[med-svn] r7824 - in trunk/packages/rostlab/libzerg-perl/trunk: . debian debian/patches debian/source
Laszlo Kajan
lkajan-guest at alioth.debian.org
Fri Sep 16 12:27:30 UTC 2011
Author: lkajan-guest
Date: 2011-09-16 12:27:29 +0000 (Fri, 16 Sep 2011)
New Revision: 7824
Added:
trunk/packages/rostlab/libzerg-perl/trunk/debian/
trunk/packages/rostlab/libzerg-perl/trunk/debian/README.Debian
trunk/packages/rostlab/libzerg-perl/trunk/debian/README.source
trunk/packages/rostlab/libzerg-perl/trunk/debian/changelog
trunk/packages/rostlab/libzerg-perl/trunk/debian/compat
trunk/packages/rostlab/libzerg-perl/trunk/debian/control
trunk/packages/rostlab/libzerg-perl/trunk/debian/copyright
trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/
trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/debian-changes-1.0.4-1
trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/series
trunk/packages/rostlab/libzerg-perl/trunk/debian/rules
trunk/packages/rostlab/libzerg-perl/trunk/debian/source/
trunk/packages/rostlab/libzerg-perl/trunk/debian/source/format
trunk/packages/rostlab/libzerg-perl/trunk/debian/upstream-metadata.yaml
trunk/packages/rostlab/libzerg-perl/trunk/debian/watch
Log:
[svn-inject] Applying Debian modifications (1.0.4-1) to trunk
Property changes on: trunk/packages/rostlab/libzerg-perl/trunk/debian
___________________________________________________________________
Added: mergeWithUpstream
+ 1
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/README.Debian
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/README.Debian (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/README.Debian 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,9 @@
+libzerg-perl for Debian
+-----------------------
+
+Reference
+=========
+
+* Paquola, Apuã C M, Machado, Abimael A, Reis, Eduardo M, Da Silva, Aline M, and Verjovski-Almeida, Sergio: Zerg: a very fast BLAST parser library., Bioinformatics 19(8), volume 19, 1035–6, May 2003
+
+ -- Laszlo Kajan <lkajan at rostlab.org> Fri, 16 Sep 2011 11:52:32 +0200
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/README.source
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/README.source (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/README.source 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,5 @@
+libzerg-perl for Debian
+-----------------------
+
+patches:
+ libzerg-perl:
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/changelog
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/changelog (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/changelog 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,5 @@
+libzerg-perl (1.0.4-1) UNRELEASED; urgency=low
+
+ * Initial release (Closes: #641799)
+
+ -- Laszlo Kajan <lkajan at rostlab.org> Fri, 16 Sep 2011 11:52:32 +0200
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/compat
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/compat (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/compat 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1 @@
+7
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/control
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/control (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/control 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,26 @@
+Source: libzerg-perl
+Section: perl
+Priority: extra
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Laszlo Kajan <lkajan at rostlab.org>
+Build-Depends: cdbs, debhelper (>= 7.0.50~), libzerg-dev
+Standards-Version: 3.9.2
+Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/rostlab/libzerg-perl/trunk/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/rostlab/libzerg-perl/trunk/
+DM-Upload-Allowed: yes
+Homepage: http://code.google.com/p/libzerg/
+
+Package: libzerg-perl
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}, ${perl:Depends}
+Description: fast perl module for parsing the output of NCBI BLAST programs
+ The Zerg library contains a C/flex lexical scanner for BLAST reports
+ and a set of supporting functions. It is centered on a "get_token"
+ function that scans the input for specified lexical elements and, when
+ one is found, returns its code and value to the user.
+ .
+ It is intended to be fast: for that we used flex, which provides
+ simple regular expression matching and input buffering in the
+ generated C scanner. And it is intended to be simple in the sense of
+ providing just a lexical scanner, with no features whose support could
+ slow down its main function.
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/copyright
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/copyright (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/copyright 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,40 @@
+This work was packaged for Debian by:
+
+ Laszlo Kajan <lkajan at rostlab.org> on Fri, 16 Sep 2011 11:52:32 +0200
+
+It was downloaded from:
+
+ http://code.google.com/p/libzerg/
+
+Upstream Author(s):
+
+ Apuã Paquola <apuapaquola at gmail.com>
+
+Copyright:
+
+ Copyright (C) 2002 Apuã Paquola - Instituto de QuÃmica - Universidade de São Paulo - Brasil
+
+License:
+
+ This program is free software: you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation, either version 2 of the License, or
+ (at your option) any later version.
+
+ This package is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+
+ You should have received a copy of the GNU General Public License
+ along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+On Debian systems, the complete text of the GNU General
+Public License version 2 can be found in `/usr/share/common-licenses/GPL-2'.
+
+The Debian packaging is:
+
+ Copyright (C) 2011 Laszlo Kajan <lkajan at rostlab.org>
+
+and is licensed under the GPL version 3,
+see "/usr/share/common-licenses/GPL-3".
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/debian-changes-1.0.4-1
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/debian-changes-1.0.4-1 (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/debian-changes-1.0.4-1 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,1584 @@
+Description: Upstream changes introduced in version 1.0.4-1
+ This patch has been created by dpkg-source during the package build.
+ Here's the last changelog entry, hopefully it gives details on why
+ those changes were made:
+ .
+ libzerg-perl (1.0.4-1) UNRELEASED; urgency=low
+ .
+ * Initial release (Closes: #641799)
+ .
+ The person named in the Author field signed this changelog entry.
+Author: Laszlo Kajan <lkajan at rostlab.org>
+Bug-Debian: http://bugs.debian.org/641799
+
+---
+The information above should follow the Patch Tagging Guidelines, please
+checkout http://dep.debian.net/deps/dep3/ to learn about the format. Here
+are templates for supplementary fields that you might want to add:
+
+Origin: <vendor|upstream|other>, <url of original patch>
+Bug: <url in upstream bugtracker>
+Bug-Debian: http://bugs.debian.org/<bugnumber>
+Bug-Ubuntu: https://launchpad.net/bugs/<bugnumber>
+Forwarded: <no|not-needed|url proving that it has been forwarded>
+Reviewed-By: <name and email of someone who approved the patch>
+Last-Update: <YYYY-MM-DD>
+
+--- /dev/null
++++ libzerg-perl-1.0.4/Zerg/Makefile.old
+@@ -0,0 +1,950 @@
++# This Makefile is for the Zerg extension to perl.
++#
++# It was generated automatically by MakeMaker version
++# 6.55_02 (Revision: 65502) from the contents of
++# Makefile.PL. Don't edit this file, edit Makefile.PL instead.
++#
++# ANY CHANGES MADE HERE WILL BE LOST!
++#
++# MakeMaker ARGV: (q[INSTALLDIRS=vendor])
++#
++
++# MakeMaker Parameters:
++
++# ABSTRACT_FROM => q[Zerg.pm]
++# AUTHOR => q[Apuã Paquola <apua at iq.usp.br>]
++# BUILD_REQUIRES => { }
++# DEFINE => q[]
++# INC => q[]
++# LIBS => [q[-L/usr/local/lib -lzerg]]
++# NAME => q[Zerg]
++# PREREQ_PM => { }
++# VERSION_FROM => q[Zerg.pm]
++
++# --- MakeMaker post_initialize section:
++
++
++# --- MakeMaker const_config section:
++
++# These definitions are from config.sh (via /usr/lib/perl/5.10/Config.pm).
++# They may have been overridden via Makefile.PL or on the command line.
++AR = ar
++CC = cc
++CCCDLFLAGS = -fPIC
++CCDLFLAGS = -Wl,-E
++DLEXT = so
++DLSRC = dl_dlopen.xs
++EXE_EXT =
++FULL_AR = /usr/bin/ar
++LD = cc
++LDDLFLAGS = -shared -O2 -g -L/usr/local/lib -fstack-protector
++LDFLAGS = -fstack-protector -L/usr/local/lib
++LIBC = /lib/libc-2.11.2.so
++LIB_EXT = .a
++OBJ_EXT = .o
++OSNAME = linux
++OSVERS = 2.6.32-5-amd64
++RANLIB = :
++SITELIBEXP = /usr/local/share/perl/5.10.1
++SITEARCHEXP = /usr/local/lib/perl/5.10.1
++SO = so
++VENDORARCHEXP = /usr/lib/perl5
++VENDORLIBEXP = /usr/share/perl5
++
++
++# --- MakeMaker constants section:
++AR_STATIC_ARGS = cr
++DIRFILESEP = /
++DFSEP = $(DIRFILESEP)
++NAME = Zerg
++NAME_SYM = Zerg
++VERSION = 1.0.4
++VERSION_MACRO = VERSION
++VERSION_SYM = 1_0_4
++DEFINE_VERSION = -D$(VERSION_MACRO)=\"$(VERSION)\"
++XS_VERSION = 1.0.4
++XS_VERSION_MACRO = XS_VERSION
++XS_DEFINE_VERSION = -D$(XS_VERSION_MACRO)=\"$(XS_VERSION)\"
++INST_ARCHLIB = blib/arch
++INST_SCRIPT = blib/script
++INST_BIN = blib/bin
++INST_LIB = blib/lib
++INST_MAN1DIR = blib/man1
++INST_MAN3DIR = blib/man3
++MAN1EXT = 1p
++MAN3EXT = 3pm
++INSTALLDIRS = vendor
++DESTDIR =
++PREFIX = /usr
++PERLPREFIX = $(PREFIX)
++SITEPREFIX = $(PREFIX)/local
++VENDORPREFIX = $(PREFIX)
++INSTALLPRIVLIB = $(PERLPREFIX)/share/perl/5.10
++DESTINSTALLPRIVLIB = $(DESTDIR)$(INSTALLPRIVLIB)
++INSTALLSITELIB = $(SITEPREFIX)/share/perl/5.10.1
++DESTINSTALLSITELIB = $(DESTDIR)$(INSTALLSITELIB)
++INSTALLVENDORLIB = $(VENDORPREFIX)/share/perl5
++DESTINSTALLVENDORLIB = $(DESTDIR)$(INSTALLVENDORLIB)
++INSTALLARCHLIB = $(PERLPREFIX)/lib/perl/5.10
++DESTINSTALLARCHLIB = $(DESTDIR)$(INSTALLARCHLIB)
++INSTALLSITEARCH = $(SITEPREFIX)/lib/perl/5.10.1
++DESTINSTALLSITEARCH = $(DESTDIR)$(INSTALLSITEARCH)
++INSTALLVENDORARCH = $(VENDORPREFIX)/lib/perl5
++DESTINSTALLVENDORARCH = $(DESTDIR)$(INSTALLVENDORARCH)
++INSTALLBIN = $(PERLPREFIX)/bin
++DESTINSTALLBIN = $(DESTDIR)$(INSTALLBIN)
++INSTALLSITEBIN = $(SITEPREFIX)/bin
++DESTINSTALLSITEBIN = $(DESTDIR)$(INSTALLSITEBIN)
++INSTALLVENDORBIN = $(VENDORPREFIX)/bin
++DESTINSTALLVENDORBIN = $(DESTDIR)$(INSTALLVENDORBIN)
++INSTALLSCRIPT = $(PERLPREFIX)/bin
++DESTINSTALLSCRIPT = $(DESTDIR)$(INSTALLSCRIPT)
++INSTALLSITESCRIPT = $(SITEPREFIX)/bin
++DESTINSTALLSITESCRIPT = $(DESTDIR)$(INSTALLSITESCRIPT)
++INSTALLVENDORSCRIPT = $(VENDORPREFIX)/bin
++DESTINSTALLVENDORSCRIPT = $(DESTDIR)$(INSTALLVENDORSCRIPT)
++INSTALLMAN1DIR = $(PERLPREFIX)/share/man/man1
++DESTINSTALLMAN1DIR = $(DESTDIR)$(INSTALLMAN1DIR)
++INSTALLSITEMAN1DIR = $(SITEPREFIX)/man/man1
++DESTINSTALLSITEMAN1DIR = $(DESTDIR)$(INSTALLSITEMAN1DIR)
++INSTALLVENDORMAN1DIR = $(VENDORPREFIX)/share/man/man1
++DESTINSTALLVENDORMAN1DIR = $(DESTDIR)$(INSTALLVENDORMAN1DIR)
++INSTALLMAN3DIR = $(PERLPREFIX)/share/man/man3
++DESTINSTALLMAN3DIR = $(DESTDIR)$(INSTALLMAN3DIR)
++INSTALLSITEMAN3DIR = $(SITEPREFIX)/man/man3
++DESTINSTALLSITEMAN3DIR = $(DESTDIR)$(INSTALLSITEMAN3DIR)
++INSTALLVENDORMAN3DIR = $(VENDORPREFIX)/share/man/man3
++DESTINSTALLVENDORMAN3DIR = $(DESTDIR)$(INSTALLVENDORMAN3DIR)
++PERL_LIB = /usr/share/perl/5.10
++PERL_ARCHLIB = /usr/lib/perl/5.10
++LIBPERL_A = libperl.a
++FIRST_MAKEFILE = Makefile
++MAKEFILE_OLD = Makefile.old
++MAKE_APERL_FILE = Makefile.aperl
++PERLMAINCC = $(CC)
++PERL_INC = /usr/lib/perl/5.10/CORE
++PERL = /usr/bin/perl
++FULLPERL = /usr/bin/perl
++ABSPERL = $(PERL)
++PERLRUN = $(PERL)
++FULLPERLRUN = $(FULLPERL)
++ABSPERLRUN = $(ABSPERL)
++PERLRUNINST = $(PERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
++FULLPERLRUNINST = $(FULLPERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
++ABSPERLRUNINST = $(ABSPERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
++PERL_CORE = 0
++PERM_DIR = 755
++PERM_RW = 644
++PERM_RWX = 755
++
++MAKEMAKER = /usr/share/perl/5.10/ExtUtils/MakeMaker.pm
++MM_VERSION = 6.55_02
++MM_REVISION = 65502
++
++# FULLEXT = Pathname for extension directory (eg Foo/Bar/Oracle).
++# BASEEXT = Basename part of FULLEXT. May be just equal FULLEXT. (eg Oracle)
++# PARENT_NAME = NAME without BASEEXT and no trailing :: (eg Foo::Bar)
++# DLBASE = Basename part of dynamic library. May be just equal BASEEXT.
++MAKE = make
++FULLEXT = Zerg
++BASEEXT = Zerg
++PARENT_NAME =
++DLBASE = $(BASEEXT)
++VERSION_FROM = Zerg.pm
++INC =
++DEFINE =
++OBJECT = $(BASEEXT)$(OBJ_EXT)
++LDFROM = $(OBJECT)
++LINKTYPE = dynamic
++BOOTDEP =
++
++# Handy lists of source code files:
++XS_FILES = Zerg.xs
++C_FILES = Zerg.c
++O_FILES = Zerg.o
++H_FILES =
++MAN1PODS =
++MAN3PODS = Zerg.pm
++
++# Where is the Config information that we are using/depend on
++CONFIGDEP = $(PERL_ARCHLIB)$(DFSEP)Config.pm $(PERL_INC)$(DFSEP)config.h
++
++# Where to build things
++INST_LIBDIR = $(INST_LIB)
++INST_ARCHLIBDIR = $(INST_ARCHLIB)
++
++INST_AUTODIR = $(INST_LIB)/auto/$(FULLEXT)
++INST_ARCHAUTODIR = $(INST_ARCHLIB)/auto/$(FULLEXT)
++
++INST_STATIC = $(INST_ARCHAUTODIR)/$(BASEEXT)$(LIB_EXT)
++INST_DYNAMIC = $(INST_ARCHAUTODIR)/$(DLBASE).$(DLEXT)
++INST_BOOT = $(INST_ARCHAUTODIR)/$(BASEEXT).bs
++
++# Extra linker info
++EXPORT_LIST =
++PERL_ARCHIVE =
++PERL_ARCHIVE_AFTER =
++
++
++TO_INST_PM = Zerg.pm
++
++PM_TO_BLIB = Zerg.pm \
++ $(INST_LIB)/Zerg.pm
++
++
++# --- MakeMaker platform_constants section:
++MM_Unix_VERSION = 6.55_02
++PERL_MALLOC_DEF = -DPERL_EXTMALLOC_DEF -Dmalloc=Perl_malloc -Dfree=Perl_mfree -Drealloc=Perl_realloc -Dcalloc=Perl_calloc
++
++
++# --- MakeMaker tool_autosplit section:
++# Usage: $(AUTOSPLITFILE) FileToSplit AutoDirToSplitInto
++AUTOSPLITFILE = $(ABSPERLRUN) -e 'use AutoSplit; autosplit($$ARGV[0], $$ARGV[1], 0, 1, 1)' --
++
++
++
++# --- MakeMaker tool_xsubpp section:
++
++XSUBPPDIR = /usr/share/perl/5.10/ExtUtils
++XSUBPP = $(XSUBPPDIR)$(DFSEP)xsubpp
++XSUBPPRUN = $(PERLRUN) $(XSUBPP)
++XSPROTOARG =
++XSUBPPDEPS = /usr/share/perl/5.10/ExtUtils/typemap $(XSUBPP)
++XSUBPPARGS = -typemap /usr/share/perl/5.10/ExtUtils/typemap
++XSUBPP_EXTRA_ARGS =
++
++
++# --- MakeMaker tools_other section:
++SHELL = /bin/sh
++CHMOD = chmod
++CP = cp
++MV = mv
++NOOP = $(TRUE)
++NOECHO = @
++RM_F = rm -f
++RM_RF = rm -rf
++TEST_F = test -f
++TOUCH = touch
++UMASK_NULL = umask 0
++DEV_NULL = > /dev/null 2>&1
++MKPATH = $(ABSPERLRUN) -MExtUtils::Command -e 'mkpath' --
++EQUALIZE_TIMESTAMP = $(ABSPERLRUN) -MExtUtils::Command -e 'eqtime' --
++FALSE = false
++TRUE = true
++ECHO = echo
++ECHO_N = echo -n
++UNINST = 0
++VERBINST = 0
++MOD_INSTALL = $(ABSPERLRUN) -MExtUtils::Install -e 'install([ from_to => {@ARGV}, verbose => '\''$(VERBINST)'\'', uninstall_shadows => '\''$(UNINST)'\'', dir_mode => '\''$(PERM_DIR)'\'' ]);' --
++DOC_INSTALL = $(ABSPERLRUN) -MExtUtils::Command::MM -e 'perllocal_install' --
++UNINSTALL = $(ABSPERLRUN) -MExtUtils::Command::MM -e 'uninstall' --
++WARN_IF_OLD_PACKLIST = $(ABSPERLRUN) -MExtUtils::Command::MM -e 'warn_if_old_packlist' --
++MACROSTART =
++MACROEND =
++USEMAKEFILE = -f
++FIXIN = $(ABSPERLRUN) -MExtUtils::MY -e 'MY->fixin(shift)' --
++
++
++# --- MakeMaker makemakerdflt section:
++makemakerdflt : all
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker dist section:
++TAR = tar
++TARFLAGS = cvf
++ZIP = zip
++ZIPFLAGS = -r
++COMPRESS = gzip --best
++SUFFIX = .gz
++SHAR = shar
++PREOP = $(NOECHO) $(NOOP)
++POSTOP = $(NOECHO) $(NOOP)
++TO_UNIX = $(NOECHO) $(NOOP)
++CI = ci -u
++RCS_LABEL = rcs -Nv$(VERSION_SYM): -q
++DIST_CP = best
++DIST_DEFAULT = tardist
++DISTNAME = Zerg
++DISTVNAME = Zerg-1.0.4
++
++
++# --- MakeMaker macro section:
++
++
++# --- MakeMaker depend section:
++
++
++# --- MakeMaker cflags section:
++
++CCFLAGS = -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64
++OPTIMIZE = -O2 -g
++PERLTYPE =
++MPOLLUTE =
++
++
++# --- MakeMaker const_loadlibs section:
++
++# Zerg might depend on some other libraries:
++# See ExtUtils::Liblist for details
++#
++EXTRALIBS = -L/usr/local/lib -lzerg
++LDLOADLIBS = -L/usr/local/lib -lzerg
++BSLOADLIBS =
++
++
++# --- MakeMaker const_cccmd section:
++CCCMD = $(CC) -c $(PASTHRU_INC) $(INC) \
++ $(CCFLAGS) $(OPTIMIZE) \
++ $(PERLTYPE) $(MPOLLUTE) $(DEFINE_VERSION) \
++ $(XS_DEFINE_VERSION)
++
++# --- MakeMaker post_constants section:
++
++
++# --- MakeMaker pasthru section:
++
++PASTHRU = LIBPERL_A="$(LIBPERL_A)"\
++ LINKTYPE="$(LINKTYPE)"\
++ OPTIMIZE="$(OPTIMIZE)"\
++ PREFIX="$(PREFIX)"\
++ PASTHRU_DEFINE="$(PASTHRU_DEFINE)"\
++ PASTHRU_INC="$(PASTHRU_INC)"
++
++
++# --- MakeMaker special_targets section:
++.SUFFIXES : .xs .c .C .cpp .i .s .cxx .cc $(OBJ_EXT)
++
++.PHONY: all config static dynamic test linkext manifest blibdirs clean realclean disttest distdir
++
++
++
++# --- MakeMaker c_o section:
++
++.c.i:
++ cc -E -c $(PASTHRU_INC) $(INC) \
++ $(CCFLAGS) $(OPTIMIZE) \
++ $(PERLTYPE) $(MPOLLUTE) $(DEFINE_VERSION) \
++ $(XS_DEFINE_VERSION) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c > $*.i
++
++.c.s:
++ $(CCCMD) -S $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c
++
++.c$(OBJ_EXT):
++ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c
++
++.cpp$(OBJ_EXT):
++ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.cpp
++
++.cxx$(OBJ_EXT):
++ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.cxx
++
++.cc$(OBJ_EXT):
++ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.cc
++
++.C$(OBJ_EXT):
++ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.C
++
++
++# --- MakeMaker xs_c section:
++
++.xs.c:
++ $(XSUBPPRUN) $(XSPROTOARG) $(XSUBPPARGS) $(XSUBPP_EXTRA_ARGS) $*.xs > $*.xsc && $(MV) $*.xsc $*.c
++
++
++# --- MakeMaker xs_o section:
++
++.xs$(OBJ_EXT):
++ $(XSUBPPRUN) $(XSPROTOARG) $(XSUBPPARGS) $*.xs > $*.xsc && $(MV) $*.xsc $*.c
++ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c
++
++
++# --- MakeMaker top_targets section:
++all :: pure_all manifypods
++ $(NOECHO) $(NOOP)
++
++
++pure_all :: config pm_to_blib subdirs linkext
++ $(NOECHO) $(NOOP)
++
++subdirs :: $(MYEXTLIB)
++ $(NOECHO) $(NOOP)
++
++config :: $(FIRST_MAKEFILE) blibdirs
++ $(NOECHO) $(NOOP)
++
++help :
++ perldoc ExtUtils::MakeMaker
++
++
++# --- MakeMaker blibdirs section:
++blibdirs : $(INST_LIBDIR)$(DFSEP).exists $(INST_ARCHLIB)$(DFSEP).exists $(INST_AUTODIR)$(DFSEP).exists $(INST_ARCHAUTODIR)$(DFSEP).exists $(INST_BIN)$(DFSEP).exists $(INST_SCRIPT)$(DFSEP).exists $(INST_MAN1DIR)$(DFSEP).exists $(INST_MAN3DIR)$(DFSEP).exists
++ $(NOECHO) $(NOOP)
++
++# Backwards compat with 6.18 through 6.25
++blibdirs.ts : blibdirs
++ $(NOECHO) $(NOOP)
++
++$(INST_LIBDIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_LIBDIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_LIBDIR)
++ $(NOECHO) $(TOUCH) $(INST_LIBDIR)$(DFSEP).exists
++
++$(INST_ARCHLIB)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_ARCHLIB)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_ARCHLIB)
++ $(NOECHO) $(TOUCH) $(INST_ARCHLIB)$(DFSEP).exists
++
++$(INST_AUTODIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_AUTODIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_AUTODIR)
++ $(NOECHO) $(TOUCH) $(INST_AUTODIR)$(DFSEP).exists
++
++$(INST_ARCHAUTODIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_ARCHAUTODIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_ARCHAUTODIR)
++ $(NOECHO) $(TOUCH) $(INST_ARCHAUTODIR)$(DFSEP).exists
++
++$(INST_BIN)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_BIN)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_BIN)
++ $(NOECHO) $(TOUCH) $(INST_BIN)$(DFSEP).exists
++
++$(INST_SCRIPT)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_SCRIPT)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_SCRIPT)
++ $(NOECHO) $(TOUCH) $(INST_SCRIPT)$(DFSEP).exists
++
++$(INST_MAN1DIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_MAN1DIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_MAN1DIR)
++ $(NOECHO) $(TOUCH) $(INST_MAN1DIR)$(DFSEP).exists
++
++$(INST_MAN3DIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_MAN3DIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_MAN3DIR)
++ $(NOECHO) $(TOUCH) $(INST_MAN3DIR)$(DFSEP).exists
++
++
++
++# --- MakeMaker linkext section:
++
++linkext :: $(LINKTYPE)
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker dlsyms section:
++
++
++# --- MakeMaker dynamic section:
++
++dynamic :: $(FIRST_MAKEFILE) $(INST_DYNAMIC) $(INST_BOOT)
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker dynamic_bs section:
++BOOTSTRAP = $(BASEEXT).bs
++
++# As Mkbootstrap might not write a file (if none is required)
++# we use touch to prevent make continually trying to remake it.
++# The DynaLoader only reads a non-empty file.
++$(BOOTSTRAP) : $(FIRST_MAKEFILE) $(BOOTDEP) $(INST_ARCHAUTODIR)$(DFSEP).exists
++ $(NOECHO) $(ECHO) "Running Mkbootstrap for $(NAME) ($(BSLOADLIBS))"
++ $(NOECHO) $(PERLRUN) \
++ "-MExtUtils::Mkbootstrap" \
++ -e "Mkbootstrap('$(BASEEXT)','$(BSLOADLIBS)');"
++ $(NOECHO) $(TOUCH) $@
++ $(CHMOD) $(PERM_RW) $@
++
++$(INST_BOOT) : $(BOOTSTRAP) $(INST_ARCHAUTODIR)$(DFSEP).exists
++ $(NOECHO) $(RM_RF) $@
++ - $(CP) $(BOOTSTRAP) $@
++ $(CHMOD) $(PERM_RW) $@
++
++
++# --- MakeMaker dynamic_lib section:
++
++# This section creates the dynamically loadable $(INST_DYNAMIC)
++# from $(OBJECT) and possibly $(MYEXTLIB).
++ARMAYBE = :
++OTHERLDFLAGS =
++INST_DYNAMIC_DEP =
++INST_DYNAMIC_FIX =
++
++$(INST_DYNAMIC): $(OBJECT) $(MYEXTLIB) $(BOOTSTRAP) $(INST_ARCHAUTODIR)$(DFSEP).exists $(EXPORT_LIST) $(PERL_ARCHIVE) $(PERL_ARCHIVE_AFTER) $(INST_DYNAMIC_DEP)
++ $(RM_F) $@
++ $(LD) $(LDDLFLAGS) $(LDFROM) $(OTHERLDFLAGS) -o $@ $(MYEXTLIB) \
++ $(PERL_ARCHIVE) $(LDLOADLIBS) $(PERL_ARCHIVE_AFTER) $(EXPORT_LIST) \
++ $(INST_DYNAMIC_FIX)
++ $(CHMOD) $(PERM_RWX) $@
++
++
++# --- MakeMaker static section:
++
++## $(INST_PM) has been moved to the all: target.
++## It remains here for awhile to allow for old usage: "make static"
++static :: $(FIRST_MAKEFILE) $(INST_STATIC)
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker static_lib section:
++
++$(INST_STATIC) : $(OBJECT) $(MYEXTLIB) $(INST_ARCHAUTODIR)$(DFSEP).exists
++ $(RM_RF) $@
++ $(FULL_AR) $(AR_STATIC_ARGS) $@ $(OBJECT) && $(RANLIB) $@
++ $(CHMOD) $(PERM_RWX) $@
++ $(NOECHO) $(ECHO) "$(EXTRALIBS)" > $(INST_ARCHAUTODIR)/extralibs.ld
++
++
++# --- MakeMaker manifypods section:
++
++POD2MAN_EXE = $(PERLRUN) "-MExtUtils::Command::MM" -e pod2man "--"
++POD2MAN = $(POD2MAN_EXE)
++
++
++manifypods : pure_all \
++ Zerg.pm
++ $(NOECHO) $(POD2MAN) --section=$(MAN3EXT) --perm_rw=$(PERM_RW) \
++ Zerg.pm $(INST_MAN3DIR)/Zerg.$(MAN3EXT)
++
++
++
++
++# --- MakeMaker processPL section:
++
++
++# --- MakeMaker installbin section:
++
++
++# --- MakeMaker subdirs section:
++
++# The default clean, realclean and test targets in this Makefile
++# have automatically been given entries for each subdir.
++
++
++subdirs ::
++ $(NOECHO) cd Report && $(MAKE) $(USEMAKEFILE) $(FIRST_MAKEFILE) all $(PASTHRU)
++
++
++# --- MakeMaker clean_subdirs section:
++clean_subdirs :
++ $(ABSPERLRUN) -e 'chdir '\''Report'\''; system '\''$(MAKE) clean'\'' if -f '\''$(FIRST_MAKEFILE)'\'';' --
++
++
++# --- MakeMaker clean section:
++
++# Delete temporary files but do not touch installed files. We don't delete
++# the Makefile here so a later make realclean still has a makefile to use.
++
++clean :: clean_subdirs
++ - $(RM_F) \
++ *$(LIB_EXT) core \
++ core.[0-9] $(INST_ARCHAUTODIR)/extralibs.all \
++ core.[0-9][0-9] $(BASEEXT).bso \
++ pm_to_blib.ts core.[0-9][0-9][0-9][0-9] \
++ $(BASEEXT).x $(BOOTSTRAP) \
++ perl$(EXE_EXT) tmon.out \
++ Zerg.c *$(OBJ_EXT) \
++ pm_to_blib $(INST_ARCHAUTODIR)/extralibs.ld \
++ blibdirs.ts core.[0-9][0-9][0-9][0-9][0-9] \
++ *perl.core core.*perl.*.? \
++ $(MAKE_APERL_FILE) $(BASEEXT).def \
++ perl core.[0-9][0-9][0-9] \
++ mon.out lib$(BASEEXT).def \
++ perl.exe perlmain.c \
++ so_locations $(BASEEXT).exp
++ - $(RM_RF) \
++ blib
++ - $(MV) $(FIRST_MAKEFILE) $(MAKEFILE_OLD) $(DEV_NULL)
++
++
++# --- MakeMaker realclean_subdirs section:
++realclean_subdirs :
++ - $(ABSPERLRUN) -e 'chdir '\''Report'\''; system '\''$(MAKE) $(USEMAKEFILE) $(MAKEFILE_OLD) realclean'\'' if -f '\''$(MAKEFILE_OLD)'\'';' --
++ - $(ABSPERLRUN) -e 'chdir '\''Report'\''; system '\''$(MAKE) $(USEMAKEFILE) $(FIRST_MAKEFILE) realclean'\'' if -f '\''$(FIRST_MAKEFILE)'\'';' --
++
++
++# --- MakeMaker realclean section:
++# Delete temporary files (via clean) and also delete dist files
++realclean purge :: clean realclean_subdirs
++ - $(RM_F) \
++ $(OBJECT) $(MAKEFILE_OLD) \
++ $(FIRST_MAKEFILE)
++ - $(RM_RF) \
++ $(DISTVNAME)
++
++
++# --- MakeMaker metafile section:
++metafile : create_distdir
++ $(NOECHO) $(ECHO) Generating META.yml
++ $(NOECHO) $(ECHO) '--- #YAML:1.0' > META_new.yml
++ $(NOECHO) $(ECHO) 'name: Zerg' >> META_new.yml
++ $(NOECHO) $(ECHO) 'version: 1.0.4' >> META_new.yml
++ $(NOECHO) $(ECHO) 'abstract: a lexical scanner for BLAST reports.' >> META_new.yml
++ $(NOECHO) $(ECHO) 'author:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' - Apuã Paquola <apua at iq.usp.br>' >> META_new.yml
++ $(NOECHO) $(ECHO) 'license: unknown' >> META_new.yml
++ $(NOECHO) $(ECHO) 'distribution_type: module' >> META_new.yml
++ $(NOECHO) $(ECHO) 'configure_requires:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' ExtUtils::MakeMaker: 0' >> META_new.yml
++ $(NOECHO) $(ECHO) 'build_requires:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' ExtUtils::MakeMaker: 0' >> META_new.yml
++ $(NOECHO) $(ECHO) 'requires: {}' >> META_new.yml
++ $(NOECHO) $(ECHO) 'no_index:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' directory:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' - t' >> META_new.yml
++ $(NOECHO) $(ECHO) ' - inc' >> META_new.yml
++ $(NOECHO) $(ECHO) 'generated_by: ExtUtils::MakeMaker version 6.55_02' >> META_new.yml
++ $(NOECHO) $(ECHO) 'meta-spec:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' url: http://module-build.sourceforge.net/META-spec-v1.4.html' >> META_new.yml
++ $(NOECHO) $(ECHO) ' version: 1.4' >> META_new.yml
++ -$(NOECHO) $(MV) META_new.yml $(DISTVNAME)/META.yml
++
++
++# --- MakeMaker signature section:
++signature :
++ cpansign -s
++
++
++# --- MakeMaker dist_basics section:
++distclean :: realclean distcheck
++ $(NOECHO) $(NOOP)
++
++distcheck :
++ $(PERLRUN) "-MExtUtils::Manifest=fullcheck" -e fullcheck
++
++skipcheck :
++ $(PERLRUN) "-MExtUtils::Manifest=skipcheck" -e skipcheck
++
++manifest :
++ $(PERLRUN) "-MExtUtils::Manifest=mkmanifest" -e mkmanifest
++
++veryclean : realclean
++ $(RM_F) *~ */*~ *.orig */*.orig *.bak */*.bak *.old */*.old
++
++
++
++# --- MakeMaker dist_core section:
++
++dist : $(DIST_DEFAULT) $(FIRST_MAKEFILE)
++ $(NOECHO) $(ABSPERLRUN) -l -e 'print '\''Warning: Makefile possibly out of date with $(VERSION_FROM)'\''' \
++ -e ' if -e '\''$(VERSION_FROM)'\'' and -M '\''$(VERSION_FROM)'\'' < -M '\''$(FIRST_MAKEFILE)'\'';' --
++
++tardist : $(DISTVNAME).tar$(SUFFIX)
++ $(NOECHO) $(NOOP)
++
++uutardist : $(DISTVNAME).tar$(SUFFIX)
++ uuencode $(DISTVNAME).tar$(SUFFIX) $(DISTVNAME).tar$(SUFFIX) > $(DISTVNAME).tar$(SUFFIX)_uu
++
++$(DISTVNAME).tar$(SUFFIX) : distdir
++ $(PREOP)
++ $(TO_UNIX)
++ $(TAR) $(TARFLAGS) $(DISTVNAME).tar $(DISTVNAME)
++ $(RM_RF) $(DISTVNAME)
++ $(COMPRESS) $(DISTVNAME).tar
++ $(POSTOP)
++
++zipdist : $(DISTVNAME).zip
++ $(NOECHO) $(NOOP)
++
++$(DISTVNAME).zip : distdir
++ $(PREOP)
++ $(ZIP) $(ZIPFLAGS) $(DISTVNAME).zip $(DISTVNAME)
++ $(RM_RF) $(DISTVNAME)
++ $(POSTOP)
++
++shdist : distdir
++ $(PREOP)
++ $(SHAR) $(DISTVNAME) > $(DISTVNAME).shar
++ $(RM_RF) $(DISTVNAME)
++ $(POSTOP)
++
++
++# --- MakeMaker distdir section:
++create_distdir :
++ $(RM_RF) $(DISTVNAME)
++ $(PERLRUN) "-MExtUtils::Manifest=manicopy,maniread" \
++ -e "manicopy(maniread(),'$(DISTVNAME)', '$(DIST_CP)');"
++
++distdir : create_distdir distmeta
++ $(NOECHO) $(NOOP)
++
++
++
++# --- MakeMaker dist_test section:
++disttest : distdir
++ cd $(DISTVNAME) && $(ABSPERLRUN) Makefile.PL "INSTALLDIRS=vendor"
++ cd $(DISTVNAME) && $(MAKE) $(PASTHRU)
++ cd $(DISTVNAME) && $(MAKE) test $(PASTHRU)
++
++
++
++# --- MakeMaker dist_ci section:
++
++ci :
++ $(PERLRUN) "-MExtUtils::Manifest=maniread" \
++ -e "@all = keys %{ maniread() };" \
++ -e "print(qq{Executing $(CI) @all\n}); system(qq{$(CI) @all});" \
++ -e "print(qq{Executing $(RCS_LABEL) ...\n}); system(qq{$(RCS_LABEL) @all});"
++
++
++# --- MakeMaker distmeta section:
++distmeta : create_distdir metafile
++ $(NOECHO) cd $(DISTVNAME) && $(ABSPERLRUN) -MExtUtils::Manifest=maniadd -e 'eval { maniadd({q{META.yml} => q{Module meta-data (added by MakeMaker)}}) } ' \
++ -e ' or print "Could not add META.yml to MANIFEST: $${'\''@'\''}\n"' --
++
++
++
++# --- MakeMaker distsignature section:
++distsignature : create_distdir
++ $(NOECHO) cd $(DISTVNAME) && $(ABSPERLRUN) -MExtUtils::Manifest=maniadd -e 'eval { maniadd({q{SIGNATURE} => q{Public-key signature (added by MakeMaker)}}) } ' \
++ -e ' or print "Could not add SIGNATURE to MANIFEST: $${'\''@'\''}\n"' --
++ $(NOECHO) cd $(DISTVNAME) && $(TOUCH) SIGNATURE
++ cd $(DISTVNAME) && cpansign -s
++
++
++
++# --- MakeMaker install section:
++
++install :: pure_install doc_install
++ $(NOECHO) $(NOOP)
++
++install_perl :: pure_perl_install doc_perl_install
++ $(NOECHO) $(NOOP)
++
++install_site :: pure_site_install doc_site_install
++ $(NOECHO) $(NOOP)
++
++install_vendor :: pure_vendor_install doc_vendor_install
++ $(NOECHO) $(NOOP)
++
++pure_install :: pure_$(INSTALLDIRS)_install
++ $(NOECHO) $(NOOP)
++
++doc_install :: doc_$(INSTALLDIRS)_install
++ $(NOECHO) $(NOOP)
++
++pure__install : pure_site_install
++ $(NOECHO) $(ECHO) INSTALLDIRS not defined, defaulting to INSTALLDIRS=site
++
++doc__install : doc_site_install
++ $(NOECHO) $(ECHO) INSTALLDIRS not defined, defaulting to INSTALLDIRS=site
++
++pure_perl_install :: all
++ $(NOECHO) umask 022; $(MOD_INSTALL) \
++ $(INST_LIB) $(DESTINSTALLPRIVLIB) \
++ $(INST_ARCHLIB) $(DESTINSTALLARCHLIB) \
++ $(INST_BIN) $(DESTINSTALLBIN) \
++ $(INST_SCRIPT) $(DESTINSTALLSCRIPT) \
++ $(INST_MAN1DIR) $(DESTINSTALLMAN1DIR) \
++ $(INST_MAN3DIR) $(DESTINSTALLMAN3DIR)
++ $(NOECHO) $(WARN_IF_OLD_PACKLIST) \
++ $(SITEARCHEXP)/auto/$(FULLEXT)
++
++
++pure_site_install :: all
++ $(NOECHO) umask 02; $(MOD_INSTALL) \
++ read $(SITEARCHEXP)/auto/$(FULLEXT)/.packlist \
++ write $(DESTINSTALLSITEARCH)/auto/$(FULLEXT)/.packlist \
++ $(INST_LIB) $(DESTINSTALLSITELIB) \
++ $(INST_ARCHLIB) $(DESTINSTALLSITEARCH) \
++ $(INST_BIN) $(DESTINSTALLSITEBIN) \
++ $(INST_SCRIPT) $(DESTINSTALLSITESCRIPT) \
++ $(INST_MAN1DIR) $(DESTINSTALLSITEMAN1DIR) \
++ $(INST_MAN3DIR) $(DESTINSTALLSITEMAN3DIR)
++ $(NOECHO) $(WARN_IF_OLD_PACKLIST) \
++ $(PERL_ARCHLIB)/auto/$(FULLEXT)
++
++pure_vendor_install :: all
++ $(NOECHO) umask 022; $(MOD_INSTALL) \
++ $(INST_LIB) $(DESTINSTALLVENDORLIB) \
++ $(INST_ARCHLIB) $(DESTINSTALLVENDORARCH) \
++ $(INST_BIN) $(DESTINSTALLVENDORBIN) \
++ $(INST_SCRIPT) $(DESTINSTALLVENDORSCRIPT) \
++ $(INST_MAN1DIR) $(DESTINSTALLVENDORMAN1DIR) \
++ $(INST_MAN3DIR) $(DESTINSTALLVENDORMAN3DIR)
++
++doc_perl_install :: all
++
++doc_site_install :: all
++ $(NOECHO) $(ECHO) Appending installation info to $(DESTINSTALLSITEARCH)/perllocal.pod
++ -$(NOECHO) umask 02; $(MKPATH) $(DESTINSTALLSITEARCH)
++ -$(NOECHO) umask 02; $(DOC_INSTALL) \
++ "Module" "$(NAME)" \
++ "installed into" "$(INSTALLSITELIB)" \
++ LINKTYPE "$(LINKTYPE)" \
++ VERSION "$(VERSION)" \
++ EXE_FILES "$(EXE_FILES)" \
++ >> $(DESTINSTALLSITEARCH)/perllocal.pod
++
++doc_vendor_install :: all
++
++
++uninstall :: uninstall_from_$(INSTALLDIRS)dirs
++ $(NOECHO) $(NOOP)
++
++uninstall_from_perldirs ::
++
++uninstall_from_sitedirs ::
++ $(NOECHO) $(UNINSTALL) $(SITEARCHEXP)/auto/$(FULLEXT)/.packlist
++
++uninstall_from_vendordirs ::
++
++
++
++# --- MakeMaker force section:
++# Phony target to force checking subdirectories.
++FORCE :
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker perldepend section:
++
++PERL_HDRS = \
++ $(PERL_INC)/EXTERN.h \
++ $(PERL_INC)/INTERN.h \
++ $(PERL_INC)/XSUB.h \
++ $(PERL_INC)/av.h \
++ $(PERL_INC)/cc_runtime.h \
++ $(PERL_INC)/config.h \
++ $(PERL_INC)/cop.h \
++ $(PERL_INC)/cv.h \
++ $(PERL_INC)/dosish.h \
++ $(PERL_INC)/embed.h \
++ $(PERL_INC)/embedvar.h \
++ $(PERL_INC)/fakethr.h \
++ $(PERL_INC)/form.h \
++ $(PERL_INC)/gv.h \
++ $(PERL_INC)/handy.h \
++ $(PERL_INC)/hv.h \
++ $(PERL_INC)/intrpvar.h \
++ $(PERL_INC)/iperlsys.h \
++ $(PERL_INC)/keywords.h \
++ $(PERL_INC)/mg.h \
++ $(PERL_INC)/nostdio.h \
++ $(PERL_INC)/op.h \
++ $(PERL_INC)/opcode.h \
++ $(PERL_INC)/patchlevel.h \
++ $(PERL_INC)/perl.h \
++ $(PERL_INC)/perlio.h \
++ $(PERL_INC)/perlsdio.h \
++ $(PERL_INC)/perlsfio.h \
++ $(PERL_INC)/perlvars.h \
++ $(PERL_INC)/perly.h \
++ $(PERL_INC)/pp.h \
++ $(PERL_INC)/pp_proto.h \
++ $(PERL_INC)/proto.h \
++ $(PERL_INC)/regcomp.h \
++ $(PERL_INC)/regexp.h \
++ $(PERL_INC)/regnodes.h \
++ $(PERL_INC)/scope.h \
++ $(PERL_INC)/sv.h \
++ $(PERL_INC)/thread.h \
++ $(PERL_INC)/unixish.h \
++ $(PERL_INC)/util.h
++
++$(OBJECT) : $(PERL_HDRS)
++
++Zerg.c : $(XSUBPPDEPS)
++
++
++# --- MakeMaker makefile section:
++
++$(OBJECT) : $(FIRST_MAKEFILE)
++
++# We take a very conservative approach here, but it's worth it.
++# We move Makefile to Makefile.old here to avoid gnu make looping.
++$(FIRST_MAKEFILE) : Makefile.PL $(CONFIGDEP)
++ $(NOECHO) $(ECHO) "Makefile out-of-date with respect to $?"
++ $(NOECHO) $(ECHO) "Cleaning current config before rebuilding Makefile..."
++ -$(NOECHO) $(RM_F) $(MAKEFILE_OLD)
++ -$(NOECHO) $(MV) $(FIRST_MAKEFILE) $(MAKEFILE_OLD)
++ - $(MAKE) $(USEMAKEFILE) $(MAKEFILE_OLD) clean $(DEV_NULL)
++ $(PERLRUN) Makefile.PL "INSTALLDIRS=vendor"
++ $(NOECHO) $(ECHO) "==> Your Makefile has been rebuilt. <=="
++ $(NOECHO) $(ECHO) "==> Please rerun the $(MAKE) command. <=="
++ $(FALSE)
++
++
++
++# --- MakeMaker staticmake section:
++
++# --- MakeMaker makeaperl section ---
++MAP_TARGET = perl
++FULLPERL = /usr/bin/perl
++
++$(MAP_TARGET) :: static $(MAKE_APERL_FILE)
++ $(MAKE) $(USEMAKEFILE) $(MAKE_APERL_FILE) $@
++
++$(MAKE_APERL_FILE) : $(FIRST_MAKEFILE) pm_to_blib
++ $(NOECHO) $(ECHO) Writing \"$(MAKE_APERL_FILE)\" for this $(MAP_TARGET)
++ $(NOECHO) $(PERLRUNINST) \
++ Makefile.PL DIR=Report \
++ MAKEFILE=$(MAKE_APERL_FILE) LINKTYPE=static \
++ MAKEAPERL=1 NORECURS=1 CCCDLFLAGS= \
++ INSTALLDIRS=vendor
++
++
++# --- MakeMaker test section:
++
++TEST_VERBOSE=0
++TEST_TYPE=test_$(LINKTYPE)
++TEST_FILE = test.pl
++TEST_FILES =
++TESTDB_SW = -d
++
++testdb :: testdb_$(LINKTYPE)
++
++test :: $(TEST_TYPE) subdirs-test
++
++subdirs-test ::
++ $(NOECHO) $(NOOP)
++
++subdirs-test ::
++ $(NOECHO) cd Report && $(MAKE) test $(PASTHRU)
++
++
++test_dynamic :: pure_all
++ PERL_DL_NONLAZY=1 $(FULLPERLRUN) "-I$(INST_LIB)" "-I$(INST_ARCHLIB)" $(TEST_FILE)
++
++testdb_dynamic :: pure_all
++ PERL_DL_NONLAZY=1 $(FULLPERLRUN) $(TESTDB_SW) "-I$(INST_LIB)" "-I$(INST_ARCHLIB)" $(TEST_FILE)
++
++test_ : test_dynamic
++
++test_static :: pure_all $(MAP_TARGET)
++ PERL_DL_NONLAZY=1 ./$(MAP_TARGET) "-I$(INST_LIB)" "-I$(INST_ARCHLIB)" $(TEST_FILE)
++
++testdb_static :: pure_all $(MAP_TARGET)
++ PERL_DL_NONLAZY=1 ./$(MAP_TARGET) $(TESTDB_SW) "-I$(INST_LIB)" "-I$(INST_ARCHLIB)" $(TEST_FILE)
++
++
++
++# --- MakeMaker ppd section:
++# Creates a PPD (Perl Package Description) for a binary distribution.
++ppd :
++ $(NOECHO) $(ECHO) '<SOFTPKG NAME="$(DISTNAME)" VERSION="1.0.4">' > $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <ABSTRACT>a lexical scanner for BLAST reports.</ABSTRACT>' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <AUTHOR>Apuã Paquola <apua at iq.usp.br></AUTHOR>' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <IMPLEMENTATION>' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <ARCHITECTURE NAME="x86_64-linux-gnu-thread-multi-5.10" />' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <CODEBASE HREF="" />' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' </IMPLEMENTATION>' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) '</SOFTPKG>' >> $(DISTNAME).ppd
++
++
++# --- MakeMaker pm_to_blib section:
++
++pm_to_blib : $(FIRST_MAKEFILE) $(TO_INST_PM)
++ $(NOECHO) $(ABSPERLRUN) -MExtUtils::Install -e 'pm_to_blib({@ARGV}, '\''$(INST_LIB)/auto'\'', q[$(PM_FILTER)], '\''$(PERM_DIR)'\'')' -- \
++ Zerg.pm $(INST_LIB)/Zerg.pm
++ $(NOECHO) $(TOUCH) pm_to_blib
++
++
++# --- MakeMaker selfdocument section:
++
++
++# --- MakeMaker postamble section:
++
++
++# End.
+--- /dev/null
++++ libzerg-perl-1.0.4/Zerg/Report/Makefile.old
+@@ -0,0 +1,602 @@
++# This Makefile is for the Zerg::Report extension to perl.
++#
++# It was generated automatically by MakeMaker version
++# 6.55_02 (Revision: 65502) from the contents of
++# Makefile.PL. Don't edit this file, edit Makefile.PL instead.
++#
++# ANY CHANGES MADE HERE WILL BE LOST!
++#
++# MakeMaker ARGV: (q[INSTALLDIRS=vendor])
++#
++
++# MakeMaker Parameters:
++
++# ABSTRACT_FROM => q[Report.pm]
++# AUTHOR => q[Abimael A. Machado <abimael at iq.usp.br>]
++# BUILD_REQUIRES => { }
++# NAME => q[Zerg::Report]
++# PREREQ_PM => { }
++# VERSION_FROM => q[Report.pm]
++
++# --- MakeMaker post_initialize section:
++
++
++# --- MakeMaker const_config section:
++
++# These definitions are from config.sh (via /usr/lib/perl/5.10/Config.pm).
++# They may have been overridden via Makefile.PL or on the command line.
++AR = ar
++CC = cc
++CCCDLFLAGS = -fPIC
++CCDLFLAGS = -Wl,-E
++DLEXT = so
++DLSRC = dl_dlopen.xs
++EXE_EXT =
++FULL_AR = /usr/bin/ar
++LD = cc
++LDDLFLAGS = -shared -O2 -g -L/usr/local/lib -fstack-protector
++LDFLAGS = -fstack-protector -L/usr/local/lib
++LIBC = /lib/libc-2.11.2.so
++LIB_EXT = .a
++OBJ_EXT = .o
++OSNAME = linux
++OSVERS = 2.6.32-5-amd64
++RANLIB = :
++SITELIBEXP = /usr/local/share/perl/5.10.1
++SITEARCHEXP = /usr/local/lib/perl/5.10.1
++SO = so
++VENDORARCHEXP = /usr/lib/perl5
++VENDORLIBEXP = /usr/share/perl5
++
++
++# --- MakeMaker constants section:
++AR_STATIC_ARGS = cr
++DIRFILESEP = /
++DFSEP = $(DIRFILESEP)
++NAME = Zerg::Report
++NAME_SYM = Zerg_Report
++VERSION = 1.0.4
++VERSION_MACRO = VERSION
++VERSION_SYM = 1_0_4
++DEFINE_VERSION = -D$(VERSION_MACRO)=\"$(VERSION)\"
++XS_VERSION = 1.0.4
++XS_VERSION_MACRO = XS_VERSION
++XS_DEFINE_VERSION = -D$(XS_VERSION_MACRO)=\"$(XS_VERSION)\"
++INST_ARCHLIB = ../blib/arch
++INST_SCRIPT = ../blib/script
++INST_BIN = ../blib/bin
++INST_LIB = ../blib/lib
++INST_MAN1DIR = ../blib/man1
++INST_MAN3DIR = ../blib/man3
++MAN1EXT = 1p
++MAN3EXT = 3pm
++INSTALLDIRS = site
++DESTDIR =
++PREFIX = /usr
++PERLPREFIX = $(PREFIX)
++SITEPREFIX = $(PREFIX)/local
++VENDORPREFIX = $(PREFIX)
++INSTALLPRIVLIB = $(PERLPREFIX)/share/perl/5.10
++DESTINSTALLPRIVLIB = $(DESTDIR)$(INSTALLPRIVLIB)
++INSTALLSITELIB = $(SITEPREFIX)/share/perl/5.10.1
++DESTINSTALLSITELIB = $(DESTDIR)$(INSTALLSITELIB)
++INSTALLVENDORLIB = $(VENDORPREFIX)/share/perl5
++DESTINSTALLVENDORLIB = $(DESTDIR)$(INSTALLVENDORLIB)
++INSTALLARCHLIB = $(PERLPREFIX)/lib/perl/5.10
++DESTINSTALLARCHLIB = $(DESTDIR)$(INSTALLARCHLIB)
++INSTALLSITEARCH = $(SITEPREFIX)/lib/perl/5.10.1
++DESTINSTALLSITEARCH = $(DESTDIR)$(INSTALLSITEARCH)
++INSTALLVENDORARCH = $(VENDORPREFIX)/lib/perl5
++DESTINSTALLVENDORARCH = $(DESTDIR)$(INSTALLVENDORARCH)
++INSTALLBIN = $(PERLPREFIX)/bin
++DESTINSTALLBIN = $(DESTDIR)$(INSTALLBIN)
++INSTALLSITEBIN = $(SITEPREFIX)/bin
++DESTINSTALLSITEBIN = $(DESTDIR)$(INSTALLSITEBIN)
++INSTALLVENDORBIN = $(VENDORPREFIX)/bin
++DESTINSTALLVENDORBIN = $(DESTDIR)$(INSTALLVENDORBIN)
++INSTALLSCRIPT = $(PERLPREFIX)/bin
++DESTINSTALLSCRIPT = $(DESTDIR)$(INSTALLSCRIPT)
++INSTALLSITESCRIPT = $(SITEPREFIX)/bin
++DESTINSTALLSITESCRIPT = $(DESTDIR)$(INSTALLSITESCRIPT)
++INSTALLVENDORSCRIPT = $(VENDORPREFIX)/bin
++DESTINSTALLVENDORSCRIPT = $(DESTDIR)$(INSTALLVENDORSCRIPT)
++INSTALLMAN1DIR = $(PERLPREFIX)/share/man/man1
++DESTINSTALLMAN1DIR = $(DESTDIR)$(INSTALLMAN1DIR)
++INSTALLSITEMAN1DIR = $(SITEPREFIX)/man/man1
++DESTINSTALLSITEMAN1DIR = $(DESTDIR)$(INSTALLSITEMAN1DIR)
++INSTALLVENDORMAN1DIR = $(VENDORPREFIX)/share/man/man1
++DESTINSTALLVENDORMAN1DIR = $(DESTDIR)$(INSTALLVENDORMAN1DIR)
++INSTALLMAN3DIR = $(PERLPREFIX)/share/man/man3
++DESTINSTALLMAN3DIR = $(DESTDIR)$(INSTALLMAN3DIR)
++INSTALLSITEMAN3DIR = $(SITEPREFIX)/man/man3
++DESTINSTALLSITEMAN3DIR = $(DESTDIR)$(INSTALLSITEMAN3DIR)
++INSTALLVENDORMAN3DIR = $(VENDORPREFIX)/share/man/man3
++DESTINSTALLVENDORMAN3DIR = $(DESTDIR)$(INSTALLVENDORMAN3DIR)
++PERL_LIB = /usr/share/perl/5.10
++PERL_ARCHLIB = /usr/lib/perl/5.10
++LIBPERL_A = libperl.a
++FIRST_MAKEFILE = Makefile
++MAKEFILE_OLD = Makefile.old
++MAKE_APERL_FILE = Makefile.aperl
++PERLMAINCC = $(CC)
++PERL_INC = /usr/lib/perl/5.10/CORE
++PERL = /usr/bin/perl
++FULLPERL = /usr/bin/perl
++ABSPERL = $(PERL)
++PERLRUN = $(PERL)
++FULLPERLRUN = $(FULLPERL)
++ABSPERLRUN = $(ABSPERL)
++PERLRUNINST = $(PERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
++FULLPERLRUNINST = $(FULLPERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
++ABSPERLRUNINST = $(ABSPERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
++PERL_CORE = 0
++PERM_DIR = 755
++PERM_RW = 644
++PERM_RWX = 755
++
++MAKEMAKER = /usr/share/perl/5.10/ExtUtils/MakeMaker.pm
++MM_VERSION = 6.55_02
++MM_REVISION = 65502
++
++# FULLEXT = Pathname for extension directory (eg Foo/Bar/Oracle).
++# BASEEXT = Basename part of FULLEXT. May be just equal FULLEXT. (eg Oracle)
++# PARENT_NAME = NAME without BASEEXT and no trailing :: (eg Foo::Bar)
++# DLBASE = Basename part of dynamic library. May be just equal BASEEXT.
++MAKE = make
++FULLEXT = Zerg/Report
++BASEEXT = Report
++PARENT_NAME = Zerg
++DLBASE = $(BASEEXT)
++VERSION_FROM = Report.pm
++OBJECT =
++LDFROM = $(OBJECT)
++LINKTYPE = dynamic
++BOOTDEP =
++
++# Handy lists of source code files:
++XS_FILES =
++C_FILES =
++O_FILES =
++H_FILES =
++MAN1PODS =
++MAN3PODS = Report.pm
++
++# Where is the Config information that we are using/depend on
++CONFIGDEP = $(PERL_ARCHLIB)$(DFSEP)Config.pm $(PERL_INC)$(DFSEP)config.h
++
++# Where to build things
++INST_LIBDIR = $(INST_LIB)/Zerg
++INST_ARCHLIBDIR = $(INST_ARCHLIB)/Zerg
++
++INST_AUTODIR = $(INST_LIB)/auto/$(FULLEXT)
++INST_ARCHAUTODIR = $(INST_ARCHLIB)/auto/$(FULLEXT)
++
++INST_STATIC =
++INST_DYNAMIC =
++INST_BOOT =
++
++# Extra linker info
++EXPORT_LIST =
++PERL_ARCHIVE =
++PERL_ARCHIVE_AFTER =
++
++
++TO_INST_PM = Report.pm
++
++PM_TO_BLIB = Report.pm \
++ $(INST_LIB)/Zerg/Report.pm
++
++
++# --- MakeMaker platform_constants section:
++MM_Unix_VERSION = 6.55_02
++PERL_MALLOC_DEF = -DPERL_EXTMALLOC_DEF -Dmalloc=Perl_malloc -Dfree=Perl_mfree -Drealloc=Perl_realloc -Dcalloc=Perl_calloc
++
++
++# --- MakeMaker tool_autosplit section:
++# Usage: $(AUTOSPLITFILE) FileToSplit AutoDirToSplitInto
++AUTOSPLITFILE = $(ABSPERLRUN) -e 'use AutoSplit; autosplit($$ARGV[0], $$ARGV[1], 0, 1, 1)' --
++
++
++
++# --- MakeMaker tool_xsubpp section:
++
++
++# --- MakeMaker tools_other section:
++SHELL = /bin/sh
++CHMOD = chmod
++CP = cp
++MV = mv
++NOOP = $(TRUE)
++NOECHO = @
++RM_F = rm -f
++RM_RF = rm -rf
++TEST_F = test -f
++TOUCH = touch
++UMASK_NULL = umask 0
++DEV_NULL = > /dev/null 2>&1
++MKPATH = $(ABSPERLRUN) -MExtUtils::Command -e 'mkpath' --
++EQUALIZE_TIMESTAMP = $(ABSPERLRUN) -MExtUtils::Command -e 'eqtime' --
++FALSE = false
++TRUE = true
++ECHO = echo
++ECHO_N = echo -n
++UNINST = 0
++VERBINST = 0
++MOD_INSTALL = $(ABSPERLRUN) -MExtUtils::Install -e 'install([ from_to => {@ARGV}, verbose => '\''$(VERBINST)'\'', uninstall_shadows => '\''$(UNINST)'\'', dir_mode => '\''$(PERM_DIR)'\'' ]);' --
++DOC_INSTALL = $(ABSPERLRUN) -MExtUtils::Command::MM -e 'perllocal_install' --
++UNINSTALL = $(ABSPERLRUN) -MExtUtils::Command::MM -e 'uninstall' --
++WARN_IF_OLD_PACKLIST = $(ABSPERLRUN) -MExtUtils::Command::MM -e 'warn_if_old_packlist' --
++MACROSTART =
++MACROEND =
++USEMAKEFILE = -f
++FIXIN = $(ABSPERLRUN) -MExtUtils::MY -e 'MY->fixin(shift)' --
++
++
++# --- MakeMaker makemakerdflt section:
++makemakerdflt : all
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker dist section skipped.
++
++# --- MakeMaker macro section:
++
++
++# --- MakeMaker depend section:
++
++
++# --- MakeMaker cflags section:
++
++
++# --- MakeMaker const_loadlibs section:
++
++
++# --- MakeMaker const_cccmd section:
++
++
++# --- MakeMaker post_constants section:
++
++
++# --- MakeMaker pasthru section:
++
++PASTHRU = LIBPERL_A="$(LIBPERL_A)"\
++ LINKTYPE="$(LINKTYPE)"\
++ PREFIX="$(PREFIX)"
++
++
++# --- MakeMaker special_targets section:
++.SUFFIXES : .xs .c .C .cpp .i .s .cxx .cc $(OBJ_EXT)
++
++.PHONY: all config static dynamic test linkext manifest blibdirs clean realclean disttest distdir
++
++
++
++# --- MakeMaker c_o section:
++
++
++# --- MakeMaker xs_c section:
++
++
++# --- MakeMaker xs_o section:
++
++
++# --- MakeMaker top_targets section:
++all :: pure_all manifypods
++ $(NOECHO) $(NOOP)
++
++
++pure_all :: config pm_to_blib subdirs linkext
++ $(NOECHO) $(NOOP)
++
++subdirs :: $(MYEXTLIB)
++ $(NOECHO) $(NOOP)
++
++config :: $(FIRST_MAKEFILE) blibdirs
++ $(NOECHO) $(NOOP)
++
++help :
++ perldoc ExtUtils::MakeMaker
++
++
++# --- MakeMaker blibdirs section:
++blibdirs : $(INST_LIBDIR)$(DFSEP).exists $(INST_ARCHLIB)$(DFSEP).exists $(INST_AUTODIR)$(DFSEP).exists $(INST_ARCHAUTODIR)$(DFSEP).exists $(INST_BIN)$(DFSEP).exists $(INST_SCRIPT)$(DFSEP).exists $(INST_MAN1DIR)$(DFSEP).exists $(INST_MAN3DIR)$(DFSEP).exists
++ $(NOECHO) $(NOOP)
++
++# Backwards compat with 6.18 through 6.25
++blibdirs.ts : blibdirs
++ $(NOECHO) $(NOOP)
++
++$(INST_LIBDIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_LIBDIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_LIBDIR)
++ $(NOECHO) $(TOUCH) $(INST_LIBDIR)$(DFSEP).exists
++
++$(INST_ARCHLIB)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_ARCHLIB)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_ARCHLIB)
++ $(NOECHO) $(TOUCH) $(INST_ARCHLIB)$(DFSEP).exists
++
++$(INST_AUTODIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_AUTODIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_AUTODIR)
++ $(NOECHO) $(TOUCH) $(INST_AUTODIR)$(DFSEP).exists
++
++$(INST_ARCHAUTODIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_ARCHAUTODIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_ARCHAUTODIR)
++ $(NOECHO) $(TOUCH) $(INST_ARCHAUTODIR)$(DFSEP).exists
++
++$(INST_BIN)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_BIN)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_BIN)
++ $(NOECHO) $(TOUCH) $(INST_BIN)$(DFSEP).exists
++
++$(INST_SCRIPT)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_SCRIPT)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_SCRIPT)
++ $(NOECHO) $(TOUCH) $(INST_SCRIPT)$(DFSEP).exists
++
++$(INST_MAN1DIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_MAN1DIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_MAN1DIR)
++ $(NOECHO) $(TOUCH) $(INST_MAN1DIR)$(DFSEP).exists
++
++$(INST_MAN3DIR)$(DFSEP).exists :: Makefile.PL
++ $(NOECHO) $(MKPATH) $(INST_MAN3DIR)
++ $(NOECHO) $(CHMOD) $(PERM_DIR) $(INST_MAN3DIR)
++ $(NOECHO) $(TOUCH) $(INST_MAN3DIR)$(DFSEP).exists
++
++
++
++# --- MakeMaker linkext section:
++
++linkext :: $(LINKTYPE)
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker dlsyms section:
++
++
++# --- MakeMaker dynamic section:
++
++dynamic :: $(FIRST_MAKEFILE) $(INST_DYNAMIC) $(INST_BOOT)
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker dynamic_bs section:
++
++BOOTSTRAP =
++
++
++# --- MakeMaker dynamic_lib section:
++
++
++# --- MakeMaker static section:
++
++## $(INST_PM) has been moved to the all: target.
++## It remains here for awhile to allow for old usage: "make static"
++static :: $(FIRST_MAKEFILE) $(INST_STATIC)
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker static_lib section:
++
++
++# --- MakeMaker manifypods section:
++
++POD2MAN_EXE = $(PERLRUN) "-MExtUtils::Command::MM" -e pod2man "--"
++POD2MAN = $(POD2MAN_EXE)
++
++
++manifypods : pure_all \
++ Report.pm
++ $(NOECHO) $(POD2MAN) --section=$(MAN3EXT) --perm_rw=$(PERM_RW) \
++ Report.pm $(INST_MAN3DIR)/Zerg::Report.$(MAN3EXT)
++
++
++
++
++# --- MakeMaker processPL section:
++
++
++# --- MakeMaker installbin section:
++
++
++# --- MakeMaker subdirs section:
++
++# none
++
++# --- MakeMaker clean_subdirs section:
++clean_subdirs :
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker clean section:
++
++# Delete temporary files but do not touch installed files. We don't delete
++# the Makefile here so a later make realclean still has a makefile to use.
++
++clean :: clean_subdirs
++ - $(RM_F) \
++ *$(LIB_EXT) core \
++ core.[0-9] $(INST_ARCHAUTODIR)/extralibs.all \
++ core.[0-9][0-9] $(BASEEXT).bso \
++ pm_to_blib.ts core.[0-9][0-9][0-9][0-9] \
++ $(BASEEXT).x $(BOOTSTRAP) \
++ perl$(EXE_EXT) tmon.out \
++ *$(OBJ_EXT) pm_to_blib \
++ $(INST_ARCHAUTODIR)/extralibs.ld blibdirs.ts \
++ core.[0-9][0-9][0-9][0-9][0-9] *perl.core \
++ core.*perl.*.? $(MAKE_APERL_FILE) \
++ perl $(BASEEXT).def \
++ core.[0-9][0-9][0-9] mon.out \
++ lib$(BASEEXT).def perlmain.c \
++ perl.exe so_locations \
++ $(BASEEXT).exp
++ - $(RM_RF) \
++ blib
++ - $(MV) $(FIRST_MAKEFILE) $(MAKEFILE_OLD) $(DEV_NULL)
++
++
++# --- MakeMaker realclean_subdirs section:
++realclean_subdirs :
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker realclean section:
++# Delete temporary files (via clean) and also delete dist files
++realclean purge :: clean realclean_subdirs
++ - $(RM_F) \
++ $(MAKEFILE_OLD) $(FIRST_MAKEFILE)
++ - $(RM_RF) \
++ $(DISTVNAME)
++
++
++# --- MakeMaker metafile section:
++metafile : create_distdir
++ $(NOECHO) $(ECHO) Generating META.yml
++ $(NOECHO) $(ECHO) '--- #YAML:1.0' > META_new.yml
++ $(NOECHO) $(ECHO) 'name: Zerg-Report' >> META_new.yml
++ $(NOECHO) $(ECHO) 'version: 1.0.4' >> META_new.yml
++ $(NOECHO) $(ECHO) 'abstract: get attributes from a BLAST file in a data structure' >> META_new.yml
++ $(NOECHO) $(ECHO) 'author:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' - Abimael A. Machado <abimael at iq.usp.br>' >> META_new.yml
++ $(NOECHO) $(ECHO) 'license: unknown' >> META_new.yml
++ $(NOECHO) $(ECHO) 'distribution_type: module' >> META_new.yml
++ $(NOECHO) $(ECHO) 'configure_requires:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' ExtUtils::MakeMaker: 0' >> META_new.yml
++ $(NOECHO) $(ECHO) 'build_requires:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' ExtUtils::MakeMaker: 0' >> META_new.yml
++ $(NOECHO) $(ECHO) 'requires: {}' >> META_new.yml
++ $(NOECHO) $(ECHO) 'no_index:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' directory:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' - t' >> META_new.yml
++ $(NOECHO) $(ECHO) ' - inc' >> META_new.yml
++ $(NOECHO) $(ECHO) 'generated_by: ExtUtils::MakeMaker version 6.55_02' >> META_new.yml
++ $(NOECHO) $(ECHO) 'meta-spec:' >> META_new.yml
++ $(NOECHO) $(ECHO) ' url: http://module-build.sourceforge.net/META-spec-v1.4.html' >> META_new.yml
++ $(NOECHO) $(ECHO) ' version: 1.4' >> META_new.yml
++ -$(NOECHO) $(MV) META_new.yml $(DISTVNAME)/META.yml
++
++
++# --- MakeMaker signature section:
++signature :
++ cpansign -s
++
++
++# --- MakeMaker dist_basics section skipped.
++
++# --- MakeMaker dist_core section skipped.
++
++# --- MakeMaker distdir section skipped.
++
++# --- MakeMaker dist_test section skipped.
++
++# --- MakeMaker dist_ci section skipped.
++
++# --- MakeMaker distmeta section:
++distmeta : create_distdir metafile
++ $(NOECHO) cd $(DISTVNAME) && $(ABSPERLRUN) -MExtUtils::Manifest=maniadd -e 'eval { maniadd({q{META.yml} => q{Module meta-data (added by MakeMaker)}}) } ' \
++ -e ' or print "Could not add META.yml to MANIFEST: $${'\''@'\''}\n"' --
++
++
++
++# --- MakeMaker distsignature section:
++distsignature : create_distdir
++ $(NOECHO) cd $(DISTVNAME) && $(ABSPERLRUN) -MExtUtils::Manifest=maniadd -e 'eval { maniadd({q{SIGNATURE} => q{Public-key signature (added by MakeMaker)}}) } ' \
++ -e ' or print "Could not add SIGNATURE to MANIFEST: $${'\''@'\''}\n"' --
++ $(NOECHO) cd $(DISTVNAME) && $(TOUCH) SIGNATURE
++ cd $(DISTVNAME) && cpansign -s
++
++
++
++# --- MakeMaker install section skipped.
++
++# --- MakeMaker force section:
++# Phony target to force checking subdirectories.
++FORCE :
++ $(NOECHO) $(NOOP)
++
++
++# --- MakeMaker perldepend section:
++
++
++# --- MakeMaker makefile section:
++# We take a very conservative approach here, but it's worth it.
++# We move Makefile to Makefile.old here to avoid gnu make looping.
++$(FIRST_MAKEFILE) : Makefile.PL $(CONFIGDEP)
++ $(NOECHO) $(ECHO) "Makefile out-of-date with respect to $?"
++ $(NOECHO) $(ECHO) "Cleaning current config before rebuilding Makefile..."
++ -$(NOECHO) $(RM_F) $(MAKEFILE_OLD)
++ -$(NOECHO) $(MV) $(FIRST_MAKEFILE) $(MAKEFILE_OLD)
++ - $(MAKE) $(USEMAKEFILE) $(MAKEFILE_OLD) clean $(DEV_NULL)
++ $(PERLRUN) Makefile.PL "INSTALLDIRS=vendor"
++ $(NOECHO) $(ECHO) "==> Your Makefile has been rebuilt. <=="
++ $(NOECHO) $(ECHO) "==> Please rerun the $(MAKE) command. <=="
++ $(FALSE)
++
++
++
++# --- MakeMaker staticmake section:
++
++# --- MakeMaker makeaperl section ---
++MAP_TARGET = ../perl
++FULLPERL = /usr/bin/perl
++
++
++# --- MakeMaker test section:
++
++TEST_VERBOSE=0
++TEST_TYPE=test_$(LINKTYPE)
++TEST_FILE = test.pl
++TEST_FILES =
++TESTDB_SW = -d
++
++testdb :: testdb_$(LINKTYPE)
++
++test :: $(TEST_TYPE) subdirs-test
++
++subdirs-test ::
++ $(NOECHO) $(NOOP)
++
++
++test_dynamic :: pure_all
++ PERL_DL_NONLAZY=1 $(FULLPERLRUN) "-I$(INST_LIB)" "-I$(INST_ARCHLIB)" $(TEST_FILE)
++
++testdb_dynamic :: pure_all
++ PERL_DL_NONLAZY=1 $(FULLPERLRUN) $(TESTDB_SW) "-I$(INST_LIB)" "-I$(INST_ARCHLIB)" $(TEST_FILE)
++
++test_ : test_dynamic
++
++test_static :: test_dynamic
++testdb_static :: testdb_dynamic
++
++
++# --- MakeMaker ppd section:
++# Creates a PPD (Perl Package Description) for a binary distribution.
++ppd :
++ $(NOECHO) $(ECHO) '<SOFTPKG NAME="$(DISTNAME)" VERSION="1.0.4">' > $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <ABSTRACT>get attributes from a BLAST file in a data structure</ABSTRACT>' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <AUTHOR>Abimael A. Machado <abimael at iq.usp.br></AUTHOR>' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <IMPLEMENTATION>' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <ARCHITECTURE NAME="x86_64-linux-gnu-thread-multi-5.10" />' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' <CODEBASE HREF="" />' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) ' </IMPLEMENTATION>' >> $(DISTNAME).ppd
++ $(NOECHO) $(ECHO) '</SOFTPKG>' >> $(DISTNAME).ppd
++
++
++# --- MakeMaker pm_to_blib section:
++
++pm_to_blib : $(FIRST_MAKEFILE) $(TO_INST_PM)
++ $(NOECHO) $(ABSPERLRUN) -MExtUtils::Install -e 'pm_to_blib({@ARGV}, '\''$(INST_LIB)/auto'\'', q[$(PM_FILTER)], '\''$(PERM_DIR)'\'')' -- \
++ Report.pm $(INST_LIB)/Zerg/Report.pm
++ $(NOECHO) $(TOUCH) pm_to_blib
++
++
++# --- MakeMaker selfdocument section:
++
++
++# --- MakeMaker postamble section:
++
++
++# End.
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/series
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/series (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/patches/series 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1 @@
+debian-changes-1.0.4-1
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/rules
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/rules (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/rules 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,8 @@
+#!/usr/bin/make -f
+
+include /usr/share/cdbs/1/rules/debhelper.mk
+include /usr/share/cdbs/1/class/perl-makemaker.mk
+
+
+# Add here any variable or target overrides you need.
+DEB_SRCDIR := Zerg
Property changes on: trunk/packages/rostlab/libzerg-perl/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
+ *
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/source/format
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/source/format (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/source/format 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1 @@
+3.0 (quilt)
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/upstream-metadata.yaml
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/upstream-metadata.yaml (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/upstream-metadata.yaml 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,11 @@
+Name: libzerg-perl
+Reference:
+ - Author: Paquola, Apuã C M, Machado, Abimael A, Reis, Eduardo M, Da Silva, Aline M, and Verjovski-Almeida, Sergio
+ Title: 'Zerg: a very fast BLAST parser library.'
+ Journal: Bioinformatics
+ Volume: 19
+ Number: 8
+ Pages: 1035-6
+ Year: 2003
+ URL: http://code.google.com/p/libzerg/
+ PMID: 12761068
Added: trunk/packages/rostlab/libzerg-perl/trunk/debian/watch
===================================================================
--- trunk/packages/rostlab/libzerg-perl/trunk/debian/watch (rev 0)
+++ trunk/packages/rostlab/libzerg-perl/trunk/debian/watch 2011-09-16 12:27:29 UTC (rev 7824)
@@ -0,0 +1,23 @@
+# Example watch control file for uscan
+# Rename this file to "watch" and then you can run the "uscan" command
+# to check for upstream updates and more.
+# See uscan(1) for format
+
+# Compulsory line, this is a version 3 file
+version=3
+
+# Uncomment to examine a Webpage
+# <Webpage URL> <string match>
+#http://www.example.com/downloads.php libzerg-perl-(.*)\.tar\.gz
+
+# Uncomment to examine a Webserver directory
+#http://www.example.com/pub/libzerg-perl-(.*)\.tar\.gz
+
+# Uncommment to examine a FTP server
+#ftp://ftp.example.com/pub/libzerg-perl-(.*)\.tar\.gz debian uupdate
+
+# Uncomment to find new files on sourceforge, for devscripts >= 2.9
+# http://sf.net/libzerg-perl/libzerg-perl-(.*)\.tar\.gz
+
+# Uncomment to find new files on GooglePages
+http://code.google.com/p/libzerg/downloads/list libzerg-perl[_-](.*)\.tar\.gz
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