dmn_idx]/cnk_nbr_2D_axs < 1.0) cnk_sz[dmn_idx]=1L; else cnk_sz[dmn_idx]=fct_ncr*var_shp[dmn_idx]/cnk_nbr_2D_axs;
+ if(var_shp[dmn_idx]/cnk_nbr_2D_axs < 1.0) cnk_sz_rgn[dmn_idx]=1L; else cnk_sz_rgn[dmn_idx]=fct_ncr*var_shp[dmn_idx]/cnk_nbr_2D_axs;
+
+ /* First-guess estimate of chunk size */
+ size_t cnk_sz_prd=1L;
+ for(dmn_idx=0;dmn_idx<=dmn_nbr-1;dmn_idx++) cnk_sz_prd*=cnk_sz_rgn[dmn_idx];
+ assert(cnk_sz_prd*typ_sz <= cnk_sz_byt);
+
+ /* prm_idx = prm_cff[0]*2^0 + prm_cff[1]*2^1 + prm_cff[2]*2^2 + ... + prm_cff[dmn_nbr-1]*2^(dmn_nbr-1) */
+ two_pwr_idx[0]=1L;
+ for(dmn_idx=1;dmn_idx<=dmn_nbr-1;dmn_idx++) two_pwr_idx[dmn_idx]=2L*two_pwr_idx[dmn_idx-1];
+ size_t two_pwr_rnk=2L*two_pwr_idx[dmn_nbr-1];
+
+ int sum_idx; /* [idx] Counting index for partial sums [dmn_idx+1..dmn_nbr-1] */
+ long cnk_gap; /* [B] Difference between actual and requested chunksize */
+ long cnk_gap_prt; /* [B] Difference between perturbed and requested chunksize */
+ size_t prm_idx; /* [idx] Permutation index [0..2^(dmn_nbr-1)] */
+ size_t prt_sum; /* [nbr] Partial sum (sum of coefficients times powers of two for higher powers */
+ /* Score initial guess */
+ cnk_gap=cnk_sz_byt-cnk_sz_prd*typ_sz;
+ /* In case initial guess is lucky and permutation loop breaks before completing */
+ for(dmn_idx=0;dmn_idx<=dmn_nbr-1;dmn_idx++) cnk_sz[dmn_idx]=cnk_sz_rgn[dmn_idx];
+
+ /* Loop through permutations of adjusting first-estimate chunk size by plus one
+ NB: Skip permutation prm_idx=0 since it is degenerate and does not change first-guess chunk sizes */
+ for(prm_idx=1;prm_idx<two_pwr_rnk;prm_idx++){ /* NB: Loop starts at 1 to skip degenerate perumutation */
+ if(cnk_gap == 0L) break;
+ cnk_sz_prd=1L;
+ /* Fill-in coefficient from MSB to LSB */
+ for(dmn_idx=dmn_nbr-1;dmn_idx>=0;dmn_idx--){ /* NB: descending loop */
+ cnk_sz_prt[dmn_idx]=cnk_sz_rgn[dmn_idx];
+ prt_sum=prt_cff[dmn_idx]=0UL;
+ /* Partial sum of higher powers */
+ for(sum_idx=dmn_idx+1;sum_idx<=dmn_nbr-1;sum_idx++) prt_sum+=prt_cff[sum_idx]*two_pwr_idx[sum_idx];
+ prt_cff[dmn_idx]=(prm_idx-prt_sum)/two_pwr_idx[dmn_idx];
+ cnk_sz_prt[dmn_idx]+=prt_cff[dmn_idx];
+ cnk_sz_prd*=cnk_sz_prt[dmn_idx];
+ } /* dmn_idx */
+ /* Test gap narrowness */
+ cnk_gap_prt=cnk_sz_byt-cnk_sz_prd*typ_sz;
+
+ if(nco_dbg_lvl_get() >= nco_dbg_var){
+ (void)fprintf(stdout,"prm_idx = %lu, cnk_gap = %ld, cnk_sz_prd = %lu, cnk_gap_prt = %ld, prt_sum = %lu\n",(unsigned long)prm_idx,cnk_gap,(unsigned long)cnk_sz_prd,cnk_gap_prt,(unsigned long)prt_sum);
+ (void)fprintf(stdout,"idx dmn_nm\tdmn_sz\tvar_shp\tsz_rgn\tsz_prt\tprt_cff\ttwo_pwr:\n");
+ for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++) (void)fprintf(stdout,"%2d %s\t\t%lu\t%lu\t%lu\t%lu\t%lu\t%lu\n",dmn_idx,dmn_cmn[dmn_idx].nm,(unsigned long)dmn_cmn[dmn_idx].sz,(unsigned long)var_shp[dmn_idx],(unsigned long)cnk_sz_rgn[dmn_idx],(unsigned long)cnk_sz_prt[dmn_idx],(unsigned long)prt_cff[dmn_idx],(unsigned long)two_pwr_idx[dmn_idx]);
+ } /* endif dbg */
+
+ if(cnk_gap_prt >= 0L && cnk_gap_prt < cnk_gap){
+ /* Candidate improves best previous guess */
+ for(dmn_idx=0;dmn_idx<=dmn_nbr-1;dmn_idx++){
+ cnk_sz[dmn_idx]=cnk_sz_prt[dmn_idx];
+ cnk_gap=cnk_gap_prt;
+ } /* end loop over dimensions */
+ } /* endif gap */
+ } /* end loop over permutations */
if(nco_dbg_lvl_get() >= nco_dbg_var){
(void)fprintf(stdout,"map rew debugging:\n");
- (void)fprintf(stdout,"cnk_nbr_xct = %g, cnk_val_nbr = %g, dmn_sz_prd = %g\n",cnk_nbr_xct,cnk_val_nbr,dmn_sz_prd);
+ (void)fprintf(stdout,"cnk_nbr_xct = %g, cnk_val_nbr = %g, dmn_sz_prd = %g, cnk_sz_prd = %lu\n",cnk_nbr_xct,cnk_val_nbr,dmn_sz_prd,(unsigned long)cnk_sz_prd);
(void)fprintf(stdout,"idx dmn_nm\tdmn_sz\tvar_shp\tcnk_sz:\n");
for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++) (void)fprintf(stdout,"%2d %s\t\t%lu\t%lu\t%lu\n",dmn_idx,dmn_cmn[dmn_idx].nm,(unsigned long)dmn_cmn[dmn_idx].sz,(unsigned long)var_shp[dmn_idx],(unsigned long)cnk_sz[dmn_idx]);
} /* endif dbg */
/* Free shape space */
- if(var_shp) var_shp=(size_t *)nco_free(var_shp);
+ if(cnk_sz_prt) cnk_sz_prt=(size_t *)nco_free(cnk_sz_prt);
+ if(cnk_sz_rgn) cnk_sz_rgn=(size_t *)nco_free(cnk_sz_rgn);
+ if(prt_cff) prt_cff=(size_t *)nco_free(prt_cff);
+ if(two_pwr_idx) two_pwr_idx=(size_t *)nco_free(two_pwr_idx);
+ if(var_shp) var_shp=(size_t *)nco_free(var_shp);
+
} /* !nco_cnk_map_rew */
/* Override "reasonable" defaults with explicitly set uniform scalar chunksize, if any */
@@ -1112,78 +1263,73 @@ nco_cnk_sz_set_trv /* [fnc] Set chunksize parameters (GTT version of nco_cnk_sz_
cnk_xpl_override: /* end goto */
/* Override "reasonable" defaults with explicitly set per-dimension sizes, if any */
- flg_mch=(nco_bool *)nco_malloc(dmn_nbr*sizeof(nco_bool));
- /* Loop over all dimensions in this variable */
for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++){
- /* Initialize to false then override */
- flg_mch[dmn_idx]=False;
-
- /* Loop over all user-specified chunk-sizes */
- for(cnk_idx=0;cnk_idx<cnk_nbr;cnk_idx++){
-
- if(cnk_dmn[cnk_idx]->nm_fll){
- if(!strcmp(cnk_dmn[cnk_idx]->nm_fll,dmn_cmn[dmn_idx].nm_fll)) flg_mch[dmn_idx]=True;
- }else{
- if(!strcmp(cnk_dmn[cnk_idx]->nm,dmn_cmn[dmn_idx].nm)) flg_mch[dmn_idx]=True;
- } /* end else */
+ /* Full-names have priority in matching...first full-name match wins */
+ for(cnk_idx=0;cnk_idx<cnk_nbr;cnk_idx++)
+ if(cnk_dmn[cnk_idx]->nm_fll)
+ if(!strcmp(cnk_dmn[cnk_idx]->nm_fll,dmn_cmn[dmn_idx].nm_fll))
+ break;
+
+ /* If no full-names match, then first short-name (relative name) match wins */
+ if(cnk_idx == cnk_nbr)
+ for(cnk_idx=0;cnk_idx<cnk_nbr;cnk_idx++)
+ if(!cnk_dmn[cnk_idx]->nm_fll)
+ if(!strcmp(cnk_dmn[cnk_idx]->nm,dmn_cmn[dmn_idx].nm))
+ break;
+
+ /* If no match then no override so continue to next dimension */
+ if(cnk_idx == cnk_nbr) continue;
+
+ /* Override default chunking with user-specified chunking for this dimension if... */
+ if(
+ /* ... Policy is anything but r1d or ...*/
+ (cnk_plc != nco_cnk_plc_r1d) ||
+ /* ... Policy is r1d and this is the matching r1d coordinate or ... */
+ (cnk_plc == nco_cnk_plc_r1d && (dmn_nbr == 1 && is_rec_var)) ||
+ False){
+ /* Perform override */
+ cnk_sz[dmn_idx]=cnk_dmn[cnk_idx]->sz;
+ }else{
+ /* Override was not performed due to policy, so continue to next dimension */
+ continue;
+ } /* endif */
- /* User-specified name matches current dimension name */
- if(flg_mch[dmn_idx]){
- flg_ovr=False;
-
- /* Override default chunking with user-specified chunking for this dimension if... */
- if(
- /* ... Policy is anything but r1d or ...*/
- (cnk_plc != nco_cnk_plc_r1d) ||
- /* ... Policy is r1d and this is the matching r1d coordinate or ... */
- (cnk_plc == nco_cnk_plc_r1d && (dmn_nbr == 1 && is_rec_var)) ||
- False){
- /* Perform override */
- cnk_sz[dmn_idx]=cnk_dmn[cnk_idx]->sz;
- flg_ovr=True;
- } /* endif */
-
- /* Sanity checks for dimensions that were over-ridden by user-specified chunksizes */
- if(flg_ovr){
- /* Is this a record dimension? */
- 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].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{ /* !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 */
- } /* !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 */
- (void)fprintf(stderr,"%s: WARNING %s trimming user-specified fixed dimension %s chunksize from %lu to %lu\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);
- /* Trim else out-of-bounds sizes will fail in HDF library in nc_enddef() */
- cnk_sz[dmn_idx]=(size_t)dmn_cmn[dmn_idx].sz;
- } /* endif */
- } /* !rcd_dmn_id */
- } /* !flg_ovr */
- /* Dimension matched this chunk name, no need to search other chunk names */
- break;
- } /* cnk_nm != dmn_nm */
- } /* end loop over dimensions */
- } /* end loop over cnk */
- if(flg_mch) flg_mch=(nco_bool *)nco_free(flg_mch);
+ /* Sanity checks for dimensions that were over-ridden by user-specified chunksizes */
- /* Status: Previous block implemented per-dimension checks on user-requested chunksizes only
- Block below implements similar final safety check for ALL dimensions and ALL chunking maps
+ /* Is this a record dimension? */
+ 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].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{ /* !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 */
+ } /* !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 */
+ (void)fprintf(stderr,"%s: WARNING %s trimming user-specified fixed dimension %s chunksize from %lu to %lu\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);
+ /* Trim else out-of-bounds sizes will fail in HDF library in nc_enddef() */
+ cnk_sz[dmn_idx]=(size_t)dmn_cmn[dmn_idx].sz;
+ } /* endif */
+ } /* !rcd_dmn_id */
+
+ } /* end loop over dmn_idx */
+
+ /* Status: Previous loop implemented per-dimension checks on user-requested chunksizes only
+ Loop below implements similar final safety check for ALL dimensions and ALL chunking maps
Check trims fixed (not record) dimension chunksize to never be larger than dimension size */
for(dmn_idx=0;dmn_idx<dmn_nbr;dmn_idx++){
if(cnk_sz[dmn_idx] > (size_t)dmn_cmn[dmn_idx].sz){
if(!dmn_cmn[dmn_idx].is_rec_dmn){
/* Unlike record dimensions, non-record dimensions must have cnk_sz <= dmn_sz */
- (void)fprintf(stderr,"%s: WARNING %s final check trimming %s chunksize from %lu to %lu\n",nco_prg_nm_get(),fnc_nm,dmn_cmn[dmn_idx].nm,(unsigned long)cnk_sz[dmn_idx],(unsigned long)dmn_cmn[dmn_idx].sz);
+ if(nco_dbg_lvl_get() >= nco_dbg_std) (void)fprintf(stderr,"%s: INFO %s final check trimming chunksize of \"%s\" dimension from %lu to %lu\n",nco_prg_nm_get(),fnc_nm,dmn_cmn[dmn_idx].nm,(unsigned long)cnk_sz[dmn_idx],(unsigned long)dmn_cmn[dmn_idx].sz);
/* Trim else out-of-bounds sizes will fail in HDF library in nc_enddef() */
cnk_sz[dmn_idx]=(size_t)dmn_cmn[dmn_idx].sz;
} /* rcd_dmn_id */
diff --git a/src/nco/nco_cnk.h b/src/nco/nco_cnk.h
index 609191f..0ec381b 100644
--- a/src/nco/nco_cnk.h
+++ b/src/nco/nco_cnk.h
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_cnk.h,v 1.39 2014/08/14 22:44:39 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_cnk.h,v 1.42 2014/10/17 15:42:40 zender Exp $ */
/* Purpose: Description (definition) of chunking functions */
@@ -50,7 +50,9 @@ enum nco_cnk_map{ /* [enm] Chunking conversion map */
nco_cnk_map_prd, /* 4 [enm] Chunksize product is scalar size specified */
nco_cnk_map_lfp, /* 5 [enm] Chunksizes of lefter dimensions flexes to matches scalar size specified */
nco_cnk_map_xst, /* 6 [enm] Chunksize equals chunk-sizes in input file */
- nco_cnk_map_rew /* 7 [enm] Chunksize balances access to 1D and 2D slabs of 3D variable */
+ nco_cnk_map_rew, /* 7 [enm] Chunksize balances access to 1D and 2D slabs of 3D variable */
+ nco_cnk_map_nc4, /* 8 [enm] Chunksize determined by netCDF layer */
+ nco_cnk_map_nco /* 9 [enm] Chunksize determined by current "best" NCO algorithm */
}; /* end nco_cnk_map enum */
#ifdef __cplusplus
@@ -78,6 +80,7 @@ nco_cnk_ini /* [fnc] Create structure with all chunking information */
const int cnk_nbr, /* I [nbr] Number of chunksizes specified */
const int cnk_map, /* I [enm] Chunking map */
const int cnk_plc, /* I [enm] Chunking policy */
+ const size_t cnk_min_byt, /* I [B] Minimize size of variable to chunk */
const size_t cnk_sz_byt, /* I [B] Chunk size in bytes */
const size_t cnk_sz_scl, /* I [nbr] Chunk size scalar */
cnk_sct * const cnk); /* O [sct] Chunking structure */
diff --git a/src/nco/nco_ctl.c b/src/nco/nco_ctl.c
index dbb57be..1596b6d 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 1.494 2014/10/01 17:32:36 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_ctl.c,v 1.502 2014/11/26 05:18:52 zender Exp $ */
/* Purpose: Program flow control functions */
@@ -720,11 +720,15 @@ nco_cnf_prn(void) /* [fnc] Print NCO configuration and help text */
"No",
#endif /* !ENABLE_GSL */
/* 20131018: This switch is not active yet. Requires netCDF library support */
-#if defined(ENABLE_HDF4) && (ENABLE_HDF4)
+#if NC_LIB_VERSION >= 433
+# if NC_HAS_HDF4
"Yes",
-#else /* !ENABLE_HDF4 */
+# else /* !NC_HAS_HDF4 */
+ "No",
+# endif /* !NC_HAS_HDF4 */
+#else /* !NC_LIB_VERSION */
"Unknown",
-#endif /* !ENABLE_HDF4 */
+#endif /* !NC_LIB_VERSION */
#if defined(I18N) && (I18N)
"Yes",
#else /* !I18N */
@@ -799,7 +803,7 @@ 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 "Lynn to the rescue\n";
+ return "SK new depth/length\n";
} /* end nco_nmn_get() */
char * /* O [sng] nm_in stripped of any path (i.e., program name stub) */
@@ -910,41 +914,41 @@ nco_usg_prn(void)
switch(prg_lcl){
case ncap:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-F] [-f] [--fl_fmt fmt] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-s algebra] [-S fl.nco] [-t thr_nbr] [-v] in.nc [out.nc]\n");
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-F] [-f] [--fl_fmt fmt] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-s algebra] [-S fl.nco] [-t thr_nbr] [-v] in.nc [out.nc]\n");
break;
case ncatted:
opt_sng=(char *)strdup("[-a ...] [--bfr sz] [-D nco_dbg_lvl] [-h] [--hdr_pad nbr] [-l path] [-O] [-o out.nc] [-p path] [-R] [-r] in.nc [[out.nc]]\n");
break;
case ncbo:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [--msa] [-n ...] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [--unn] [-v ...] [-X box] [-x] [-y op_typ] in_1.nc in_2.nc [out.nc]\n");
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [--msa] [-n ...] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [--unn] [-v ...] [-X box] [-x] [-y op_typ] in_1.nc in_2.nc [out.nc]\n");
break;
case ncflint:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fix_rec_crd] [--fl_fmt fmt] [-h] [--hdf] [--hdr_pad nbr] [-i var,val] [-L lvl] [-l path] [--msa] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [-v ...] [-X box] [-x] [-w wgt_1[,wgt_2]] in_1.nc in_2.nc [out.nc]\n");
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fix_rec_crd] [--fl_fmt fmt] [-h] [--hdf] [--hdr_pad nbr] [-i var,val] [-L lvl] [-l path] [--msa] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [-v ...] [-X box] [-x] [-w wgt_1[,wgt_2]] in_1.nc in_2.nc [out.nc]\n");
break;
case ncks:
- opt_sng=(char *)strdup("[-3] [-4] [-5] [-6] [-7] [-A] [-a] [-b fl_bnr] [--bfr sz] [-C] [-c] [--cdl] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fix_rec_dmn dim] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [--grp_xtr_var_xcl] [-H] [-h] [--hdn] [--hdr_pad nbr] [-L lvl] [-l path] [-M] [-m] [--md5_dgs] [--md5_wrt] [--mk_rec_dmn dim] [--msa] [--no_blank] [--no_tmp_fl] [-O] [-o out.nc] [-P] [-p path] [-Q] [-q] [-R] [-r] [--rad] [...]
+ opt_sng=(char *)strdup("[-3] [-4] [-5] [-6] [-7] [-A] [-a] [-b fl_bnr] [--bfr sz] [-C] [-c] [--cdl] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fix_rec_dmn dim] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [--grp_xtr_var_xcl] [-H] [-h] [--hdn] [--hdr_pad nbr] [-L lvl] [-l path] [-M] [-m] [--md5_dgs] [--md5_wrt] [--mk_rec_dmn dim] [--msa] [--no_blank] [--no_tmp_fl] [-O] [-o out.nc] [-P] [-p path] [-Q] [-q] [ [...]
break;
case ncpdq:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [-a ...] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [-M pck_map] [--mrd] [--msa] [--no_tmp_fl] [-O] [-o out.nc] [-P pck_plc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [--unn] [-U] [-v ...] [-X box] [-x] in.nc [out.nc]\n");
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [-a ...] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [-M pck_map] [--mrd] [--msa] [--no_tmp_fl] [-O] [-o out.nc] [-P pck_plc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [--unn] [-U] [-v ...] [-X box] [-x] in.nc [out.nc]\n");
break;
case ncra:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [--dbl|flt] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-H] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [--mro] [--msa] [-n ...] [--no_cll_mth] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [--rec_apn] [-t thr_nbr] [--unn] [-v ...] [-X box] [-x] [-y op_typ] in.nc [...] [out.nc]\n");
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [--dbl|flt] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-H] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [--mro] [--msa] [-n ...] [--no_cll_mth] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [--rec_apn] [-t thr_nbr] [--unn] [-v ...] [-X box] [-x] [-y op_typ] in.nc [...] [out. [...]
break;
case ncfe:
case ncge:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [--dbl|flt] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-H] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [--msa] [-n ...] [--no_tmp_fl] [--nsm_fl] [--nsm_grp] [--nsm_sfx] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [--unn] [-v ...] [-X box] [-x] [-y op_typ] in.nc [...] [out.nc]\n");
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [--dbl|flt] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-H] [-h] [--hdf] [--hdr_pad nbr] [-L lvl] [-l path] [--msa] [-n ...] [--no_tmp_fl] [--nsm_fl] [--nsm_grp] [--nsm_sfx] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [--unn] [-v ...] [-X box] [-x] [-y op_typ] in.nc [...] [out. [...]
break;
case ncrcat:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-H] [-h] [--hdr_pad nbr] [-L lvl] [-l path] [--md5_digest] [--msa] [-n ...] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [--rec_apn] [-t thr_nbr] [--unn] [-v ...] [-X box] [-x] in.nc [...] [out.nc]\n");
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-H] [-h] [--hdr_pad nbr] [-L lvl] [-l path] [--md5_digest] [--msa] [-n ...] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [--rec_apn] [-t thr_nbr] [--unn] [-v ...] [-X box] [-x] in.nc [...] [out.nc]\n");
break;
case ncecat:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [--gag] [-H] [-h] [--hdr_pad nbr] [-L lvl] [-l path] [-M] [--md5_digest] [--mrd] [--msa] [-n ...] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [-u ulm_nm] [--unn] [-v ...] [-X box] [-x] in.nc [...] [out.nc]\n");
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [--gag] [-H] [-h] [--hdr_pad nbr] [-L lvl] [-l path] [-M] [--md5_digest] [--mrd] [--msa] [-n ...] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [-u ulm_nm] [--unn] [-v ...] [-X box] [-x] in.nc [...] [out.nc]\n");
break;
case ncrename:
opt_sng=(char *)strdup("[-a ...] [--bfr sz] [-D nco_dbg_lvl] [-d ...] [-g ...] [-h] [--hdr_pad nbr] [-l path] [-O] [-o out.nc] [-p path] [-R] [-r] [-v ...] in.nc [[out.nc]]\n");
break;
case ncwa:
- opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [-a ...] [-B mask_cond] [-b] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [--dbl|flt] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-h] [--hdf] [--hdr_pad nbr] [-I] [-L lvl] [-l path] [-m mask] [-M mask_val] [-N] [--no_cll_mth] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-T mask_comp] [-t thr_nbr] [--unn] [-v ...] [-w wgt] [-x] [-y op_ty [...]
+ opt_sng=(char *)strdup("[-3] [-4] [-6] [-7] [-A] [-a ...] [-B mask_cond] [-b] [--bfr sz] [-C] [-c] [--cnk_byt sz] [--cnk_dmn nm,sz] [--cnk_map map] [--cnk_min min] [--cnk_plc plc] [--cnk_scl sz] [-D nco_dbg_lvl] [-d ...] [--dbl|flt] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [-h] [--hdf] [--hdr_pad nbr] [-I] [-L lvl] [-l path] [-m mask] [-M mask_val] [-N] [--no_cll_mth] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-T mask_comp] [-t thr_nbr] [--unn] [-v ...] [-w wgt [...]
break;
default: nco_dfl_case_prg_id_err(); break;
} /* end switch */
@@ -984,6 +988,7 @@ nco_usg_prn(void)
if(strstr(opt_sng,"--cdl")) (void)fprintf(stdout," --cdl\t\tPrint CDL (netCDF lingua franca used by ncdump/ncgen)\n");
if(strstr(opt_sng,"--cnk_dmn")) (void)fprintf(stdout," --cnk_dmn, --chunk_dimension nm,sz\tChunksize of dimension nm is sz\n");
if(strstr(opt_sng,"--cnk_map")) (void)fprintf(stdout," --cnk_map, --chunk_map map\t\tChunking map [dmn,lfp,prd,rd1,rew,scl,xpl,xst]\n");
+ if(strstr(opt_sng,"--cnk_min")) (void)fprintf(stdout," --cnk_min, --chunk_min min\t\tMinimum size [B] of variable to chunk\n");
if(strstr(opt_sng,"--cnk_plc")) (void)fprintf(stdout," --cnk_plc, --chunk_policy plc\tChunking policy [all,g2d,g3d,xpl,xst,uck]\n");
if(strstr(opt_sng,"--cnk_scl")) (void)fprintf(stdout," --cnk_scl, --chunk_scalar sz\tChunksize scalar (for all dimensions)\n");
if(strstr(opt_sng,"[-D")) (void)fprintf(stdout,"-D, --dbg_lvl, --debug-level lvl\tDebug-level is lvl\n");
@@ -1118,7 +1123,7 @@ nco_usg_prn(void)
(void)fprintf(stdout,"4. Manual pages: \'man %s\', \'man nco\', ...\n",nco_prg_nm_get());
(void)fprintf(stdout,"5. Homepage: http://nco.sf.net\n");
(void)fprintf(stdout,"6. FAQ: http://nco.sf.net#FAQ\n");
- (void)fprintf(stdout,"7. Help Forum: http://sf.net/projects/nco/forums/forum/9830\n");
+ (void)fprintf(stdout,"7. Help Forum: http://sf.net/p/nco/discussion/9830\n");
(void)fprintf(stdout,"8. Publications: http://nco.sf.net#pub\n");
(void)fprintf(stdout,"Post questions, suggestions, patches at http://sf.net/projects/nco\n");
diff --git a/src/nco/nco_fl_utl.c b/src/nco/nco_fl_utl.c
index c08f4d3..59dbbe8 100644
--- a/src/nco/nco_fl_utl.c
+++ b/src/nco/nco_fl_utl.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_fl_utl.c,v 1.250 2014/09/15 19:43:27 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_fl_utl.c,v 1.252 2014/10/22 00:14:09 zender Exp $ */
/* Purpose: File manipulation */
@@ -113,7 +113,7 @@ nco_fl_fmt_vet /* [fnc] Verify output file format supports requested actions */
{
/* Purpose: Verify output file format supports requested actions */
if(cnk_nbr > 0 && !(fl_fmt == NC_FORMAT_NETCDF4 || fl_fmt == NC_FORMAT_NETCDF4_CLASSIC)) (void)fprintf(stdout,"%s: WARNING Attempt to chunk variables in output file which has netCDF format %s. Chunking is only supported by netCDF filetypes NC_FORMAT_NETCDF4 and NC_FORMAT_NETCDF4_CLASSIC. Command will attempt to complete but without chunking. HINT: re-run command and change output type to netCDF4 using \"-4\", \"--fl_fmt=netcdf4\", or \"--fl_fmt=netcdf4_classic\" option.\n",nco_prg_nm_g [...]
- if(dfl_lvl >= 0 && !(fl_fmt == NC_FORMAT_NETCDF4 || fl_fmt == NC_FORMAT_NETCDF4_CLASSIC)) (void)fprintf(stdout,"%s: WARNING Attempt to deflate (compress) variables in output file which has netCDF format %s. Deflation is only supported by netCDF filetypes NC_FORMAT_NETCDF4 and NC_FORMAT_NETCDF4_CLASSIC. Command will attempt to complete but without deflation. HINT: re-run command and change output type to netCDF4 using \"-4\", \"--fl_fmt=netcdf4\", or \"--fl_fmt=netcdf4_classic\" option. [...]
+ if(dfl_lvl >= 0 && !(fl_fmt == NC_FORMAT_NETCDF4 || fl_fmt == NC_FORMAT_NETCDF4_CLASSIC)) (void)fprintf(stdout,"%s: WARNING Attempt to deflate (compress) variables in output file which has netCDF format %s. Deflation is only supported by netCDF filetypes NC_FORMAT_NETCDF4 and NC_FORMAT_NETCDF4_CLASSIC. Command will attempt to complete but without deflation. HINT: re-run command and change output type to netCDF4 using \"-4\", (same as \"--fl_fmt=netcdf4\"), or \"-7\" (same as \"--fl_fmt [...]
} /* end nco_nco_fl_fmt_vet() */
void
@@ -467,7 +467,7 @@ nco_fl_lst_mk /* [fnc] Create file list from command line positional arguments *
bfr_in=(char *)nco_free(bfr_in);
if(fl_lst_in_lng >= FL_LST_IN_MAX_LNG){
- (void)fprintf(stdout,"%s: ERROR Total length of fl_lst_in from stdin exceeds %d characters. Possible misuse of feature. If your input file list is really this long, post request to developer's forum (http://sf.net/projects/nco/forums/forum/9831) to expand FL_LST_IN_MAX_LNG\n",nco_prg_nm_get(),FL_LST_IN_MAX_LNG);
+ (void)fprintf(stdout,"%s: ERROR Total length of fl_lst_in from stdin exceeds %d characters. Possible misuse of feature. If your input file list is really this long, post request to developer's forum (http://sf.net/p/nco/discussion/9831) to expand FL_LST_IN_MAX_LNG\n",nco_prg_nm_get(),FL_LST_IN_MAX_LNG);
nco_exit(EXIT_FAILURE);
} /* endif err */
diff --git a/src/nco/nco_grp_utl.c b/src/nco/nco_grp_utl.c
index eaad68d..7d22473 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 1.1463 2014/09/25 04:41:15 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_grp_utl.c,v 1.1480 2014/11/26 04:15:26 zender Exp $ */
/* Purpose: Group utilities */
@@ -1023,7 +1023,6 @@ nco_xtr_xcl /* [fnc] Convert extraction list to exclusion list */
if(nco_dbg_lvl_get() == nco_dbg_old) (void)trv_tbl_prn_xtr(trv_tbl,fnc_nm);
return;
-
} /* end nco_xtr_xcl() */
void
@@ -1061,10 +1060,9 @@ 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 idx_tbl=0;idx_tbl<trv_tbl->nbr;idx_tbl++){
- trv_sct trv_obj=trv_tbl->lst[idx_tbl];
- 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);
- } /* end loop over table */
+ 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)
+ (void)nco_xtr_cf_prv_add(nc_id,&trv_tbl->lst[idx_tbl],cf_nm,trv_tbl);
/* Print extraction list in debug mode */
if(nco_dbg_lvl_get() == nco_dbg_old) (void)trv_tbl_prn_xtr(trv_tbl,fnc_nm);
@@ -1085,7 +1083,7 @@ nco_xtr_cf_prv_add /* [fnc] Add variables associated (via CF)
http://cf-pcmdi.llnl.gov/documents/cf-conventions/1.1/cf-conventions.html#coordinate-system */
char **cf_lst; /* [sng] 1D array of list elements */
- char att_nm[NC_MAX_NAME+1]; /* [sng] Attribute name */
+ char att_nm[NC_MAX_NAME+1L]; /* [sng] Attribute name */
const char dlm_sng[]=" "; /* [sng] Delimiter string */
@@ -3741,11 +3739,7 @@ nco_prc_cmn /* [fnc] Process objects (ncbo only) */
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 */
- 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,NULL,0,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,NULL,0,trv_tbl_2);
- }
+ 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,NULL,0,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,NULL,0,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);
@@ -4258,7 +4252,7 @@ nco_var_fll_trv /* [fnc] Allocate variable structure and f
for(int idx=0;idx<var->nbr_dim;idx++) var->cnk_sz[idx]=(size_t)0L;
/* Read deflate levels and chunking (if any) */
- if((nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NCO_NC_LIB_VERSION >= 433) && (fl_fmt == NC_FORMAT_NETCDF4 || fl_fmt == NC_FORMAT_NETCDF4_CLASSIC)){
+ if((nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NC_LIB_VERSION >= 433) && (fl_fmt == NC_FORMAT_NETCDF4 || fl_fmt == NC_FORMAT_NETCDF4_CLASSIC)){
int deflate; /* [enm] Deflate filter is on */
int srg_typ; /* [enm] Storage type */
(void)nco_inq_var_deflate(grp_id,var->id,&var->shuffle,&deflate,&var->dfl_lvl);
@@ -4296,48 +4290,56 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
trv_tbl_sct * const trv_tbl) /* I/O [sct] GTT (Group Traversal Table) */
{
/* Purpose: Copy variable metadata from input netCDF file to output netCDF file
- Routine was based on nco_cpy_var_dfn_lmt(), and differed trivially from it
- Routine truncates dimensions in variable definition in output file according to user-specified limits
- Routine copies variable-by-variable
- 20130126: csz
- Behavior until today required rec_dmn_nm even if not changing it
- As of today, rec_dmn_nm passed only when user-specified
- Otherwise, re-use old record dimension name
- 20130222: csz
- Same routine is called with or without limits
- Routine works with GTT instead of plain names */
+ Routine was based on nco_cpy_var_dfn_lmt(), and differed trivially from it
+ Routine truncates dimensions in variable definition in output file according to user-specified limits
+ Routine copies variable-by-variable
+ 20130126: csz
+ Behavior until today required rec_dmn_nm even if not changing it
+ As of today, rec_dmn_nm passed only when user-specified
+ Otherwise, re-use old record dimension name
+ 20130222: csz
+ Same routine is called with or without limits
+ Routine works with GTT instead of plain names */
const char fnc_nm[]="nco_cpy_var_dfn_trv()"; /* [sng] Function name */
- char var_nm[NC_MAX_NAME+1]; /* [sng] Variable name (local copy of object name) */
+ char *dmn_nm_fll_out=NULL; /* [sng] Full name of dimension in output */
+ char *grp_dmn_out_fll=NULL; /* [sng] Group name of dimension in output */
char *rec_dmn_nm=NULL; /* [sng] User-specified record dimension name */
char *rec_dmn_nm_mlc=NULL; /* [sng] Local copy of rec_dmn_nm_cst, which may be encoded */
- char *grp_dmn_out_fll=NULL; /* [sng] Group name of dimension in output */
- char *dmn_nm_fll_out=NULL; /* [sng] Full name of dimension in output */
char dmn_nm[NC_MAX_NAME+1]; /* [sng] Dimension name */
char dmn_nm_grp[NC_MAX_NAME+1]; /* [sng] Dimension name for group */
+ char var_nm[NC_MAX_NAME+1]; /* [sng] Variable name (local copy of object name) */
+
+ dmn_cmn_sct dmn_cmn[NC_MAX_DIMS]; /* [sct] Dimension information on output (for a variable) */
+ dmn_trv_sct *dmn_trv; /* [sct] Unique dimension object */
+
+ int *dmn_idx_in_out; /* [idx] Dimension correspondence, input->output (ncpdq) */
int *dmn_in_id_var; /* [id] Dimension IDs array for input variable */
- int dmn_out_id[NC_MAX_DIMS]; /* [id] Dimension IDs array for output variable */
int *dmn_out_id_grp; /* [id] Dimension IDs array in output group */
- int *dmn_idx_in_out; /* [idx] Dimension correspondence, input->output (ncpdq) */
int *dmn_out_id_tmp; /* [idx] Copy of dmn_out_id (ncpdq) */
- int rec_dmn_out_id; /* [id] Record dimension for output variable */
- int var_in_id; /* [id] Variable ID */
- int var_out_id; /* [id] Variable ID */
+ int *udm_out_id_grp; /* [enm] Unlimited dimension IDs */
+ int dmn_id_out; /* [id] Dimension ID defined in outout group */
+ int dmn_out_id[NC_MAX_DIMS]; /* [id] Dimension IDs array for output variable */
int fl_fmt; /* [enm] Output file format */
+ int grp_dmn_out_id; /* [id] Group ID where dimension visible to specified group is defined */
+ int grp_in_id; /* [id] Group ID */
+ int grp_out_id; /* [id] Group ID */
+ int idx_dmn_out; /* [idx] Index for output dimensions */
+ int idx_udm_grp; /* [idx] Index for unlimited dimensions */
+ int nbr_dmn_out_grp; /* [id] Number of dimensions in group */
int nbr_dmn_var; /* [nbr] Number of dimensions for variable */
int nbr_dmn_var_out; /* [nbr] Number of dimensions for variable on output ( can change for ncwa) */
- int rcd=NC_NOERR; /* [rcd] Return code */
+ int nbr_udm_out_grp; /* [nbr] Number of unlimited dimensions */
int nco_prg_id; /* [enm] Program ID */
- int rec_id_out; /* [id] Dimension ID for ncecat "record" dimension */
- int grp_dmn_out_id; /* [id] Group ID where dimension visible to specified group is defined */
+ int rcd=NC_NOERR; /* [rcd] Return code */
int rcd_lcl; /* [rcd] Return code */
+ int rec_dmn_out_id; /* [id] Record dimension for output variable */
+ int rec_id_out; /* [id] Dimension ID for ncecat "record" dimension */
int var_dim_id; /* [id] Variable dimension ID */
- int dmn_id_out; /* [id] Dimension ID defined in outout group */
- int nbr_dmn_out_grp; /* [id] Number of dimensions in group */
- int grp_in_id; /* [id] Group ID */
- int grp_out_id; /* [id] Group ID */
+ int var_in_id; /* [id] Variable ID */
+ int var_out_id; /* [id] Variable ID */
long dmn_cnt; /* [nbr] Hyperslabbed size of dimension */
long dmn_sz; /* [nbr] Size of dimension (on input) */
@@ -4353,10 +4355,6 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
nco_bool NEED_TO_DEFINE_DIM; /* [flg] Dimension needs to be defined in *this* group */
nco_bool DEFINE_DIM[NC_MAX_DIMS]; /* [flg] Defined dimension (always True, except for ncwa) */
- dmn_trv_sct *dmn_trv; /* [sct] Unique dimension object */
-
- dmn_cmn_sct dmn_cmn[NC_MAX_DIMS]; /* [sct] Dimension information on output (for a variable) */
-
rec_dmn_out_id=NCO_REC_DMN_UNDEFINED;
for(int idx_dmn=0;idx_dmn<NC_MAX_DIMS;idx_dmn++) dmn_out_id[idx_dmn]=NCO_REC_DMN_UNDEFINED;
@@ -4443,7 +4441,7 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
/* Does user want a record dimension to receive special handling? */
if(rec_dmn_nm_cst){
/* Create (and later free()) local copy to preserve const-ness of passed value
- For simplicity, work with canonical name rec_dmn_nm */
+ For simplicity, work with canonical name rec_dmn_nm */
rec_dmn_nm_mlc=strdup(rec_dmn_nm_cst);
/* Parse rec_dmn_nm argument */
if(!strcmp("fix_all",rec_dmn_nm_mlc)){
@@ -4473,11 +4471,6 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
if(!FIX_ALL_REC_DMN){
int rec_dmn_id_dmy;
rcd=nco_inq_dimid_flg(grp_in_id,rec_dmn_nm,&rec_dmn_id_dmy);
- /* Record name not found in this group */
- if(rcd != NC_NOERR){
- /* Nothing to do, error cheking for invalid dimension names was made at start */
- } /* endif rcd != NC_NOERR */
-
if(rcd == NC_NOERR){
/* Does variable contain requested record dimension? */
for(int idx_dmn=0;idx_dmn<nbr_dmn_var;idx_dmn++){
@@ -4520,16 +4513,14 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
/* Get unique dimension object from unique dimension ID, in input list */
dmn_trv=nco_dmn_trv_sct(var_dim_id,trv_tbl);
- /* Test group existence before testing dimension existence */
-
/* Determine where to place new dimension in output file */
if(nco_prg_id == ncge){
grp_dmn_out_fll=(char *)strdup(grp_out_fll);
}else{
if(gpe) grp_dmn_out_fll=nco_gpe_evl(gpe,dmn_trv->grp_nm_fll); else grp_dmn_out_fll=(char *)strdup(dmn_trv->grp_nm_fll);
- }
+ } /* !ncge */
- /* Test existence of group and create if not existent */
+ /* Test existence of group and create if necessary */
if(nco_inq_grp_full_ncid_flg(nc_out_id,grp_dmn_out_fll,&grp_dmn_out_id)) nco_def_grp_full(nc_out_id,grp_dmn_out_fll,&grp_dmn_out_id);
/* Inquire if dimension defined in output using obtained group ID (return value not used in logic) */
@@ -4539,15 +4530,17 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
if(rcd_lcl == NC_NOERR) (void)fprintf(stdout,"%s: DEBUG %s dimension is visible (by parents or group) #%d<%s>\n",nco_prg_nm_get(),fnc_nm,var_dim_id,dmn_trv->nm_fll); else (void)fprintf(stdout,"%s: DEBUG %s dimension is not visible (by parents or group) #%d<%s>\n",nco_prg_nm_get(),fnc_nm,var_dim_id,dmn_trv->nm_fll);
} /* endif dbg */
- (void)nco_inq_dimids(grp_dmn_out_id,&nbr_dmn_out_grp,NULL,0);
-
- /* Alloc array */
+ /* Check output group (only, not parent) dimensions */
+ (void)nco_inq_dimids(grp_dmn_out_id,&nbr_dmn_out_grp,(int *)NULL,0);
dmn_out_id_grp=(int *)nco_malloc(nbr_dmn_out_grp*sizeof(int));
-
- /* Check output group (only) dimensions */
(void)nco_inq_dimids(grp_dmn_out_id,&nbr_dmn_out_grp,dmn_out_id_grp,0);
- /* Loop output group defined dimensions to check if dimension is already defined */
+ /* Get unlimited dimension IDs for output group */
+ (void)nco_inq_unlimdims(grp_dmn_out_id,&nbr_udm_out_grp,(int *)NULL);
+ udm_out_id_grp=(int *)nco_malloc(nbr_udm_out_grp*sizeof(int));
+ (void)nco_inq_unlimdims(grp_dmn_out_id,&nbr_udm_out_grp,udm_out_id_grp);
+
+ /* Is dimension is already defined? */
for(int idx_dmn_grp=0;idx_dmn_grp<nbr_dmn_out_grp;idx_dmn_grp++){
/* Get dimension name and size from ID */
@@ -4559,10 +4552,16 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
dmn_id_out=dmn_out_id_grp[idx_dmn_grp];
/* Assign defined ID to dimension ID array for variable */
dmn_out_id[idx_dmn]=dmn_id_out;
- } /* strcmp() */
- } /* Loop group defined dimensions */
+ /* Type of dimension may be different in input file than output file (e.g., --fix_rec_dim already applied) */
+ for(idx_udm_grp=0;idx_udm_grp<nbr_udm_out_grp;idx_udm_grp++)
+ if(dmn_id_out == udm_out_id_grp[idx_udm_grp]) break;
+ if(idx_udm_grp < nbr_udm_out_grp) dmn_cmn[idx_dmn].is_rec_dmn=True; else dmn_cmn[idx_dmn].is_rec_dmn=False;
+
+ } /* strcmp() */
+ } /* end loop over dimensions */
dmn_out_id_grp=(int *)nco_free(dmn_out_id_grp);
+ udm_out_id_grp=(int *)nco_free(udm_out_id_grp);
/* Define dimension in output file if necessary */
if(NEED_TO_DEFINE_DIM){
@@ -4574,9 +4573,9 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
} /* endif dbg */
/* Here begins a complex tree to decide a simple, binary output:
- Will current input dimension be defined as an output record dimension or as a fixed dimension?
- Decision tree outputs flag DFN_CRR_DMN_AS_REC_IN_OUTPUT that controls subsequent netCDF actions
- Otherwise would repeat netCDF action code too many times */
+ Will current input dimension be defined as an output record dimension or as a fixed dimension?
+ Decision tree outputs flag DFN_CRR_DMN_AS_REC_IN_OUTPUT that controls subsequent netCDF actions
+ Otherwise would repeat netCDF action code too many times */
/* Is dimension unlimited in input file? Handy unique dimension has all this info */
CRR_DMN_IS_REC_IN_INPUT=dmn_trv->is_rec_dmn;
@@ -4597,30 +4596,30 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
if(CRR_DMN_IS_REC_IN_INPUT) DFN_CRR_DMN_AS_REC_IN_OUTPUT=True; else DFN_CRR_DMN_AS_REC_IN_OUTPUT=False;
}else{ /* !FIX_REC_DMN */
/* ... otherwise we are in the --mk_rec_dmn case where things get complicated ...
- This dimension can be a record dimension only if it would not conflict with the requested
- record dimension being defined a record dimension, and that depends on file format. Uggh.
- 1. netCDF3 API allows only one record-dimension so conflicts are possible
- 2. netCDF4 API permits any number of unlimited dimensions so conflicts are impossible */
+ This dimension can be a record dimension only if it would not conflict with the requested
+ record dimension being defined a record dimension, and that depends on file format. Uggh.
+ 1. netCDF3 API allows only one record-dimension so conflicts are possible
+ 2. netCDF4 API permits any number of unlimited dimensions so conflicts are impossible */
if(fl_fmt == NC_FORMAT_NETCDF4){
/* ... no conflicts possible so define dimension in output same as in input ... */
if(CRR_DMN_IS_REC_IN_INPUT) DFN_CRR_DMN_AS_REC_IN_OUTPUT=True; else DFN_CRR_DMN_AS_REC_IN_OUTPUT=False;
}else{ /* !netCDF4 */
/* ... output file adheres to netCDF3 API so there can be only one record dimension.
- In other words, define all other dimensions as fixed, non-record dimensions, even
- if they are a record dimension in the input file ... */
+ In other words, define all other dimensions as fixed, non-record dimensions, even
+ if they are a record dimension in the input file ... */
if(CRR_DMN_IS_REC_IN_INPUT) (void)fprintf(stderr,"%s: INFO %s is defining dimension %s as fixed (non-record) in output file even though it is a record dimension in the input file. This is necessary to satisfy user request that %s be the record dimension in the output file which adheres to the netCDF3 API that permits only one record dimension.\n",nco_prg_nm_get(),fnc_nm,dmn_nm,rec_dmn_nm);
DFN_CRR_DMN_AS_REC_IN_OUTPUT=False;
} /* !netCDF4 */
/* Impose special cases to limit production of excessive additional record dimensions
- How might excessive additional record dimensions be produced?
- ncpdq reorders try to preserve the "record" property of record variables
- ncpdq tries to define as a record dimension whichever dimension ends up first in a record variable, and, in netCDF4 files, this becomes an additional record dimension unless the original record dimension is changed to a fixed dimension (as must be done in netCDF3 files).
- ncecat (in record aggregate mode) defines a new leading record dimension
- In netCDF4 files this becomes an additional record dimension unless the original record dimension is changed to a fixed dimension (as must be done in netCDF3 files).
- Easier if ncpdq and ncecat do not increase number of record dimensions in a variable
- So NCO defaults to prevent production of additional record dimensions by ncecat, ncpdq
- User can override this with --mrd (multiple record dimension) switch */
+ How might excessive additional record dimensions be produced?
+ ncpdq reorders try to preserve the "record" property of record variables
+ ncpdq tries to define as a record dimension whichever dimension ends up first in a record variable, and, in netCDF4 files, this becomes an additional record dimension unless the original record dimension is changed to a fixed dimension (as must be done in netCDF3 files).
+ ncecat (in record aggregate mode) defines a new leading record dimension
+ In netCDF4 files this becomes an additional record dimension unless the original record dimension is changed to a fixed dimension (as must be done in netCDF3 files).
+ Easier if ncpdq and ncecat do not increase number of record dimensions in a variable
+ So NCO defaults to prevent production of additional record dimensions by ncecat, ncpdq
+ User can override this with --mrd (multiple record dimension) switch */
/* Undefine dimension as record if current dimension (e.g., name "time") is also record */
if(nco_prg_id == ncecat || nco_prg_id == ncpdq)
@@ -4650,16 +4649,12 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
}else{ /* Get size from GTT */
/* Update output dimension info */
dmn_cmn[idx_dmn].is_rec_dmn=False;
- if(var_trv->var_dmn[idx_dmn].is_crd_var){
- dmn_cnt=var_trv->var_dmn[idx_dmn].crd->lmt_msa.dmn_cnt;
- }else{ /* !is_crd_var */
- dmn_cnt=var_trv->var_dmn[idx_dmn].ncd->lmt_msa.dmn_cnt;
- } /* !is_crd_var */
+ if(var_trv->var_dmn[idx_dmn].is_crd_var) dmn_cnt=var_trv->var_dmn[idx_dmn].crd->lmt_msa.dmn_cnt; else dmn_cnt=var_trv->var_dmn[idx_dmn].ncd->lmt_msa.dmn_cnt;
/* 20140108: Converting variables with multiple record dimensions and empty input to all fixed dimensions and netCDF3 output
- Empty input means size is zero so dmn_cnt looks like NC_UNLIMITED, i.e., a record dimension
- In other words, there is no good way to "fix" a record dimension for a variable with no records/data
- Workaround is to arbitrarily assign such dimensions a size of 1 so they are fixed output, and still have no data
- This ugly hack seems to work and is only invoked in this extreme corner case so may be OK */
+ Empty input means size is zero so dmn_cnt looks like NC_UNLIMITED, i.e., a record dimension
+ In other words, there is no good way to "fix" a record dimension for a variable with no records/data
+ Workaround is to arbitrarily assign such dimensions a size of 1 so they are fixed output, and still have no data
+ This ugly hack seems to work and is only invoked in this extreme corner case so may be OK */
if(dmn_cnt == 0) dmn_cnt=1L;
/* Update GTT dimension */
(void)nco_dmn_set_msa(var_dim_id,dmn_cnt,trv_tbl);
@@ -4695,25 +4690,18 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
/* 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_dev){
- (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);
- }
+ if(nco_dbg_lvl_get() == nco_dbg_dev) (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);
/* Assign defined ID to dimension ID array for the variable */
dmn_out_id[idx_dmn]=dmn_id_out;
} /* !DEFINE_DIM */
- } /* end if dimension is not yet defined */
+ } /* !NEED_TO_DEFINE_DIM */
- /* pvn 20140824 Always redefine output dimension array; repeat logic above regarding value of "dmn_cnt"
- for both non ncwa and ncwa cases */
+ /* pvn 20140824 Always redefine output dimension array; repeat logic above regarding value of "dmn_cnt" for both non ncwa and ncwa cases */
if(nco_prg_id != ncwa){
- if(var_trv->var_dmn[idx_dmn].is_crd_var){
- dmn_cnt=var_trv->var_dmn[idx_dmn].crd->lmt_msa.dmn_cnt;
- }else{ /* !is_crd_var */
- dmn_cnt=var_trv->var_dmn[idx_dmn].ncd->lmt_msa.dmn_cnt;
- } /* !is_crd_var */
- } else if(nco_prg_id == ncwa){
+ if(var_trv->var_dmn[idx_dmn].is_crd_var) dmn_cnt=var_trv->var_dmn[idx_dmn].crd->lmt_msa.dmn_cnt; else dmn_cnt=var_trv->var_dmn[idx_dmn].ncd->lmt_msa.dmn_cnt;
+ }else{
/* Degenerate dimensions */
for(int idx_dmn_dgn=0;idx_dmn_dgn<trv_tbl->nbr_dmn_dgn;idx_dmn_dgn++){
/* Compare ID */
@@ -4727,7 +4715,7 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
if(var_trv->var_dmn[idx_dmn].flg_rdd){
/* If dimension was to be record keep it that way, otherwise define degenerate size of 1 */
if(DFN_CRR_DMN_AS_REC_IN_OUTPUT) dmn_cnt=NC_UNLIMITED; else dmn_cnt=1L;
- }
+ } /* endif */
} /* !ncwa */
/* Construct full dimension name using the full group name */
@@ -4753,10 +4741,8 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
/* If variable needs dimension re-ordering */
if(var_trv->flg_rdr){
-
/* Must be ncpdq */
assert(nco_prg_id == ncpdq);
-
for(int dmn_out_idx=0;dmn_out_idx<nbr_dmn_var;dmn_out_idx++)
dmn_idx_in_out[var_trv->dmn_idx_out_in[dmn_out_idx]]=dmn_out_idx;
@@ -4765,14 +4751,13 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
for(int dmn_out_idx=0;dmn_out_idx<nbr_dmn_var;dmn_out_idx++)
dmn_out_id[dmn_idx_in_out[dmn_out_idx]]=dmn_out_id_tmp[dmn_out_idx];
-
} /* !var_trv->rdr */
if(nco_prg_id == ncecat && rec_dmn_nm && var_trv->enm_prc_typ == prc_typ){
/* Insert extra "record" dimension in dimension array if...
- ...is ncecat and
- ...user requested (with --fix_rec_dmn or --mk_rec_dmn) to treat a certain dimension specially and
- ...variable is processing type */
+ ...is ncecat and
+ ...user requested (with --fix_rec_dmn or --mk_rec_dmn) to treat a certain dimension specially and
+ ...variable is processing type */
/* Temporary store for old IDs */
int dmn_tmp_id[NC_MAX_DIMS];
@@ -4853,29 +4838,18 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
/* If output dimensions array exists */
if(dmn_cmn_out != NULL && nco_prg_id == ncks){
- nco_bool dmn_flg=False;
-
- /* Loop over each dimension in variable */
for(int idx_dmn=0;idx_dmn<nbr_dmn_var;idx_dmn++){
- /* Loop constructed array of output dimensions to see if already inserted */
- for(int idx_dmn_out=0;idx_dmn_out<*nbr_dmn_cmn_out;idx_dmn_out++){
+ /* Is output dimension already in output file? Match by dimension ID since dimension IDs are unique */
+ for(idx_dmn_out=0;idx_dmn_out<*nbr_dmn_cmn_out;idx_dmn_out++)
+ if((*dmn_cmn_out)[idx_dmn_out].id == dmn_cmn[idx_dmn].id) break;
- /* Match by ID */
- if((*dmn_cmn_out)[idx_dmn_out].id == dmn_cmn[idx_dmn].id){
- dmn_flg=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(!dmn_flg){
-
- int nbr_dmn_out_tmp = *nbr_dmn_cmn_out;
+ /* If this dimension is not yet in output array */
+ if(idx_dmn_out == *nbr_dmn_cmn_out){
+ int nbr_dmn_out_tmp=*nbr_dmn_cmn_out;
- /* Add one more element to array */
+ /* Add one more element to array */
(*dmn_cmn_out)=(dmn_cmn_sct *)nco_realloc((*dmn_cmn_out),(nbr_dmn_out_tmp+1)*sizeof(dmn_cmn_sct));
-
(*dmn_cmn_out)[nbr_dmn_out_tmp].id=dmn_cmn[idx_dmn].id;
(*dmn_cmn_out)[nbr_dmn_out_tmp].nm_fll=(char *)strdup(dmn_cmn[idx_dmn].nm_fll);
strcpy((*dmn_cmn_out)[nbr_dmn_out_tmp].nm,dmn_cmn[idx_dmn].nm);
@@ -4883,18 +4857,18 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
(*dmn_cmn_out)[nbr_dmn_out_tmp].is_rec_dmn=dmn_cmn[idx_dmn].is_rec_dmn;
(*dmn_cmn_out)[nbr_dmn_out_tmp].NON_HYP_DMN=dmn_cmn[idx_dmn].NON_HYP_DMN;
(*dmn_cmn_out)[nbr_dmn_out_tmp].sz=dmn_cmn[idx_dmn].sz;
-
nbr_dmn_out_tmp++;
*nbr_dmn_cmn_out=nbr_dmn_out_tmp;
if(nco_dbg_lvl_get() == nco_dbg_old) (void)fprintf(stdout,"%s: DEBUG %s Inserted dimension #%d to output list\n",nco_prg_nm_get(),fnc_nm,dmn_cmn[idx_dmn].id);
- } /* If this dimension is not in output array */
- } /* Loop over each dimension in variable */
- } /* If output dimensions array exists */
+ } /* endif */
+ } /* end loop over dimensions */
+ } /* endif dmn_cmn_out */
/* Duplicate netCDF4 settings when possible */
if(fl_fmt == NC_FORMAT_NETCDF4 || fl_fmt == NC_FORMAT_NETCDF4_CLASSIC){
+
/* Deflation */
if(nbr_dmn_var > 0){
int deflate; /* [flg] Turn on deflate filter */
@@ -4910,72 +4884,67 @@ nco_cpy_var_dfn_trv /* [fnc] Define specified variable in output
if(dfl_lvl >= 0) (void)nco_def_var_deflate(grp_out_id,var_out_id,shuffle,deflate,dfl_lvl);
} /* endif */
- /* Chunking routine called only when user explicitly sets a chunking option */
- if(cnk && cnk->flg_usr_rqs){
-
- /* Define extra dimension on output (e.g., ncecat adds "record" dimension) */
- if(nco_prg_id == ncecat && rec_dmn_nm && var_trv->enm_prc_typ == prc_typ){
- /* Temporary store for old dimensions */
- dmn_cmn_sct dmn_cmn_tmp[NC_MAX_DIMS];
- for(int idx_dmn=0;idx_dmn<nbr_dmn_var_out;idx_dmn++) dmn_cmn_tmp[idx_dmn]=dmn_cmn[idx_dmn];
- /* Define record dimension made for ncecat */
- dmn_cmn[0].sz=NC_UNLIMITED;
- dmn_cmn[0].is_rec_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 */
- dmn_cmn[0].nm_fll=nco_bld_nm_fll(var_trv->grp_nm_fll,rec_dmn_nm);
- /* Move up to make room for inserted dimension at 0 index */
- for(int idx_dmn=0;idx_dmn<nbr_dmn_var_out;idx_dmn++) dmn_cmn[idx_dmn+1]=dmn_cmn_tmp[idx_dmn];
- } /* !ncecat */
-
- /* Special case for ncwa */
- if(nco_prg_id == ncwa){
- int idx_dmn_def=0;
- /* Loop dimensions. NB use original input dimensions for this loop */
- for(int idx_dmn=0;idx_dmn<var_trv->nbr_dmn;idx_dmn++){
- if(DEFINE_DIM[idx_dmn]){
- /* Redefine the array */
- dmn_cmn[idx_dmn_def]=dmn_cmn[idx_dmn];
- idx_dmn_def++;
- } /* DEFINE_DIM[idx_dmn]) */
- } /* Loop dimensions */
- } /* !ncwa */
-
- /* Special case for ncpdq */
- if(nco_prg_id == ncpdq && nbr_dmn_var > 1){
- int var_id_out; /* [id] Variable ID */
- int var_dmn_nbr; /* [nbr] Number of dimensions */
- int var_dimid[NC_MAX_VAR_DIMS]; /* [lst] Dimension IDs */
- (void)nco_inq_varid(grp_out_id,var_trv->nm,&var_id_out);
- (void)nco_inq_var(grp_out_id,var_id_out,var_nm,&var_typ,&var_dmn_nbr,var_dimid,NULL);
- /* Sanity check */
- assert(nbr_dmn_var == var_trv->nbr_dmn);
- assert(nbr_dmn_var == var_dmn_nbr);
- /* Loop dimensions */
- for(int idx_dmn=0;idx_dmn<nbr_dmn_var;idx_dmn++){
- (void)nco_inq_dim(grp_out_id,var_dimid[idx_dmn],dmn_nm,&dmn_sz);
- /* If output dimension name differs from input there was a swap */
- if(strcmp(dmn_nm,dmn_cmn[idx_dmn].nm)){
- /* Swap array for these 2 names */
- (void)nco_dmn_swap(dmn_nm,dmn_cmn[idx_dmn].nm,dmn_cmn,nbr_dmn_var);
- } /* endif */
- } /* idx_dmn */
- } /* !ncpdq */
-
- /* Set chunksize parameters */
- (void)nco_cnk_sz_set_trv(grp_in_id,grp_out_id,cnk,var_trv->nm,dmn_cmn);
-
- if(nco_prg_id == ncecat && rec_dmn_nm && var_trv->enm_prc_typ == prc_typ) dmn_cmn[0].nm_fll=(char *)nco_free(dmn_cmn[0].nm_fll);
-
- } /* !flg_usr_rqs */
-
+ /* 20141013 Previously called chunking only when user selected a chunking switch
+ Now always call chunking because default is to preserve input chunking
+ This requires explicitly overriding netCDF defaults */
+
+ /* Define extra dimension on output (e.g., ncecat adds "record" dimension) */
+ if(nco_prg_id == ncecat && rec_dmn_nm && var_trv->enm_prc_typ == prc_typ){
+ /* Temporary store for old dimensions */
+ dmn_cmn_sct dmn_cmn_tmp[NC_MAX_DIMS];
+ for(int idx_dmn=0;idx_dmn<nbr_dmn_var_out;idx_dmn++) dmn_cmn_tmp[idx_dmn]=dmn_cmn[idx_dmn];
+ /* Define record dimension made for ncecat */
+ dmn_cmn[0].sz=NC_UNLIMITED;
+ dmn_cmn[0].is_rec_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 */
+ dmn_cmn[0].nm_fll=nco_bld_nm_fll(var_trv->grp_nm_fll,rec_dmn_nm);
+ /* Make room for inserted dimension at 0 index */
+ for(int idx_dmn=0;idx_dmn<nbr_dmn_var_out;idx_dmn++) dmn_cmn[idx_dmn+1]=dmn_cmn_tmp[idx_dmn];
+ } /* !ncecat */
+
+ /* Special case for ncwa */
+ if(nco_prg_id == ncwa){
+ int idx_dmn_def=0;
+ /* Loop over input dimensions */
+ for(int idx_dmn=0;idx_dmn<var_trv->nbr_dmn;idx_dmn++){
+ if(DEFINE_DIM[idx_dmn]){
+ /* Redefine the array */
+ dmn_cmn[idx_dmn_def]=dmn_cmn[idx_dmn];
+ idx_dmn_def++;
+ } /* DEFINE_DIM[idx_dmn]) */
+ } /* Loop dimensions */
+ } /* !ncwa */
+
+ /* Special case for ncpdq */
+ if(nco_prg_id == ncpdq && nbr_dmn_var > 1){
+ int var_id_out; /* [id] Variable ID */
+ int var_dmn_nbr; /* [nbr] Number of dimensions */
+ int var_dimid[NC_MAX_VAR_DIMS]; /* [lst] Dimension IDs */
+ (void)nco_inq_varid(grp_out_id,var_trv->nm,&var_id_out);
+ (void)nco_inq_var(grp_out_id,var_id_out,var_nm,&var_typ,&var_dmn_nbr,var_dimid,NULL);
+ /* Sanity check */
+ assert(nbr_dmn_var == var_trv->nbr_dmn);
+ assert(nbr_dmn_var == var_dmn_nbr);
+ for(int idx_dmn=0;idx_dmn<nbr_dmn_var;idx_dmn++){
+ (void)nco_inq_dim(grp_out_id,var_dimid[idx_dmn],dmn_nm,&dmn_sz);
+ /* If output dimension name differs from input there was a swap, so swap array for these two names */
+ if(strcmp(dmn_nm,dmn_cmn[idx_dmn].nm)) (void)nco_dmn_swap(dmn_nm,dmn_cmn[idx_dmn].nm,dmn_cmn,nbr_dmn_var);
+ } /* idx_dmn */
+ } /* !ncpdq */
+
+ /* Set chunksize parameters */
+ (void)nco_cnk_sz_set_trv(grp_in_id,grp_out_id,cnk,var_trv->nm,dmn_cmn);
+
+ if(nco_prg_id == ncecat && rec_dmn_nm && var_trv->enm_prc_typ == prc_typ) dmn_cmn[0].nm_fll=(char *)nco_free(dmn_cmn[0].nm_fll);
+
} /* !NC_FORMAT_NETCDF4 */
-
+
/* Free locally allocated space */
if(rec_dmn_nm_mlc) rec_dmn_nm_mlc=(char *)nco_free(rec_dmn_nm_mlc);
-
+
dmn_in_id_var=(int *)nco_free(dmn_in_id_var);
dmn_idx_in_out=(int *)nco_free(dmn_idx_in_out);
dmn_out_id_tmp=(int *)nco_free(dmn_out_id_tmp);
@@ -5836,10 +5805,10 @@ nco_dmn_msa_tbl /* [fnc] Update all GTT dimensions with hy
const char fnc_nm[]="nco_dmn_msa_tbl()"; /* [sng] Function name */
- char var_nm[NC_MAX_NAME+1]; /* [sng] Variable name (local copy of object name) */
+ char var_nm[NC_MAX_NAME+1L]; /* [sng] Variable name (local copy of object name) */
char *rec_dmn_nm=NULL; /* [sng] User-specified record dimension name */
char *rec_dmn_nm_mlc=NULL; /* [sng] Local copy of rec_dmn_nm_cst, which may be encoded */
- char dmn_nm[NC_MAX_NAME+1]; /* [sng] Dimension names */
+ char dmn_nm[NC_MAX_NAME+1L]; /* [sng] Dimension names */
int *dmn_in_id_var; /* [id] Dimension IDs array for input variable */
int var_in_id; /* [id] Variable ID */
@@ -6203,8 +6172,6 @@ nco_dmn_avg_mk /* [fnc] Build dimensions to average(ncwa
char *usr_sng; /* [sng] User-supplied object name */
- nco_bool flg_dmn_ins; /* [flg] Is dimension already inserted in output array */
-
int obj_nbr; /* [nbr] Number of objects in list */
int nbr_avg_dmn; /* [nbr] Number of dimensions to average (output) */
@@ -6270,82 +6237,77 @@ nco_dmn_avg_mk /* [fnc] Build dimensions to average(ncwa
/* Must meet necessary flags */
nco_bool pth_mth=nco_pth_mch(dmn_nm_fll,dmn_nm,usr_sng);
- if(pth_mth){
-
- 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]->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 */
+ if(pth_mth){
+ int idx_dmn_out; /* [idx] Index for output dimensions */
+
+ /* Is dimension already in output array?
+ Match by dimension ID since dimension IDs are unique */
+ for(idx_dmn_out=0;idx_dmn_out<nbr_avg_dmn;idx_dmn_out++)
+ if(dmn_id == (*dmn_avg)[idx_dmn_out]->id) break;
+
+ /* If this dimension is not yet in output array */
+ if(idx_dmn_out == nbr_avg_dmn){
+
+ /* 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;
+ } /* end else */
+
+ (*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 */
} /* Loop input dimension name list */
-
- /* Export */
+
+ /* Export */
*nbr_dmn_avg=nbr_avg_dmn;
-
+
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 */
-
+
return;
-
+
} /* nco_dmn_avg_mk() */
void
@@ -6711,8 +6673,8 @@ nco_bld_trv_tbl /* [fnc] Construct GTT, Group Traversal Ta
Return value: Check for valid input; NC_NOERR (0) or > 0 for a user input error, used to go to close_and_free on main
Notes:
- * Dimension limit structures are handled internally in this function and not exported
- * Call sequence is important:
+ Dimension limit structures are handled internally in this function and not exported
+ Call sequence is important:
1) nco_trv_hsh_bld() must be called after nco_grp_itr() because other functions use hash table
2) nco_grp_itr() must be first, main iterator function. Then
nco_bld_dmn_ids_trv()
@@ -6782,6 +6744,10 @@ nco_bld_trv_tbl /* [fnc] Construct GTT, Group Traversal Ta
/* Is this a CCM/CCSM/CF-format history tape? */
CNV_CCM_CCSM_CF=nco_cnv_ccm_ccsm_cf_inq(nc_id);
+ if(!CNV_CCM_CCSM_CF && aux_nbr){
+ (void)fprintf(stderr,"%s: WARNING -X option selected on input lacking global \"Conventions=CF-1.X\" attribute. Assuming CF-compliance intended in order to exploit -X. HINT: To fix this warning, add conformant Conventions attribute with, e.g., \"ncatted -a Conventions,global,c,c,CF-1.0 in.nc\"\n",nco_prg_nm_get());
+ CNV_CCM_CCSM_CF=True;
+ } /* endif */
if(CNV_CCM_CCSM_CF && EXTRACT_ASSOCIATED_COORDINATES){
/* Implement CF "ancillary_variables", "bounds", and "coordinates" */
(void)nco_xtr_cf_add(nc_id,"ancillary_variables",trv_tbl);
@@ -6795,7 +6761,7 @@ nco_bld_trv_tbl /* [fnc] Construct GTT, Group Traversal Ta
/* Mark extracted groups */
(void)nco_xtr_grp_mrk(trv_tbl);
- /* Parse auxiliary coordinates and build found limits directly into table (auxiliary limits are not merged into regular limits ) */
+ /* Parse auxiliary coordinates and build found limits directly into table (auxiliary limits are not merged into regular limits) */
if(aux_nbr) (void)nco_prs_aux_crd(nc_id,aux_nbr,aux_arg,FORTRAN_IDX_CNV,MSA_USR_RDR,EXTRACT_ASSOCIATED_COORDINATES,trv_tbl);
/* Add dimension limits */
@@ -6995,6 +6961,7 @@ 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.NON_HYP_DMN=False;
@@ -7114,6 +7081,7 @@ nco_bld_lmt /* [fnc] Assign user specified dimension l
dmn_trv_sct *ncd=trv_tbl->lst[idx_tbl].var_dmn[idx_var_dmn].ncd;
+
/* Adapted from the original MSA loop in nco_msa_lmt_all_ntl(); differences are marked GTT specific */
nco_bool flg_ovl; /* [flg] Limits overlap */
@@ -7685,7 +7653,7 @@ nco_grp_var_lst /* [fnc] Export list of variable names fo
{
/* Purpose: Export list of variable names for group */
- char var_nm[NC_MAX_NAME+1]; /* [sng] Variable name */
+ char var_nm[NC_MAX_NAME+1L]; /* [sng] Variable name */
int nbr_var; /* [nbr] Number of variables */
int grp_id; /* [id] Group ID */
@@ -7726,7 +7694,7 @@ nco_var_has_cf /* [fnc] Variable has CF-compliant attribu
const char dlm_sng[]=" "; /* [sng] Delimiter string */
char **cf_lst; /* [sng] 1D array of list elements */
- char att_nm[NC_MAX_NAME+1]; /* [sng] Attribute name */
+ char att_nm[NC_MAX_NAME+1L]; /* [sng] Attribute name */
int grp_id; /* [id] Group ID */
int nbr_att; /* [nbr] Number of attributes */
@@ -7816,7 +7784,6 @@ nco_cmp_aux_crd_dpt /* [fnc] Compare two aux_crd_sct's by gro
} /* nco_cmp_aux_crd_dpt() */
-
void
nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
(const int nc_id, /* I [ID] netCDF file ID */
@@ -7840,41 +7807,39 @@ nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
/* 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);
- }
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s variable with auxiliary coordinates <%s>\n",nco_prg_nm_get(),fnc_nm,
+ trv_tbl->lst[idx_tbl].nm_fll);
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 */
+ 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 */
trv_sct *lat_trv=NULL;
trv_sct *lon_trv=NULL;
- /* Loop dimensions, look for latitude */
+ /* Loop dimensions, look for latitude */
for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
- /* Has 'latitude' auxiliary coordinates */
+ /* 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 */
+ } /* Has 'latitude' auxiliary coordinates */
+ } /* Loop dimensions, look for latitude */
- /* Loop dimensions, look for longitude */
+ /* Loop dimensions, look for longitude */
for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++){
- /* Has 'longitude' auxiliary coordinates */
+ /* 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 */
+ } /* Has 'longitude' auxiliary coordinates */
+ } /* Loop dimensions, look for longitude */
/* Auxiliary coordinates found */
if (lat_trv && lon_trv){
@@ -7882,7 +7847,7 @@ nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
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];
+ char units[NC_MAX_NAME+1L];
aux_lmt_nbr=0;
crd_typ=trv_tbl->lst[idx_tbl].var_dmn[dmn_idx_fnd].lat_crd[0].crd_typ;
@@ -7897,17 +7862,14 @@ nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
}
/* Found limits */
- if(aux_lmt_nbr > 0 ){
+ 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);
- }
+ 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) ) */
+ /* 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 */
@@ -7919,12 +7881,22 @@ nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
/* 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) ) */
+ /* 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) */
+ /* 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);
+ if(nco_dbg_lvl_get() == nco_dbg_old)
+ {
+ for(int idx_lmt=0;idx_lmt<lmt_dmn_nbr;idx_lmt++)
+ {
+ (void)fprintf(stdout,"\nlimit index %d\n",idx_lmt);
+ nco_lmt_prt(lmt[idx_lmt]);
+ }
+ }
+
+
} /* Found limits */
/* Free limits exported from nco_aux_evl_trv() */
@@ -7938,7 +7910,6 @@ nco_prs_aux_crd /* [fnc] Parse auxiliary coordinates */
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 */
@@ -7958,16 +7929,10 @@ nco_lmt_aux_tbl /* [fnc] Apply limits to variable in table
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 */
+ for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++)
+ if(dmn_id == var_trv.var_dmn[idx_dmn].dmn_id)
(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 */
@@ -7993,16 +7958,10 @@ nco_lmt_std_att_lat_lon /* [fnc] Apply limits to variable in table
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 */
+ for(int idx_dmn=0;idx_dmn<var_trv.nbr_dmn;idx_dmn++)
+ if(dmn_id == var_trv.var_dmn[idx_dmn].dmn_id)
(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 */
@@ -8022,7 +7981,8 @@ nco_lmt_aux /* [fnc] Apply auxiliary -X limits (Auxili
{
/* a) case where the dimension has coordinate variables */
- if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].crd){
+ 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 */
@@ -8038,8 +7998,7 @@ nco_lmt_aux /* [fnc] Apply auxiliary -X limits (Auxili
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 *));
+ 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;
@@ -8063,7 +8022,7 @@ nco_lmt_aux /* [fnc] Apply auxiliary -X limits (Auxili
} /* Loop limits */
- /* Apply MSA for each Dimension in new cycle (that now has all its limits in place) */
+ /* 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++){
@@ -8071,7 +8030,6 @@ nco_lmt_aux /* [fnc] Apply auxiliary -X limits (Auxili
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 */
@@ -8128,10 +8086,128 @@ nco_lmt_aux /* [fnc] Apply auxiliary -X limits (Auxili
} /* Loop limits */
} /* a) case where the dimension has coordinate variables */
+
+ /* b) Dimension only (no coordinate variable for this dimension) */
+ else if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd)
+ {
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev)
+ {
+
+ }
+
+ /* 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].ncd->lmt_msa.lmt_crr == -1) return;
+
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->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].ncd->lmt_msa.lmt_dmn_nbr++;
+
+ int nbr_lmt=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->lmt_msa.lmt_dmn_nbr;
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->lmt_msa.lmt_dmn=(lmt_sct **)nco_realloc(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->lmt_msa.lmt_dmn,nbr_lmt*sizeof(lmt_sct *));
+
+ dmn_trv_sct *ncd=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd;
+
+ /* Limit is same as dimension in input file? */
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->lmt_msa.NON_HYP_DMN=False;
+
+ /* Parse user-specified limits into hyperslab specifications. NOTE: Use False parameter */
+ (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[idx_lmt]);
+
+ /* Alloc this limit */
+ trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->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].ncd->lmt_msa.lmt_dmn[idx_lmt]);
+
+ /* Store dimension ID */
+ lmt[idx_lmt]->id=ncd->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].ncd->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++)
+ {
+
+ dmn_trv_sct *ncd=trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd;
+
+ /* 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].ncd->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(ncd->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].ncd->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].ncd->lmt_msa.WRP){
+
+ /* Find and store size of output dim */
+ (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->lmt_msa);
+
+ continue;
+ } /* End WRP flag set */
+
+ /* Single slab---no analysis needed */
+ if(trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->lmt_msa.lmt_dmn_nbr == 1){
+
+ (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->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].ncd->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].ncd->lmt_msa);
+
+ continue;
+ } /* End MSA_USR_RDR */
+
+ /* Sort limits */
+ (void)nco_msa_qsort_srt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->lmt_msa);
+
+ /* Check for overlap */
+ flg_ovl=nco_msa_ovl(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->lmt_msa);
+
+ /* Find and store size of output dimension */
+ (void)nco_msa_clc_cnt(&trv_tbl->lst[idx_tbl].var_dmn[idx_dmn].ncd->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(),ncd->nm);
+ else (void)fprintf(stdout,"%s: coordinate \"%s\" has distinct hyperslabs\n",nco_prg_nm_get(),ncd->nm);
+ } /* endif */
+
+ }/* Loop limits */
+
+
+ } /* b) Dimension only (no coordinate variable for this dimension) */
+
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 */
@@ -8139,115 +8215,143 @@ nco_bld_crd_aux /* [fnc] Build auxiliary coordinates infor
{
const char fnc_nm[]="nco_bld_crd_aux()"; /* [sng] Function name */
- /* Look for 'standard_name' 'latitude' and 'longitude' attributes */
-
+ /* Look for attributes 'standard_name' == 'latitude' and 'longitude' */
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;
+ trv_sct var_trv=trv_tbl->lst[idx_var];
- /* 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];
+ char units_lat[NC_MAX_NAME+1L];
+ char units_lon[NC_MAX_NAME+1L];
has_lat=nco_find_lat_lon_trv(nc_id,&var_trv,"latitude",&var_nm_fll,&dmn_id,&crd_typ,units_lat);
- if (has_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 */
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s 'standard_name' attribute is 'latitude' for variable %s with dimension ID = %d\n",nco_prg_nm_get(),fnc_nm,var_trv.nm_fll,dmn_id);
- has_lon=nco_find_lat_lon_trv(nc_id,&var_trv,"longitude",&var_nm_fll,&dmn_id,&crd_typ,units_lon);
+ for(unsigned idx_crd=0;idx_crd<trv_tbl->nbr;idx_crd++){
+ /* Detect 'standard_name' attribute 'latitude' in the compared variable, to avoid inserting it */
+ nco_bool has_lat_lcl=False;
+ nco_bool has_lon_lcl=False;
+ char *var_nm_fll_lcl=NULL;
+ int dmn_id_lcl;
+
+ if(trv_tbl->lst[idx_crd].nco_typ == nco_obj_typ_var){
+ has_lat_lcl=nco_find_lat_lon_trv(nc_id,&trv_tbl->lst[idx_crd],"latitude",&var_nm_fll_lcl,&dmn_id_lcl,&crd_typ,units_lat);
+ has_lon_lcl=nco_find_lat_lon_trv(nc_id,&trv_tbl->lst[idx_crd],"longitude",&var_nm_fll_lcl,&dmn_id_lcl,&crd_typ,units_lon);
+ } /* endif */
- if (has_lon){
+ if(nco_dbg_lvl_get() >= nco_dbg_dev){
+ if(has_lat_lcl) (void)fprintf(stdout,"%s: DEBUG %s \t AVOID 'standard_name' attribute 'latitude' for variable %s with dimension ID = %d\n",nco_prg_nm_get(),fnc_nm,var_nm_fll_lcl,dmn_id_lcl);
+ if(has_lon_lcl) (void)fprintf(stdout,"%s: DEBUG %s \t AVOID 'standard_name' attribute 'longitude' for variable %s with dimension ID = %d\n",nco_prg_nm_get(),fnc_nm,var_nm_fll_lcl,dmn_id_lcl);
+ } /* endif dbg */
+ if(trv_tbl->lst[idx_crd].nco_typ == nco_obj_typ_var &&
+ (!has_lat_lcl && !has_lon_lcl) && /* Avoid inserting 'lat_gds' or 'lon_gds' */
+ !trv_tbl->lst[idx_crd].is_crd_var){
+
+ for(int idx_dmn=0;idx_dmn<trv_tbl->lst[idx_crd].nbr_dmn;idx_dmn++){
+
+ /* Match dimension */
+ int var_dim_id=trv_tbl->lst[idx_crd].var_dmn[idx_dmn].dmn_id;
+ if(var_dim_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)){
+
+ /* Mark the variable (e.g gds_var, gds_3dvar) as containing auxiliary coordinates */
+ trv_tbl->lst[idx_crd].flg_aux=True;
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s reports variable %s has auxiliary coordinates with dimension ID = %d\n",nco_prg_nm_get(),fnc_nm,trv_tbl->lst[idx_crd].nm_fll,var_dim_id);
+
+ /* 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 */
+ } /* variables only */
+ } /* end inner loop over possible coordinates */
+ } /* !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 */
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s 'standard_name' attribute is 'longitude' for variable %s with dimension ID = %d\n",nco_prg_nm_get(),fnc_nm,var_trv.nm_fll,dmn_id);
+
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 */
+ /* Detect 'standard_name' attribute 'latitude' in the compared variable, to avoid inserting it */
+ nco_bool has_lat_lcl=False;
+ nco_bool has_lon_lcl=False;
+ char *var_nm_fll_lcl=NULL;
+ int dmn_id_lcl;
- /* Loop table */
+ if(trv_tbl->lst[idx_crd].nco_typ == nco_obj_typ_var){
+ has_lat_lcl=nco_find_lat_lon_trv(nc_id,&trv_tbl->lst[idx_crd],"latitude",&var_nm_fll_lcl,&dmn_id_lcl,&crd_typ,units_lat);
+ has_lon_lcl=nco_find_lat_lon_trv(nc_id,&trv_tbl->lst[idx_crd],"longitude",&var_nm_fll_lcl,&dmn_id_lcl,&crd_typ,units_lon);
+ } /* endif */
+
+ if(trv_tbl->lst[idx_crd].nco_typ == nco_obj_typ_var &&
+ (!has_lat_lcl && !has_lon_lcl) && /* Avoid inserting 'lat_gds' or 'lon_gds' */
+ !trv_tbl->lst[idx_crd].is_crd_var){
+
+ for(int idx_dmn=0;idx_dmn<trv_tbl->lst[idx_crd].nbr_dmn;idx_dmn++){
+
+ /* Match dimension */
+ int var_dim_id=trv_tbl->lst[idx_crd].var_dmn[idx_dmn].dmn_id;
+ if (var_dim_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)){
+
+ /* Mark the variable (e.g gds_var, gds_3dvar) as containing auxiliary coordinates */
+ trv_tbl->lst[idx_crd].flg_aux=True;
+
+ if(nco_dbg_lvl_get() >= nco_dbg_dev) (void)fprintf(stdout,"%s: DEBUG %s reports variable %s has auxiliary coordinates with dimension ID = %d\n",nco_prg_nm_get(),fnc_nm,trv_tbl->lst[idx_crd].nm_fll,var_dim_id);
+
+ /* 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 */
+ } /* variables only */
+ } /* end inner loop over possible coordinates */
+ } /* has_lon */
+ } /* Filter variables */
+ } /* Loop table 1*/
+
+ /* Sort 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 */
@@ -8255,51 +8359,45 @@ nco_bld_crd_aux /* [fnc] Build auxiliary coordinates infor
assert(trv_tbl->lst[idx_var].nco_typ == nco_obj_typ_var);
- /* Loop dimensions */
+ if(nco_dbg_lvl_get() == nco_dbg_old) (void)fprintf(stdout,"%s: DEBUG %s variable with auxiliary coordinates <%s>\n",nco_prg_nm_get(),fnc_nm,trv_tbl->lst[idx_var].nm_fll);
+
+ /* 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){
+ /* 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 */
+ /* Sort 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);
- }
- }
+ if(nco_dbg_lvl_get() == nco_dbg_old){
+ (void)fprintf(stdout,"%s: DEBUG %s 'latitude' 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);
+ } /* endif dbg */
- } /* Has 'latitude' auxiliary coordinates */
+ } /* Has 'latitude' auxiliary coordinates */
- /* Has 'longitude' auxiliary coordinates */
- if (trv_tbl->lst[idx_var].var_dmn[idx_dmn].nbr_lon_crd){
+ /* 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);
- }
- }
+ if(nco_dbg_lvl_get() == nco_dbg_old){
+ (void)fprintf(stdout,"%s: DEBUG %s 'longitude' 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);
+ } /* endif dbg */
- } /* Has 'longitude' auxiliary coordinates */
- } /* Loop dimensions */
+ } /* Has 'longitude' auxiliary coordinates */
+ } /* Loop dimensions */
} /* Filter variables with auxiliary coordinates */
- } /* Loop table */
+ } /* Loop table */
return;
} /* nco_bld_crd_aux() */
@@ -8447,14 +8545,13 @@ nco_bld_nsm /* [fnc] Build ensembles */
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 */
+ /* Insert ensembles (parent group name is key), template variables and fixed template variables */
/* Loop table */
for(unsigned idx_tbl_1=0;idx_tbl_1<trv_tbl->nbr;idx_tbl_1++){
@@ -8464,77 +8561,66 @@ nco_bld_nsm /* [fnc] Build ensembles */
/* 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++){
+ int idx_nsm; /* [idx] Ensemble index */
+ nco_bool flg_ins;
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++){
+ 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) && /* Yes, test that comparison fails (operands are unequal) */
+ !strcmp(trv_1.grp_nm_fll_prn,trv_2.grp_nm_fll_prn)){
+
+ /* Is member group already inserted into ensemble array? */
+ for(idx_nsm=0;idx_nsm<trv_tbl->nsm_nbr;idx_nsm++)
+ if(!strcmp(trv_tbl->nsm[idx_nsm].grp_nm_fll_prn,trv_2.grp_nm_fll_prn)) break;
+
+ if(idx_nsm < trv_tbl->nsm_nbr) flg_ins=True; else flg_ins=False;
+
+ /* 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 two 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);
- }
+ 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){
+ 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;
@@ -8543,7 +8629,7 @@ nco_bld_nsm /* [fnc] Build ensembles */
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 {
+ }else{
trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_nbr++;
int tpl_nbr=trv_tbl->nsm[trv_tbl->nsm_nbr-1].tpl_nbr;
@@ -8573,7 +8659,7 @@ nco_bld_nsm /* [fnc] Build ensembles */
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);
- }
+ } /* endif dbg */
if(trv_tbl->nsm_nbr == 0) return;
@@ -8588,9 +8674,9 @@ nco_bld_nsm /* [fnc] Build ensembles */
/* 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){
+ 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++;
@@ -9658,7 +9744,6 @@ nco_prc_nsm /* [fnc] Process (define, write) variable
} /* nco_prc_nsm() */
-
void
nco_fix_dfn_wrt /* [fnc] Define/write fixed variables (ncbo) */
(const int nc_id, /* I [id] netCDF input-file ID */
@@ -9699,7 +9784,7 @@ nco_fix_dfn_wrt /* [fnc] Define/write fixed variables (nc
if(gpe) (void)nco_gpe_chk(grp_out_fll,trv->nm,&gpe_nm,&nbr_gpe_nm);
/* 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,NULL,0,trv_tbl);
+ var_out_id=nco_cpy_var_dfn_trv(nc_id,nc_out_id,cnk,grp_out_fll,dfl_lvl,gpe,rec_dmn_nm,trv,NULL,0,trv_tbl);
/* Copy variable's attributes */
(void)nco_att_cpy(grp_id,grp_out_id,var_id,var_out_id,True);
@@ -10381,9 +10466,11 @@ nco_prt_dmn /* [fnc] Print dimensions (debug) */
/* Get dimension name */
(void)nco_inq_dim(grp_id,dmn_id_var[idx_var_dim],dmn_nm_var,&dmn_sz);
- (void)fprintf(stdout,"%s: DEBUG %s <%s><%s> #%d API size is %ld\n",nco_prg_nm_get(),fnc_nm,
+ if(nco_dbg_lvl_get() == nco_dbg_old)
+ (void)fprintf(stdout,"%s: DEBUG %s <%s><%s> #%d API size is %ld\n",nco_prg_nm_get(),fnc_nm,
var_nm_fll,dmn_nm_var,dmn_id_var[idx_var_dim],dmn_sz);
+
} /* Loop over dimensions of variable */
trv_sct *var_trv=NULL;
diff --git a/src/nco/nco_lmt.c b/src/nco/nco_lmt.c
index a59a4b3..215d23e 100644
--- a/src/nco/nco_lmt.c
+++ b/src/nco/nco_lmt.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_lmt.c,v 1.211 2014/10/01 16:05:12 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_lmt.c,v 1.213 2014/10/03 22:03:22 zender Exp $ */
/* Purpose: Hyperslab limits */
@@ -1821,13 +1821,20 @@ nco_lmt_evl_dmn_crd /* [fnc] Parse user-specified limits into hypersl
if(lmt.max_idx > 0L) lmt.max_idx--;
} /* end if */
- /* 20120709 Negative integer as min or max element of hyperslab specification indicates offset from end */
+ /* Negative integer as min or max element of hyperslab specification indicates offset from end
+ pharoahs--20120708 Negative integers produce domain error
+ 20120709--20141001 Negative integer is elements away from last element, e.g., -1 is penultimate element
+ 20141002--forever -1 is last element, e.g., -2 is penultimate element, -N is first element (Python convention) */
+ nco_bool flg_old_usg=False;
if(lmt.min_idx == 0L && lmt.min_sng)
- if(lmt.min_sng[0] == '-') lmt.min_idx=dmn_sz-1L;
+ if(lmt.min_sng[0] == '-')
+ flg_old_usg=True;
if(lmt.max_idx == 0L && lmt.max_sng)
- if(lmt.max_sng[0] == '-') lmt.max_idx=dmn_sz-1L;
- if(lmt.min_idx < 0L) lmt.min_idx+=dmn_sz-1L;
- if(lmt.max_idx < 0L) lmt.max_idx+=dmn_sz-1L;
+ if(lmt.max_sng[0] == '-')
+ flg_old_usg=True;
+ if(flg_old_usg) (void)fprintf(stdout,"%s: WARNING Only NCO 4.4.6 treats negative zero as the last element of a dimension. Beginning 20141002, NCO uses the Python convention where negative one is the last element of a dimension, and negative zero is the same as zero and so selects the first element of a dimension. Negative zero also causes this warning to be printed in case the 4.4.6 behavior was intended.\n",nco_prg_nm_get());
+ if(lmt.min_idx < 0L) lmt.min_idx+=dmn_sz;
+ if(lmt.max_idx < 0L) lmt.max_idx+=dmn_sz;
/* Exit if requested indices are always invalid for all operators... */
if(lmt.min_idx < 0L){
diff --git a/src/nco/nco_msa.c b/src/nco/nco_msa.c
index bb58a35..9e23f99 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 1.266 2014/10/01 00:08:18 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_msa.c,v 1.267 2014/10/02 01:04:32 zender Exp $ */
/* Purpose: Multi-slabbing algorithm */
@@ -212,7 +212,7 @@ read_lbl:
/* Replace multiple strides by loop over single strides */
dmn_cnt[idx_srd]=1L;
for(srd_idx=0;srd_idx<srd_nbr;srd_idx++){
- /* Point next stride on disk */
+ /* Point start vector to next stride on disk */
if(srd_idx != 0) dmn_srt[idx_srd]+=dmn_srd[idx_srd];
/* Place results in next portion of RAM */
if(srd_idx != 0) cp_srd+=srd_sz*nco_typ_lng(vara->type);
diff --git a/src/nco/nco_netcdf.c b/src/nco/nco_netcdf.c
index 3683f8c..fab4d59 100644
--- a/src/nco/nco_netcdf.c
+++ b/src/nco/nco_netcdf.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_netcdf.c,v 1.254 2014/09/24 18:14:51 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_netcdf.c,v 1.255 2014/11/24 23:06:05 zender Exp $ */
/* Purpose: NCO wrappers for netCDF C library */
@@ -840,8 +840,8 @@ int nc_inq_format_extended(const int nc_id,int * const fl_fmt,int * const mode)
/* Purpose: 20131222: Stub for nc_inq_format_extended(), which appeared in netCDF 4.3.1-rc7
Forward compatibility prototype required for systems with netCDF < 4.3.1 */
int rcd=NC_NOERR;
- *fl_fmt=NC_FORMAT_UNDEFINED; /* [enm] Output file format */
- *mode=0; /* [enm] Output file format */
+ if(fl_fmt) *fl_fmt=NC_FORMAT_UNDEFINED; /* [enm] Output file format */
+ if(mode) *mode=0; /* [enm] Output file format */
return NC_NOERR+0*nc_id+0*rcd; /* CEWI */
} /* end nc_inq_format_extended() */
#endif /* !NC_HAVE_INQ_FORMAT_EXTENDED */
diff --git a/src/nco/nco_prn.c b/src/nco/nco_prn.c
index f1e5523..e54e8f4 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 1.224 2014/09/25 04:41:15 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_prn.c,v 1.225 2014/10/08 21:00:46 zender Exp $ */
/* Purpose: Print variables, attributes, metadata */
@@ -139,7 +139,7 @@ nco_prn_att /* [fnc] Print all attributes of single variable or group */
} /* !rcd */
} /* !xml */
}else{
- if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NCO_NC_LIB_VERSION >= 433){
+ if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NC_LIB_VERSION >= 433){
/* _NOFILL */
rcd=nco_inq_var_fill(grp_id,var_id,&fll_nil,(int *)NULL);
if(fll_nil){
@@ -1182,7 +1182,7 @@ nco_prn_var_dfn /* [fnc] Print variable metadata */
(void)nco_inq_var(grp_id,var_id,(char *)NULL,&var_typ,&nbr_dim,(int *)NULL,&nbr_att);
/* Storage properties */
- if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NCO_NC_LIB_VERSION >= 433){
+ if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NC_LIB_VERSION >= 433){
(void)nco_inq_var_chunking(grp_id,var_id,&srg_typ,cnk_sz);
(void)nco_inq_var_deflate(grp_id,var_id,&shuffle,&deflate,&dfl_lvl);
} /* endif */
@@ -1221,7 +1221,7 @@ nco_prn_var_dfn /* [fnc] Print variable metadata */
if(prn_flg->new_fmt && !prn_flg->xml) prn_ndn=prn_flg->sxn_fst+prn_flg->var_fst+var_trv->grp_dpt*prn_flg->spc_per_lvl;
if(prn_flg->xml) prn_ndn=prn_flg->sxn_fst+var_trv->grp_dpt*prn_flg->spc_per_lvl;
if(prn_flg->trd){
- if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NCO_NC_LIB_VERSION >= 433) (void)fprintf(stdout,"%*s%s: type %s, %i dimension%s, %i attribute%s, chunked? %s, compressed? %s, packed? %s\n",prn_ndn,spc_sng,var_trv->nm,nco_typ_sng(var_typ),nbr_dim,(nbr_dim == 1) ? "" : "s",nbr_att,(nbr_att == 1) ? "" : "s",(srg_typ == NC_CHUNKED) ? "yes" : "no",(deflate) ? "yes" : "no",(packing) ? "yes" : "no"); else (void)fprintf(stdout,"%*s%s: type %s, %i dimension%s, %i attribute%s, chunked? HDF4_UNKNOWN [...]
+ if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NC_LIB_VERSION >= 433) (void)fprintf(stdout,"%*s%s: type %s, %i dimension%s, %i attribute%s, chunked? %s, compressed? %s, packed? %s\n",prn_ndn,spc_sng,var_trv->nm,nco_typ_sng(var_typ),nbr_dim,(nbr_dim == 1) ? "" : "s",nbr_att,(nbr_att == 1) ? "" : "s",(srg_typ == NC_CHUNKED) ? "yes" : "no",(deflate) ? "yes" : "no",(packing) ? "yes" : "no"); else (void)fprintf(stdout,"%*s%s: type %s, %i dimension%s, %i attribute%s, chunked? HDF4_UNKNOWN, co [...]
} /* !trd */
if(prn_flg->xml) (void)fprintf(stdout,"%*s<variable name=\"%s\" type=\"%s\"",prn_ndn,spc_sng,var_trv->nm,xml_typ_nm(var_typ));
@@ -1252,11 +1252,11 @@ nco_prn_var_dfn /* [fnc] Print variable metadata */
(void)strcat(sz_sng,sng_foo);
for(dmn_idx=0;dmn_idx<nbr_dim;dmn_idx++) var_sz*=dmn_sz[dmn_idx];
- if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NCO_NC_LIB_VERSION >= 433) (void)nco_inq_var_deflate(grp_id,var_id,&shuffle,&deflate,&dfl_lvl);
+ if(nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NC_LIB_VERSION >= 433) (void)nco_inq_var_deflate(grp_id,var_id,&shuffle,&deflate,&dfl_lvl);
if(prn_flg->trd){
- if((nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NCO_NC_LIB_VERSION >= 433) && deflate) (void)fprintf(stdout,"%*s%s compression (Lempel-Ziv %s shuffling) level = %d\n",prn_ndn,spc_sng,var_trv->nm,(shuffle) ? "with" : "without",dfl_lvl);
- if(nco_fmt_xtn_get() == nco_fmt_xtn_hdf4 && NCO_NC_LIB_VERSION < 433) (void)fprintf(stdout,"%*s%s compression and shuffling characteristics are HDF4_UNKNOWN\n",prn_ndn,spc_sng,var_trv->nm);
+ if((nco_fmt_xtn_get() != nco_fmt_xtn_hdf4 || NC_LIB_VERSION >= 433) && deflate) (void)fprintf(stdout,"%*s%s compression (Lempel-Ziv %s shuffling) level = %d\n",prn_ndn,spc_sng,var_trv->nm,(shuffle) ? "with" : "without",dfl_lvl);
+ if(nco_fmt_xtn_get() == nco_fmt_xtn_hdf4 && NC_LIB_VERSION < 433) (void)fprintf(stdout,"%*s%s compression and shuffling characteristics are HDF4_UNKNOWN\n",prn_ndn,spc_sng,var_trv->nm);
(void)fprintf(stdout,"%*s%s size (RAM) = %s = %li*%lu = %lu bytes\n",prn_ndn,spc_sng,var_trv->nm,sz_sng,var_sz,(unsigned long)nco_typ_lng(var_typ),(unsigned long)(var_sz*nco_typ_lng(var_typ)));
} /* !prn_flg->trd */
diff --git a/src/nco/nco_scm.c b/src/nco/nco_scm.c
index 59e423c..ca9c40a 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 1.57 2014/08/21 18:22:44 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_scm.c,v 1.59 2014/10/09 15:00:35 zender Exp $ */
/* Purpose: Software configuration management */
@@ -31,7 +31,7 @@ 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_6 $";
+ char cvs_Name[]="$Name: nco-4_4_7 $";
const char dlr_nm_cln_spc[]="$Name: "; /* [sng] Dollar name colon space */
const char nco_sng[]="nco";
const char spc_dlr[]=" $"; /* [sng] Space dollar */
@@ -166,6 +166,7 @@ nco_vrs_prn /* [fnc] Print NCO version */
int vrs_cvs_lng;
const char date_cpp[]=__DATE__; /* [sng] Date from C pre-processor */
+ const char time_cpp[]=__TIME__; /* [sng] Time from C pre-processor */
/* const char time_cpp[]=__TIME__; *//* [sng] Time from C pre-processor */
const char vrs_cpp[]=TKN2SNG(VERSION); /* [sng] Version from C pre-processor */
const char hst_cpp[]=TKN2SNG(HOSTNAME); /* [sng] Hostname from C pre-processor */
@@ -184,9 +185,9 @@ nco_vrs_prn /* [fnc] Print NCO version */
if(strlen(CVS_Revision) > strlen("*Revision*") || strlen(CVS_Revision) < strlen("*Revision*")){
/* CVS_Revision is defined */
- vrs_cvs_lng=strrchr(CVS_Revision,'$')-strchr(CVS_Revision,':')-3;
- vrs_rcs=(char *)nco_malloc((vrs_cvs_lng+1)*sizeof(char));
- (void)strncpy(vrs_rcs,strchr(CVS_Revision,':')+2,(size_t)vrs_cvs_lng);
+ vrs_cvs_lng=strrchr(CVS_Revision,'$')-strchr(CVS_Revision,':')-3L;
+ vrs_rcs=(char *)nco_malloc((vrs_cvs_lng+1L)*sizeof(char));
+ (void)strncpy(vrs_rcs,strchr(CVS_Revision,':')+2L,(size_t)vrs_cvs_lng);
vrs_rcs[vrs_cvs_lng]='\0';
}else{
/* CVS_Revision is undefined */
@@ -198,7 +199,9 @@ nco_vrs_prn /* [fnc] Print NCO version */
if(strlen(CVS_Id) > strlen("*Id*")){
(void)fprintf(stderr,"NCO netCDF Operators version %s last modified %s built %s on %s by %s\n",vrs_cpp,date_cvs,date_cpp,hst_cpp,usr_cpp);
}else{
- (void)fprintf(stderr,"NCO netCDF Operators version %s built %s on %s by %s\n",vrs_cpp,date_cpp,hst_cpp,usr_cpp);
+ /* 20141008: Try new nco.h-based versioning */
+ /* (void)fprintf(stderr,"NCO netCDF Operators version %s built %s on %s by %s\n",vrs_cpp,date_cpp,hst_cpp,usr_cpp);*/
+ (void)fprintf(stderr,"NCO netCDF Operators version %s built by %s on %s at %s %s\n",NCO_VERSION,usr_cpp,hst_cpp,date_cpp,time_cpp);
} /* endif */
if(strlen(CVS_Id) > strlen("*Id*")){
(void)fprintf(stderr,"%s version %s\n",nco_prg_nm_get(),vrs_cvs);
diff --git a/src/nco/nco_sng_utl.c b/src/nco/nco_sng_utl.c
index 97639ed..64c2cbb 100644
--- a/src/nco/nco_sng_utl.c
+++ b/src/nco/nco_sng_utl.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/nco_sng_utl.c,v 1.80 2014/10/01 03:50:42 pvicente Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/nco_sng_utl.c,v 1.81 2014/11/25 00:22:02 zender Exp $ */
/* Purpose: String utilities */
@@ -570,8 +570,17 @@ sng_trm_trl_zro /* [fnc] Trim zeros trailing decimal point and preceding exponen
/* Trim all remaining consecutive zeros leftward */
while(*trl_zro_ptr == '0') *trl_zro_ptr--='\0';
- /* Copy allowed zeros and/or exponent, if any, to current location */
- strncpy(trl_zro_ptr+1UL,vld_ptr,strlen(vld_ptr)+1UL);
+ /* Copy allowed zeros and/or exponent, if any, to current location
+ 20141124: This algorithm has worked fine for ~1 year
+ Learned today, though, that valgrind does not like, and Mac OS X disallows,
+ source and destination to overlap in strcpy() and friends
+ http://www.network-theory.co.uk/docs/valgrind/valgrind_49.html
+ Use explicit loop (instead of strncpy()) to copy src to dst
+ This avoids triggering warnings in valgrind and crashes in Mac OS X */
+ /*strncpy(trl_zro_ptr+1UL,vld_ptr,strlen(vld_ptr)+1UL);*/
+ char *end=vld_ptr+strlen(vld_ptr)+1UL;
+ char *dst=trl_zro_ptr+1UL;
+ for(char *src=vld_ptr;src<=end;src++) *dst++=*src;
} /* end if trl_zro_ptr */
} /* end if dcm_ptr */
diff --git a/src/nco/ncpdq.c b/src/nco/ncpdq.c
index efe4795..e81a0c9 100644
--- a/src/nco/ncpdq.c
+++ b/src/nco/ncpdq.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncpdq.c,v 1.402 2014/09/16 14:14:55 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncpdq.c,v 1.406 2014/11/05 23:39:04 zender Exp $ */
/* ncpdq -- netCDF pack, re-dimension, query */
@@ -137,8 +137,8 @@ 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 1.402 2014/09/16 14:14:55 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.402 $";
+ const char * const CVS_Id="$Id: ncpdq.c,v 1.406 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.406 $";
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 */
@@ -203,6 +203,7 @@ main(int argc,char **argv)
md5_sct *md5=NULL; /* [sct] MD5 configuration */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -226,106 +227,108 @@ main(int argc,char **argv)
#endif /* !ENABLE_MPI */
static struct option opt_lng[]=
- { /* Structure ordered by short option key if possible */
- /* Long options with no argument, no short option counterpart */
- {"cln",no_argument,0,0}, /* [flg] Clean memory prior to exit */
- {"clean",no_argument,0,0}, /* [flg] Clean memory prior to exit */
- {"mmr_cln",no_argument,0,0}, /* [flg] Clean memory prior to exit */
- {"drt",no_argument,0,0}, /* [flg] Allow dirty memory on exit */
- {"dirty",no_argument,0,0}, /* [flg] Allow dirty memory on exit */
- {"mmr_drt",no_argument,0,0}, /* [flg] Allow dirty memory on exit */
- {"hdf4",no_argument,0,0}, /* [flg] Treat file as HDF4 */
- {"hdf_upk",no_argument,0,0}, /* [flg] HDF unpack convention: unpacked=scale_factor*(packed-add_offset) */
- {"hdf_unpack",no_argument,0,0}, /* [flg] HDF unpack convention: unpacked=scale_factor*(packed-add_offset) */
- {"mrd",no_argument,0,0}, /* [enm] Multiple Record Dimension convention */
- {"multiple_record_dimension",no_argument,0,0}, /* [enm] Multiple Record Dimension convention */
- {"msa_usr_rdr",no_argument,0,0}, /* [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
- {"msa_user_order",no_argument,0,0}, /* [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
- {"ram_all",no_argument,0,0}, /* [flg] Open (netCDF3) and create file(s) in RAM */
- {"create_ram",no_argument,0,0}, /* [flg] Create file in RAM */
- {"open_ram",no_argument,0,0}, /* [flg] Open (netCDF3) file(s) in RAM */
- {"diskless_all",no_argument,0,0}, /* [flg] Open (netCDF3) and create file(s) in RAM */
- {"wrt_tmp_fl",no_argument,0,0}, /* [flg] Write output to temporary file */
- {"write_tmp_fl",no_argument,0,0}, /* [flg] Write output to temporary file */
- {"no_tmp_fl",no_argument,0,0}, /* [flg] Do not write output to temporary file */
- {"intersection",no_argument,0,0}, /* [flg] Select intersection of specified groups and variables */
- {"nsx",no_argument,0,0}, /* [flg] Select intersection of specified groups and variables */
- {"union",no_argument,0,0}, /* [flg] Select union of specified groups and variables */
- {"unn",no_argument,0,0}, /* [flg] Select union of specified groups and variables */
- {"version",no_argument,0,0},
- {"vrs",no_argument,0,0},
- /* Long options with argument, no short option counterpart */
- {"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
- {"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
- {"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
- {"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
- {"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
- {"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
- {"fl_fmt",required_argument,0,0},
- {"file_format",required_argument,0,0},
- {"hdr_pad",required_argument,0,0},
- {"header_pad",required_argument,0,0},
- /* Long options with short counterparts */
- {"3",no_argument,0,'3'},
- {"4",no_argument,0,'4'},
- {"64bit",no_argument,0,'4'},
- {"netcdf4",no_argument,0,'4'},
- {"append",no_argument,0,'A'},
- {"arrange",required_argument,0,'a'},
- {"permute",required_argument,0,'a'},
- {"reorder",required_argument,0,'a'},
- {"rdr",required_argument,0,'a'},
- {"no-coords",no_argument,0,'C'},
- {"no-crd",no_argument,0,'C'},
- {"coords",no_argument,0,'c'},
- {"crd",no_argument,0,'c'},
- {"debug",required_argument,0,'D'},
- {"nco_dbg_lvl",required_argument,0,'D'},
- {"dimension",required_argument,0,'d'},
- {"dmn",required_argument,0,'d'},
- {"fortran",no_argument,0,'F'},
- {"ftn",no_argument,0,'F'},
- {"gpe",required_argument,0,'G'}, /* [sng] Group Path Edit (GPE) */
- {"grp",required_argument,0,'g'},
- {"group",required_argument,0,'g'},
- {"history",no_argument,0,'h'},
- {"hst",no_argument,0,'h'},
- {"dfl_lvl",required_argument,0,'L'}, /* [enm] Deflate level */
- {"deflate",required_argument,0,'L'}, /* [enm] Deflate level */
- {"local",required_argument,0,'l'},
- {"lcl",required_argument,0,'l'},
- {"pack_map",required_argument,0,'M'},
- {"pck_map",required_argument,0,'M'},
- {"map",required_argument,0,'M'},
- {"overwrite",no_argument,0,'O'},
- {"ovr",no_argument,0,'O'},
- {"output",required_argument,0,'o'},
- {"fl_out",required_argument,0,'o'},
- {"pack_policy",required_argument,0,'P'},
- {"pck_plc",required_argument,0,'P'},
- {"path",required_argument,0,'p'},
- {"retain",no_argument,0,'R'},
- {"rtn",no_argument,0,'R'},
- {"revision",no_argument,0,'r'},
- {"thr_nbr",required_argument,0,'t'},
- {"threads",required_argument,0,'t'},
- {"omp_num_threads",required_argument,0,'t'},
- {"unpack",no_argument,0,'U'},
- {"upk",no_argument,0,'U'},
- {"variable",required_argument,0,'v'},
- {"auxiliary",required_argument,0,'X'},
- {"exclude",no_argument,0,'x'},
- {"xcl",no_argument,0,'x'},
- {"help",no_argument,0,'?'},
- {"hlp",no_argument,0,'?'},
- {0,0,0,0}
- }; /* end opt_lng */
+ { /* Structure ordered by short option key if possible */
+ /* Long options with no argument, no short option counterpart */
+ {"cln",no_argument,0,0}, /* [flg] Clean memory prior to exit */
+ {"clean",no_argument,0,0}, /* [flg] Clean memory prior to exit */
+ {"mmr_cln",no_argument,0,0}, /* [flg] Clean memory prior to exit */
+ {"drt",no_argument,0,0}, /* [flg] Allow dirty memory on exit */
+ {"dirty",no_argument,0,0}, /* [flg] Allow dirty memory on exit */
+ {"mmr_drt",no_argument,0,0}, /* [flg] Allow dirty memory on exit */
+ {"hdf4",no_argument,0,0}, /* [flg] Treat file as HDF4 */
+ {"hdf_upk",no_argument,0,0}, /* [flg] HDF unpack convention: unpacked=scale_factor*(packed-add_offset) */
+ {"hdf_unpack",no_argument,0,0}, /* [flg] HDF unpack convention: unpacked=scale_factor*(packed-add_offset) */
+ {"mrd",no_argument,0,0}, /* [enm] Multiple Record Dimension convention */
+ {"multiple_record_dimension",no_argument,0,0}, /* [enm] Multiple Record Dimension convention */
+ {"msa_usr_rdr",no_argument,0,0}, /* [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
+ {"msa_user_order",no_argument,0,0}, /* [flg] Multi-Slab Algorithm returns hyperslabs in user-specified order */
+ {"ram_all",no_argument,0,0}, /* [flg] Open (netCDF3) and create file(s) in RAM */
+ {"create_ram",no_argument,0,0}, /* [flg] Create file in RAM */
+ {"open_ram",no_argument,0,0}, /* [flg] Open (netCDF3) file(s) in RAM */
+ {"diskless_all",no_argument,0,0}, /* [flg] Open (netCDF3) and create file(s) in RAM */
+ {"wrt_tmp_fl",no_argument,0,0}, /* [flg] Write output to temporary file */
+ {"write_tmp_fl",no_argument,0,0}, /* [flg] Write output to temporary file */
+ {"no_tmp_fl",no_argument,0,0}, /* [flg] Do not write output to temporary file */
+ {"intersection",no_argument,0,0}, /* [flg] Select intersection of specified groups and variables */
+ {"nsx",no_argument,0,0}, /* [flg] Select intersection of specified groups and variables */
+ {"union",no_argument,0,0}, /* [flg] Select union of specified groups and variables */
+ {"unn",no_argument,0,0}, /* [flg] Select union of specified groups and variables */
+ {"version",no_argument,0,0},
+ {"vrs",no_argument,0,0},
+ /* Long options with argument, no short option counterpart */
+ {"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
+ {"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
+ {"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
+ {"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
+ {"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
+ {"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
+ {"fl_fmt",required_argument,0,0},
+ {"file_format",required_argument,0,0},
+ {"hdr_pad",required_argument,0,0},
+ {"header_pad",required_argument,0,0},
+ /* Long options with short counterparts */
+ {"3",no_argument,0,'3'},
+ {"4",no_argument,0,'4'},
+ {"64bit",no_argument,0,'4'},
+ {"netcdf4",no_argument,0,'4'},
+ {"append",no_argument,0,'A'},
+ {"arrange",required_argument,0,'a'},
+ {"permute",required_argument,0,'a'},
+ {"reorder",required_argument,0,'a'},
+ {"rdr",required_argument,0,'a'},
+ {"no-coords",no_argument,0,'C'},
+ {"no-crd",no_argument,0,'C'},
+ {"coords",no_argument,0,'c'},
+ {"crd",no_argument,0,'c'},
+ {"debug",required_argument,0,'D'},
+ {"nco_dbg_lvl",required_argument,0,'D'},
+ {"dimension",required_argument,0,'d'},
+ {"dmn",required_argument,0,'d'},
+ {"fortran",no_argument,0,'F'},
+ {"ftn",no_argument,0,'F'},
+ {"gpe",required_argument,0,'G'}, /* [sng] Group Path Edit (GPE) */
+ {"grp",required_argument,0,'g'},
+ {"group",required_argument,0,'g'},
+ {"history",no_argument,0,'h'},
+ {"hst",no_argument,0,'h'},
+ {"dfl_lvl",required_argument,0,'L'}, /* [enm] Deflate level */
+ {"deflate",required_argument,0,'L'}, /* [enm] Deflate level */
+ {"local",required_argument,0,'l'},
+ {"lcl",required_argument,0,'l'},
+ {"pack_map",required_argument,0,'M'},
+ {"pck_map",required_argument,0,'M'},
+ {"map",required_argument,0,'M'},
+ {"overwrite",no_argument,0,'O'},
+ {"ovr",no_argument,0,'O'},
+ {"output",required_argument,0,'o'},
+ {"fl_out",required_argument,0,'o'},
+ {"pack_policy",required_argument,0,'P'},
+ {"pck_plc",required_argument,0,'P'},
+ {"path",required_argument,0,'p'},
+ {"retain",no_argument,0,'R'},
+ {"rtn",no_argument,0,'R'},
+ {"revision",no_argument,0,'r'},
+ {"thr_nbr",required_argument,0,'t'},
+ {"threads",required_argument,0,'t'},
+ {"omp_num_threads",required_argument,0,'t'},
+ {"unpack",no_argument,0,'U'},
+ {"upk",no_argument,0,'U'},
+ {"variable",required_argument,0,'v'},
+ {"auxiliary",required_argument,0,'X'},
+ {"exclude",no_argument,0,'x'},
+ {"xcl",no_argument,0,'x'},
+ {"help",no_argument,0,'?'},
+ {"hlp",no_argument,0,'?'},
+ {0,0,0,0}
+ }; /* end opt_lng */
int opt_idx=0; /* Index of current long option into opt_lng array */
/* Initialize traversal table */
@@ -366,6 +369,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
@@ -687,7 +694,7 @@ main(int argc,char **argv)
fl_out_tmp=nco_fl_out_open(fl_out,FORCE_APPEND,FORCE_OVERWRITE,fl_out_fmt,&bfr_sz_hnt,RAM_CREATE,RAM_OPEN,WRT_TMP_FL,&out_id);
/* Create structure with all chunking information */
- if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_sz_byt,cnk_sz_scl,&cnk);
+ if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_min_byt,cnk_sz_byt,cnk_sz_scl,&cnk);
/* Catenate time-stamped command line to "history" global attribute */
if(HISTORY_APPEND) (void)nco_hst_att_cat(out_id,cmd_ln);
diff --git a/src/nco/ncra.c b/src/nco/ncra.c
index e7215a6..2f77494 100644
--- a/src/nco/ncra.c
+++ b/src/nco/ncra.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncra.c,v 1.553 2014/09/30 23:03:29 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncra.c,v 1.556 2014/11/05 23:39:04 zender Exp $ */
/* This single source file compiles into three separate executables:
ncra -- netCDF record averager
@@ -140,8 +140,8 @@ 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 1.553 2014/09/30 23:03:29 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.553 $";
+ const char * const CVS_Id="$Id: ncra.c,v 1.556 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.556 $";
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 */
@@ -255,6 +255,7 @@ main(int argc,char **argv)
nc_type var_prc_typ_pre_prm=NC_NAT; /* [enm] Type of variable before promotion */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -322,16 +323,18 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
{"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
@@ -433,6 +436,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
@@ -730,7 +737,7 @@ main(int argc,char **argv)
fl_out_tmp=nco_fl_out_open(fl_out,FORCE_APPEND,FORCE_OVERWRITE,fl_out_fmt,&bfr_sz_hnt,RAM_CREATE,RAM_OPEN,WRT_TMP_FL,&out_id);
/* Create structure with all chunking information */
- if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_sz_byt,cnk_sz_scl,&cnk);
+ if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_min_byt,cnk_sz_byt,cnk_sz_scl,&cnk);
/* Define dimensions, extracted groups, variables, and attributes in output file */
(void)nco_xtr_dfn(in_id,out_id,&cnk,dfl_lvl,gpe,md5,True,True,False,nco_pck_plc_nil,(char *)NULL,trv_tbl);
diff --git a/src/nco/ncrename.c b/src/nco/ncrename.c
index 87f0840..4013c5b 100644
--- a/src/nco/ncrename.c
+++ b/src/nco/ncrename.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncrename.c,v 1.205 2014/09/26 23:03:48 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncrename.c,v 1.208 2014/10/10 15:15:35 zender Exp $ */
/* ncrename -- netCDF renaming operator */
@@ -115,8 +115,8 @@ main(int argc,char **argv)
char *obj_nm=NULL;
- const char * const CVS_Id="$Id: ncrename.c,v 1.205 2014/09/26 23:03:48 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.205 $";
+ const char * const CVS_Id="$Id: ncrename.c,v 1.208 2014/10/10 15:15:35 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.208 $";
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/group in file is optional */
@@ -131,6 +131,7 @@ main(int argc,char **argv)
extern int optind;
int abb_arg_nbr=0;
+ int fl_fmt; /* [enm] Output (and input) file format */
int fl_nbr=0;
int mch_nbr_att=0; /* [nbr] Number of renamed attributes */
int mch_nbr_var=0; /* [nbr] Number of renamed variables */
@@ -361,7 +362,10 @@ main(int argc,char **argv)
/* Open file enabled for writing. Place file in define mode for renaming. */
if(RAM_OPEN) md_open=NC_WRITE|NC_DISKLESS; else md_open=NC_WRITE;
rcd+=nco_fl_open(fl_out,md_open,&bfr_sz_hnt,&nc_id);
- (void)nco_redef(nc_id);
+
+ /* 20141010: Avoid nc_rename_var/dim() bug */
+ (void)nco_inq_format(nc_id,&fl_fmt);
+ if(fl_fmt != NC_FORMAT_NETCDF4) rcd+=nco_redef(nc_id);
/* Timestamp end of metadata setup and disk layout */
rcd+=nco_ddra((char *)NULL,(char *)NULL,&ddra_info);
@@ -371,7 +375,7 @@ 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,False,True,nco_pck_plc_nil,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,False,True,nco_pck_plc_nil,NULL,trv_tbl);
/* Rename variables */
for(int idx_var=0;idx_var<nbr_var_rnm;idx_var++){
@@ -390,9 +394,9 @@ main(int argc,char **argv)
if(trv_tbl->lst[tbl_idx].nco_typ == nco_obj_typ_var)
if(!strcmp(var_rnm_lst[idx_var].old_nm+mch_fst,trv_tbl->lst[tbl_idx].nm_fll) || !strcmp(var_rnm_lst[idx_var].old_nm+mch_fst,trv_tbl->lst[tbl_idx].nm)){
mch_nbr++;
- (void)nco_inq_grp_full_ncid(nc_id,trv_tbl->lst[tbl_idx].grp_nm_fll,&grp_id);
- rcd=nco_inq_varid(grp_id,trv_tbl->lst[tbl_idx].nm,&var_rnm_lst[idx_var].id);
- (void)nco_rename_var(grp_id,var_rnm_lst[idx_var].id,var_rnm_lst[idx_var].new_nm);
+ rcd+=nco_inq_grp_full_ncid(nc_id,trv_tbl->lst[tbl_idx].grp_nm_fll,&grp_id);
+ rcd+=nco_inq_varid(grp_id,trv_tbl->lst[tbl_idx].nm,&var_rnm_lst[idx_var].id);
+ rcd+=nco_rename_var(grp_id,var_rnm_lst[idx_var].id,var_rnm_lst[idx_var].new_nm);
if(nco_dbg_lvl >= nco_dbg_fl) (void)fprintf(stdout,"%s: Renamed variable \'%s\' to \'%s\'\n",nco_prg_nm,trv_tbl->lst[tbl_idx].nm_fll,var_rnm_lst[idx_var].new_nm);
} /* endif */
@@ -614,16 +618,19 @@ main(int argc,char **argv)
(void)omp_in_parallel();
#endif /* !_OPENMP */
- /* Take output file out of define mode */
- if(hdr_pad == 0UL){
- (void)nco_enddef(nc_id);
- }else{
- (void)nco__enddef(nc_id,hdr_pad);
- 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 */
+ /* 20141010: Avoid nc_rename_var/dim() bug */
+ if(fl_fmt != NC_FORMAT_NETCDF4){
+ /* Take output file out of define mode */
+ if(hdr_pad == 0UL){
+ rcd+=nco_enddef(nc_id);
+ }else{
+ rcd+=nco__enddef(nc_id,hdr_pad);
+ 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 */
+ } /* NC_FORMAT_NETCDF4 */
/* Close the open netCDF file */
- nco_close(nc_id);
+ rcd+=nco_close(nc_id);
/* Remove local copy of file */
if(FL_RTR_RMT_LCN && RM_RMT_FL_PST_PRC) (void)nco_fl_rm(fl_in);
diff --git a/src/nco/ncwa.c b/src/nco/ncwa.c
index f96e053..a08daf6 100644
--- a/src/nco/ncwa.c
+++ b/src/nco/ncwa.c
@@ -1,4 +1,4 @@
-/* $Header: /cvsroot/nco/nco/src/nco/ncwa.c,v 1.427 2014/09/30 23:03:29 zender Exp $ */
+/* $Header: /cvsroot/nco/nco/src/nco/ncwa.c,v 1.430 2014/11/05 23:39:04 zender Exp $ */
/* ncwa -- netCDF weighted averager */
@@ -151,8 +151,8 @@ 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 1.427 2014/09/30 23:03:29 zender Exp $";
- const char * const CVS_Revision="$Revision: 1.427 $";
+ const char * const CVS_Id="$Id: ncwa.c,v 1.430 2014/11/05 23:39:04 zender Exp $";
+ const char * const CVS_Revision="$Revision: 1.430 $";
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 */
@@ -216,6 +216,7 @@ main(int argc,char **argv)
md5_sct *md5=NULL; /* [sct] MD5 configuration */
size_t bfr_sz_hnt=NC_SIZEHINT_DEFAULT; /* [B] Buffer size hint */
+ size_t cnk_min_byt=NCO_CNK_SZ_MIN_BYT_DFL; /* [B] Minimize size of variable to chunk */
size_t cnk_sz_byt=0UL; /* [B] Chunk size in bytes */
size_t cnk_sz_scl=0UL; /* [nbr] Chunk size scalar */
size_t hdr_pad=0UL; /* [B] Pad at end of header section */
@@ -278,16 +279,18 @@ main(int argc,char **argv)
/* Long options with argument, no short option counterpart */
{"bfr_sz_hnt",required_argument,0,0}, /* [B] Buffer size hint */
{"buffer_size_hint",required_argument,0,0}, /* [B] Buffer size hint */
+ {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
+ {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
+ {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"cnk_map",required_argument,0,0}, /* [nbr] Chunking map */
{"chunk_map",required_argument,0,0}, /* [nbr] Chunking map */
+ {"cnk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
+ {"chunk_min",required_argument,0,0}, /* [B] Minimize size of variable to chunk */
{"cnk_plc",required_argument,0,0}, /* [nbr] Chunking policy */
{"chunk_policy",required_argument,0,0}, /* [nbr] Chunking policy */
- {"cnk_byt",required_argument,0,0}, /* [B] Chunk size in bytes */
- {"chunk_byte",required_argument,0,0}, /* [B] Chunk size in bytes */
{"cnk_scl",required_argument,0,0}, /* [nbr] Chunk size scalar */
{"chunk_scalar",required_argument,0,0}, /* [nbr] Chunk size scalar */
- {"cnk_dmn",required_argument,0,0}, /* [nbr] Chunk size */
- {"chunk_dimension",required_argument,0,0}, /* [nbr] Chunk size */
{"fl_fmt",required_argument,0,0},
{"file_format",required_argument,0,0},
{"hdr_pad",required_argument,0,0},
@@ -399,6 +402,10 @@ main(int argc,char **argv)
cnk_sz_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
} /* endif cnk_byt */
+ if(!strcmp(opt_crr,"cnk_min") || !strcmp(opt_crr,"chunk_min")){
+ cnk_min_byt=strtoul(optarg,&sng_cnv_rcd,NCO_SNG_CNV_BASE10);
+ if(*sng_cnv_rcd) nco_sng_cnv_err(optarg,"strtoul",sng_cnv_rcd);
+ } /* endif cnk_min */
if(!strcmp(opt_crr,"cnk_dmn") || !strcmp(opt_crr,"chunk_dimension")){
/* Copy limit argument for later processing */
cnk_arg[cnk_nbr]=(char *)strdup(optarg);
@@ -733,7 +740,7 @@ main(int argc,char **argv)
fl_out_tmp=nco_fl_out_open(fl_out,FORCE_APPEND,FORCE_OVERWRITE,fl_out_fmt,&bfr_sz_hnt,RAM_CREATE,RAM_OPEN,WRT_TMP_FL,&out_id);
/* Create structure with all chunking information */
- if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_sz_byt,cnk_sz_scl,&cnk);
+ if(fl_out_fmt == NC_FORMAT_NETCDF4 || fl_out_fmt == NC_FORMAT_NETCDF4_CLASSIC) rcd+=nco_cnk_ini(fl_out,cnk_arg,cnk_nbr,cnk_map,cnk_plc,cnk_min_byt,cnk_sz_byt,cnk_sz_scl,&cnk);
/* Define dimensions, extracted groups, variables, and attributes in output file. */
(void)nco_xtr_dfn(in_id,out_id,&cnk,dfl_lvl,gpe,md5,True,True,False,nco_pck_plc_nil,(char *)NULL,trv_tbl);
diff --git a/src/nco_c++/Makefile.in b/src/nco_c++/Makefile.in
index 377e5ac..c06eb99 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 1.113 2014/04/02 05:40:24 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/nco_c++/Makefile.in,v 1.114 2014/10/22 18:47:07 zender Exp $ -*-makefile-*-
VPATH = @srcdir@
@@ -445,9 +445,9 @@ MANIFEST_TOOL = @MANIFEST_TOOL@
MKDIR_P = @MKDIR_P@
NCOXX = @NCOXX@
NCO_CXX = @NCO_CXX@
-NETCDF4_ROOT = @NETCDF4_ROOT@
NETCDF_INC = @NETCDF_INC@
NETCDF_LIB = @NETCDF_LIB@
+NETCDF_ROOT = @NETCDF_ROOT@
NM = @NM@
NMEDIT = @NMEDIT@
OBJDUMP = @OBJDUMP@
diff --git a/src/nco_c++/Makefile.old b/src/nco_c++/Makefile.old
index b2f9147..f8c19fc 100644
--- a/src/nco_c++/Makefile.old
+++ b/src/nco_c++/Makefile.old
@@ -1,4 +1,4 @@
-# $Header: /cvsroot/nco/nco/src/nco_c++/Makefile.old,v 1.110 2014/07/07 06:04:23 zender Exp $ -*-makefile-*-
+# $Header: /cvsroot/nco/nco/src/nco_c++/Makefile.old,v 1.112 2014/11/24 19:24:19 zender Exp $ -*-makefile-*-
# Purpose: Makefile for libnco_c++ module nco_c++
# Requires GNU Make---AT&T Make chokes on GNU syntax
@@ -237,7 +237,7 @@ CPP_TKN = ${USR_TKN} -D${PVM_ARCH} -DNO_NETCDF_2 -DVERSION='${VRS_SNG}' -DHOSTNA
# At this point we change NETCDF_INC from a directory to a flag
NC_CFLAGS := $(shell nc-config --cflags)
NC_LDFLAGS := $(shell nc-config --libs)
-NCO_LDFLAGS := -L${MY_LIB_DIR} -lnco -lnco++
+NCO_LDFLAGS := -L${MY_LIB_DIR} -lnco -lnco_c++
ifeq (${PNETCDF},Y)
# Enable pnetCDF functionality
@@ -251,8 +251,8 @@ ifdef LIB_NCAR
NC_LDFLAGS := ${LIB_NCAR} ${NC_LDFLAGS}
endif
-OTHER_CFLAGS := ${NC_CFLAGS} ${MPI_CFLAGS} ${GSL_INC} ${UDUNITS_INC}
-OTHER_LDFLAGS := ${NCO_LDFLAGS} ${NC_LDFLAGS} ${MPI_LDFLAGS} ${GSL_LIB} ${UDUNITS_LIB}
+OTHER_CFLAGS := ${NC_CFLAGS} ${MPI_CFLAGS} ${GSL_INC_FLG} ${UDUNITS_INC_FLG}
+OTHER_LDFLAGS := ${NCO_LDFLAGS} ${NC_LDFLAGS} ${MPI_LDFLAGS} ${GSL_LIB_FLG} ${UDUNITS_LIB_FLG}
# NB: Do NOT add comment lines, e.g., # This is a comma, to character definitions
null :=
@@ -1285,8 +1285,8 @@ dbg:
@printf "TMP_LDFLAGS = ${TMP_LDFLAGS}\n"
@printf "TMP_LIBS = ${TMP_LIBS}\n"
@printf "UDUNITS = $(UDUNITS)\n"
- @printf "UDUNITS_INC = $(UDUNITS_INC)\n"
- @printf "UDUNITS_LIB = $(UDUNITS_LIB)\n"
+ @printf "UDUNITS_INC_FLG = $(UDUNITS_INC_FLG)\n"
+ @printf "UDUNITS_LIB_FLG = $(UDUNITS_LIB_FLG)\n"
@printf "UNAMES = ${UNAMES}\n"
@printf "VPATH = ${VPATH}\n"
@printf "VRS_SNG = ${VRS_SNG}\n"
--
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