[med-svn] [Git][med-team/libtfbs-perl][upstream] New upstream version 0.7.1+ds
Bas Couwenberg (@sebastic)
gitlab at salsa.debian.org
Sat Nov 13 11:05:58 GMT 2021
Bas Couwenberg pushed to branch upstream at Debian Med / libtfbs-perl
Commits:
1589aaad by Bas Couwenberg at 2021-11-13T11:58:01+01:00
New upstream version 0.7.1+ds
- - - - -
2 changed files:
- − Makefile
- − Makefile.old
Changes:
=====================================
Makefile deleted
=====================================
@@ -1,1161 +0,0 @@
-# This Makefile is for the TFBS extension to perl.
-#
-# It was generated automatically by MakeMaker version
-# 6.74 (Revision: 67400) from the contents of
-# Makefile.PL. Don't edit this file, edit Makefile.PL instead.
-#
-# ANY CHANGES MADE HERE WILL BE LOST!
-#
-# MakeMaker ARGV: ()
-#
-
-# MakeMaker Parameters:
-
-# BUILD_REQUIRES => { }
-# CONFIGURE_REQUIRES => { }
-# DISTNAME => q[TFBS]
-# NAME => q[TFBS]
-# PREREQ_PM => { }
-# TEST_REQUIRES => { }
-# VERSION => q[0.5.0]
-# dist => { DIST_DEFAULT=>q[all tardist], COMPRESS=>q[gzip -9f], SUFFIX=>q[.gz] }
-
-# --- MakeMaker post_initialize section:
-
-
-# --- MakeMaker const_config section:
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-# These definitions are from config.sh (via /System/Library/Perl/5.12/darwin-thread-multi-2level/Config.pm).
-# They may have been overridden via Makefile.PL or on the command line.
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-CC = clang
-CCCDLFLAGS =
-CCDLFLAGS =
-DLEXT = bundle
-DLSRC = dl_dlopen.xs
-EXE_EXT =
-FULL_AR = /usr/bin/ar
-LD = clang -mmacosx-version-min=10.8
-LDDLFLAGS = -arch i386 -arch x86_64 -bundle -undefined dynamic_lookup -L/usr/local/lib -fstack-protector
-LDFLAGS = -arch i386 -arch x86_64 -fstack-protector -L/usr/local/lib
-LIBC =
-LIB_EXT = .a
-OBJ_EXT = .o
-OSNAME = darwin
-OSVERS = 12.0
-RANLIB = /usr/bin/ar s
-SITELIBEXP = /Library/Perl/5.12
-SITEARCHEXP = /Library/Perl/5.12/darwin-thread-multi-2level
-SO = dylib
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-# --- MakeMaker constants section:
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-NAME_SYM = TFBS
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-VERSION_SYM = 0_5_0
-DEFINE_VERSION = -D$(VERSION_MACRO)=\"$(VERSION)\"
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-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 = 1
-MAN3EXT = 3pm
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-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
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-MAKEMAKER = /Library/Perl/5.12/ExtUtils/MakeMaker.pm
-MM_VERSION = 6.74
-MM_REVISION = 67400
-
-# 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 = TFBS
-BASEEXT = TFBS
-PARENT_NAME =
-DLBASE = $(BASEEXT)
-VERSION_FROM =
-OBJECT =
-LDFROM = $(OBJECT)
-LINKTYPE = dynamic
-BOOTDEP =
-
-# Handy lists of source code files:
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-C_FILES =
-O_FILES =
-H_FILES =
-MAN1PODS =
-MAN3PODS = TFBS/DB/FlatFileDir.pm \
- TFBS/DB/JASPAR2.pm \
- TFBS/DB/JASPAR4.pm \
- TFBS/DB/LocalTRANSFAC.pm \
- TFBS/DB/TRANSFAC.pm \
- TFBS/Matrix.pm \
- TFBS/Matrix/ICM.pm \
- TFBS/Matrix/PFM.pm \
- TFBS/Matrix/PWM.pm \
- TFBS/MatrixSet.pm \
- TFBS/PatternGen.pm \
- TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/AnnSpec/Motif.pm \
- TFBS/PatternGen/Elph.pm \
- TFBS/PatternGen/Elph/Motif.pm \
- TFBS/PatternGen/Gibbs.pm \
- TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/PatternGen/MEME.pm \
- TFBS/PatternGen/MEME/Motif.pm \
- TFBS/PatternGen/SimplePFM.pm \
- TFBS/PatternGen/YMF.pm \
- TFBS/PatternGen/YMF/Motif.pm \
- TFBS/PatternI.pm \
- TFBS/Site.pm \
- TFBS/SitePair.pm \
- TFBS/SitePairSet.pm \
- TFBS/SiteSet.pm \
- TFBS/Word.pm \
- TFBS/Word/Consensus.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_DYNAMIC =
-INST_BOOT =
-
-# Extra linker info
-EXPORT_LIST =
-PERL_ARCHIVE =
-PERL_ARCHIVE_AFTER =
-
-
-TO_INST_PM = TFBS/DB.pm \
- TFBS/DB/FlatFileDir.pm \
- TFBS/DB/JASPAR2.pm \
- TFBS/DB/JASPAR4.pm \
- TFBS/DB/LocalTRANSFAC.pm \
- TFBS/DB/TRANSFAC.pm \
- TFBS/Matrix.pm \
- TFBS/Matrix/ICM.pm \
- TFBS/Matrix/PFM.pm \
- TFBS/Matrix/PWM.pm \
- TFBS/Matrix/_Alignment.pm \
- TFBS/MatrixSet.pm \
- TFBS/PatternGen.pm \
- TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/AnnSpec/Motif.pm \
- TFBS/PatternGen/Elph.pm \
- TFBS/PatternGen/Elph/Motif.pm \
- TFBS/PatternGen/Gibbs.pm \
- TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/PatternGen/MEME.pm \
- TFBS/PatternGen/MEME/Motif.pm \
- TFBS/PatternGen/Motif/Matrix.pm \
- TFBS/PatternGen/Motif/Word.pm \
- TFBS/PatternGen/SimplePFM.pm \
- TFBS/PatternGen/YMF.pm \
- TFBS/PatternGen/YMF/Motif.pm \
- TFBS/PatternGenI.pm \
- TFBS/PatternI.pm \
- TFBS/Site.pm \
- TFBS/SitePair.pm \
- TFBS/SitePairSet.pm \
- TFBS/SiteSet.pm \
- TFBS/Tools/SetOperations.pm \
- TFBS/Word.pm \
- TFBS/Word/Consensus.pm \
- TFBS/_Iterator.pm \
- TFBS/_Iterator/_MatrixSetIterator.pm \
- TFBS/_Iterator/_SiteSetIterator.pm
-
-PM_TO_BLIB = TFBS/PatternGen/YMF.pm \
- $(INST_LIB)/TFBS/PatternGen/YMF.pm \
- TFBS/DB/TRANSFAC.pm \
- $(INST_LIB)/TFBS/DB/TRANSFAC.pm \
- TFBS/DB.pm \
- $(INST_LIB)/TFBS/DB.pm \
- TFBS/DB/LocalTRANSFAC.pm \
- $(INST_LIB)/TFBS/DB/LocalTRANSFAC.pm \
- TFBS/PatternGen/MEME.pm \
- $(INST_LIB)/TFBS/PatternGen/MEME.pm \
- TFBS/PatternGen/Gibbs.pm \
- $(INST_LIB)/TFBS/PatternGen/Gibbs.pm \
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- $(INST_LIB)/TFBS/PatternGen/Elph.pm \
- TFBS/DB/JASPAR4.pm \
- $(INST_LIB)/TFBS/DB/JASPAR4.pm \
- TFBS/PatternGenI.pm \
- $(INST_LIB)/TFBS/PatternGenI.pm \
- TFBS/Matrix/ICM.pm \
- $(INST_LIB)/TFBS/Matrix/ICM.pm \
- TFBS/PatternGen/YMF/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/YMF/Motif.pm \
- TFBS/SitePairSet.pm \
- $(INST_LIB)/TFBS/SitePairSet.pm \
- TFBS/PatternGen/Elph/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/Elph/Motif.pm \
- TFBS/Site.pm \
- $(INST_LIB)/TFBS/Site.pm \
- TFBS/_Iterator/_MatrixSetIterator.pm \
- $(INST_LIB)/TFBS/_Iterator/_MatrixSetIterator.pm \
- TFBS/Tools/SetOperations.pm \
- $(INST_LIB)/TFBS/Tools/SetOperations.pm \
- TFBS/Matrix/PFM.pm \
- $(INST_LIB)/TFBS/Matrix/PFM.pm \
- TFBS/PatternI.pm \
- $(INST_LIB)/TFBS/PatternI.pm \
- TFBS/Word/Consensus.pm \
- $(INST_LIB)/TFBS/Word/Consensus.pm \
- TFBS/PatternGen/Gibbs/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/SiteSet.pm \
- $(INST_LIB)/TFBS/SiteSet.pm \
- TFBS/Matrix/_Alignment.pm \
- $(INST_LIB)/TFBS/Matrix/_Alignment.pm \
- TFBS/PatternGen/AnnSpec.pm \
- $(INST_LIB)/TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/Motif/Word.pm \
- $(INST_LIB)/TFBS/PatternGen/Motif/Word.pm \
- TFBS/SitePair.pm \
- $(INST_LIB)/TFBS/SitePair.pm \
- TFBS/_Iterator/_SiteSetIterator.pm \
- $(INST_LIB)/TFBS/_Iterator/_SiteSetIterator.pm \
- TFBS/_Iterator.pm \
- $(INST_LIB)/TFBS/_Iterator.pm \
- TFBS/PatternGen/MEME/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/MEME/Motif.pm \
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-CI = ci -u
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-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 \
- TFBS/Matrix/PFM.pm \
- TFBS/PatternI.pm \
- TFBS/PatternGen/YMF.pm \
- TFBS/DB/TRANSFAC.pm \
- TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/Word/Consensus.pm \
- TFBS/SiteSet.pm \
- TFBS/DB/LocalTRANSFAC.pm \
- TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/Gibbs.pm \
- TFBS/PatternGen/MEME.pm \
- TFBS/SitePair.pm \
- TFBS/PatternGen/Elph.pm \
- TFBS/DB/FlatFileDir.pm \
- TFBS/PatternGen/MEME/Motif.pm \
- TFBS/DB/JASPAR4.pm \
- TFBS/PatternGen.pm \
- TFBS/MatrixSet.pm \
- TFBS/PatternGen/SimplePFM.pm \
- TFBS/Matrix/ICM.pm \
- TFBS/Word.pm \
- TFBS/SitePairSet.pm \
- TFBS/PatternGen/YMF/Motif.pm \
- TFBS/DB/JASPAR2.pm \
- TFBS/Matrix.pm \
- TFBS/PatternGen/Elph/Motif.pm \
- TFBS/PatternGen/AnnSpec/Motif.pm \
- TFBS/Site.pm \
- TFBS/Matrix/PWM.pm
- $(NOECHO) $(POD2MAN) --section=3 --perm_rw=$(PERM_RW) \
- TFBS/Matrix/PFM.pm $(INST_MAN3DIR)/TFBS::Matrix::PFM.$(MAN3EXT) \
- TFBS/PatternI.pm $(INST_MAN3DIR)/TFBS::PatternI.$(MAN3EXT) \
- TFBS/PatternGen/YMF.pm $(INST_MAN3DIR)/TFBS::PatternGen::YMF.$(MAN3EXT) \
- TFBS/DB/TRANSFAC.pm $(INST_MAN3DIR)/TFBS::DB::TRANSFAC.$(MAN3EXT) \
- TFBS/PatternGen/Gibbs/Motif.pm $(INST_MAN3DIR)/TFBS::PatternGen::Gibbs::Motif.$(MAN3EXT) \
- TFBS/Word/Consensus.pm $(INST_MAN3DIR)/TFBS::Word::Consensus.$(MAN3EXT) \
- TFBS/SiteSet.pm $(INST_MAN3DIR)/TFBS::SiteSet.$(MAN3EXT) \
- TFBS/DB/LocalTRANSFAC.pm $(INST_MAN3DIR)/TFBS::DB::LocalTRANSFAC.$(MAN3EXT) \
- TFBS/PatternGen/AnnSpec.pm $(INST_MAN3DIR)/TFBS::PatternGen::AnnSpec.$(MAN3EXT) \
- TFBS/PatternGen/Gibbs.pm $(INST_MAN3DIR)/TFBS::PatternGen::Gibbs.$(MAN3EXT) \
- TFBS/PatternGen/MEME.pm $(INST_MAN3DIR)/TFBS::PatternGen::MEME.$(MAN3EXT) \
- TFBS/SitePair.pm $(INST_MAN3DIR)/TFBS::SitePair.$(MAN3EXT) \
- TFBS/PatternGen/Elph.pm $(INST_MAN3DIR)/TFBS::PatternGen::Elph.$(MAN3EXT) \
- TFBS/DB/FlatFileDir.pm $(INST_MAN3DIR)/TFBS::DB::FlatFileDir.$(MAN3EXT) \
- TFBS/PatternGen/MEME/Motif.pm $(INST_MAN3DIR)/TFBS::PatternGen::MEME::Motif.$(MAN3EXT) \
- TFBS/DB/JASPAR4.pm $(INST_MAN3DIR)/TFBS::DB::JASPAR4.$(MAN3EXT) \
- TFBS/PatternGen.pm $(INST_MAN3DIR)/TFBS::PatternGen.$(MAN3EXT) \
- TFBS/MatrixSet.pm $(INST_MAN3DIR)/TFBS::MatrixSet.$(MAN3EXT) \
- TFBS/PatternGen/SimplePFM.pm $(INST_MAN3DIR)/TFBS::PatternGen::SimplePFM.$(MAN3EXT) \
- TFBS/Matrix/ICM.pm $(INST_MAN3DIR)/TFBS::Matrix::ICM.$(MAN3EXT) \
- TFBS/Word.pm $(INST_MAN3DIR)/TFBS::Word.$(MAN3EXT) \
- TFBS/SitePairSet.pm $(INST_MAN3DIR)/TFBS::SitePairSet.$(MAN3EXT) \
- TFBS/PatternGen/YMF/Motif.pm $(INST_MAN3DIR)/TFBS::PatternGen::YMF::Motif.$(MAN3EXT) \
- TFBS/DB/JASPAR2.pm $(INST_MAN3DIR)/TFBS::DB::JASPAR2.$(MAN3EXT) \
- TFBS/Matrix.pm $(INST_MAN3DIR)/TFBS::Matrix.$(MAN3EXT) \
- TFBS/PatternGen/Elph/Motif.pm $(INST_MAN3DIR)/TFBS::PatternGen::Elph::Motif.$(MAN3EXT) \
- TFBS/PatternGen/AnnSpec/Motif.pm $(INST_MAN3DIR)/TFBS::PatternGen::AnnSpec::Motif.$(MAN3EXT) \
- TFBS/Site.pm $(INST_MAN3DIR)/TFBS::Site.$(MAN3EXT) \
- TFBS/Matrix/PWM.pm $(INST_MAN3DIR)/TFBS::Matrix::PWM.$(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 Ext && $(MAKE) $(USEMAKEFILE) $(FIRST_MAKEFILE) all $(PASTHRU)
-
-
-# --- MakeMaker clean_subdirs section:
-clean_subdirs :
- $(ABSPERLRUN) -e 'exit 0 unless chdir '\''Ext'\''; system '\''$(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 MYMETA.json \
- core.[0-9][0-9][0-9][0-9] MYMETA.yml \
- $(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) \
- $(BASEEXT).def perl \
- core.[0-9][0-9][0-9] mon.out \
- lib$(BASEEXT).def perl.exe \
- perlmain.c so_locations \
- $(BASEEXT).exp
- - $(RM_RF) \
- blib
- $(NOECHO) $(RM_F) $(MAKEFILE_OLD)
- - $(MV) $(FIRST_MAKEFILE) $(MAKEFILE_OLD) $(DEV_NULL)
-
-
-# --- MakeMaker realclean_subdirs section:
-realclean_subdirs :
- - $(ABSPERLRUN) -e 'chdir '\''Ext'\''; system '\''$(MAKE) $(USEMAKEFILE) $(MAKEFILE_OLD) realclean'\'' if -f '\''$(MAKEFILE_OLD)'\'';' --
- - $(ABSPERLRUN) -e 'chdir '\''Ext'\''; system '\''$(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) \
- $(MAKEFILE_OLD) $(FIRST_MAKEFILE)
- - $(RM_RF) \
- $(DISTVNAME)
-
-
-# --- MakeMaker metafile section:
-metafile : create_distdir
- $(NOECHO) $(ECHO) Generating META.yml
- $(NOECHO) $(ECHO) '---' > META_new.yml
- $(NOECHO) $(ECHO) 'abstract: unknown' >> META_new.yml
- $(NOECHO) $(ECHO) 'author:' >> META_new.yml
- $(NOECHO) $(ECHO) ' - unknown' >> META_new.yml
- $(NOECHO) $(ECHO) 'build_requires:' >> META_new.yml
- $(NOECHO) $(ECHO) ' ExtUtils::MakeMaker: 0' >> META_new.yml
- $(NOECHO) $(ECHO) 'configure_requires:' >> META_new.yml
- $(NOECHO) $(ECHO) ' ExtUtils::MakeMaker: 0' >> META_new.yml
- $(NOECHO) $(ECHO) 'dynamic_config: 1' >> META_new.yml
- $(NOECHO) $(ECHO) 'generated_by: '\''ExtUtils::MakeMaker version 6.74, CPAN::Meta::Converter version 2.132140'\''' >> META_new.yml
- $(NOECHO) $(ECHO) 'license: unknown' >> 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) $(ECHO) 'name: TFBS' >> 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) 'requires: {}' >> META_new.yml
- $(NOECHO) $(ECHO) 'version: v0.5.0' >> META_new.yml
- -$(NOECHO) $(MV) META_new.yml $(DISTVNAME)/META.yml
- $(NOECHO) $(ECHO) Generating META.json
- $(NOECHO) $(ECHO) '{' > META_new.json
- $(NOECHO) $(ECHO) ' "abstract" : "unknown",' >> META_new.json
- $(NOECHO) $(ECHO) ' "author" : [' >> META_new.json
- $(NOECHO) $(ECHO) ' "unknown"' >> META_new.json
- $(NOECHO) $(ECHO) ' ],' >> META_new.json
- $(NOECHO) $(ECHO) ' "dynamic_config" : 1,' >> META_new.json
- $(NOECHO) $(ECHO) ' "generated_by" : "ExtUtils::MakeMaker version 6.74, CPAN::Meta::Converter version 2.132140",' >> META_new.json
- $(NOECHO) $(ECHO) ' "license" : [' >> META_new.json
- $(NOECHO) $(ECHO) ' "unknown"' >> META_new.json
- $(NOECHO) $(ECHO) ' ],' >> META_new.json
- $(NOECHO) $(ECHO) ' "meta-spec" : {' >> META_new.json
- $(NOECHO) $(ECHO) ' "url" : "http://search.cpan.org/perldoc?CPAN::Meta::Spec",' >> META_new.json
- $(NOECHO) $(ECHO) ' "version" : "2"' >> META_new.json
- $(NOECHO) $(ECHO) ' },' >> META_new.json
- $(NOECHO) $(ECHO) ' "name" : "TFBS",' >> META_new.json
- $(NOECHO) $(ECHO) ' "no_index" : {' >> META_new.json
- $(NOECHO) $(ECHO) ' "directory" : [' >> META_new.json
- $(NOECHO) $(ECHO) ' "t",' >> META_new.json
- $(NOECHO) $(ECHO) ' "inc"' >> META_new.json
- $(NOECHO) $(ECHO) ' ]' >> META_new.json
- $(NOECHO) $(ECHO) ' },' >> META_new.json
- $(NOECHO) $(ECHO) ' "prereqs" : {' >> META_new.json
- $(NOECHO) $(ECHO) ' "build" : {' >> META_new.json
- $(NOECHO) $(ECHO) ' "requires" : {' >> META_new.json
- $(NOECHO) $(ECHO) ' "ExtUtils::MakeMaker" : "0"' >> META_new.json
- $(NOECHO) $(ECHO) ' }' >> META_new.json
- $(NOECHO) $(ECHO) ' },' >> META_new.json
- $(NOECHO) $(ECHO) ' "configure" : {' >> META_new.json
- $(NOECHO) $(ECHO) ' "requires" : {' >> META_new.json
- $(NOECHO) $(ECHO) ' "ExtUtils::MakeMaker" : "0"' >> META_new.json
- $(NOECHO) $(ECHO) ' }' >> META_new.json
- $(NOECHO) $(ECHO) ' },' >> META_new.json
- $(NOECHO) $(ECHO) ' "runtime" : {' >> META_new.json
- $(NOECHO) $(ECHO) ' "requires" : {}' >> META_new.json
- $(NOECHO) $(ECHO) ' }' >> META_new.json
- $(NOECHO) $(ECHO) ' },' >> META_new.json
- $(NOECHO) $(ECHO) ' "release_status" : "stable",' >> META_new.json
- $(NOECHO) $(ECHO) ' "version" : "v0.5.0"' >> META_new.json
- $(NOECHO) $(ECHO) '}' >> META_new.json
- -$(NOECHO) $(MV) META_new.json $(DISTVNAME)/META.json
-
-
-# --- 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
- $(NOECHO) $(ECHO) 'Created $(DISTVNAME).tar$(SUFFIX)_uu'
-
-$(DISTVNAME).tar$(SUFFIX) : distdir
- $(PREOP)
- $(TO_UNIX)
- $(TAR) $(TARFLAGS) $(DISTVNAME).tar $(DISTVNAME)
- $(RM_RF) $(DISTVNAME)
- $(COMPRESS) $(DISTVNAME).tar
- $(NOECHO) $(ECHO) 'Created $(DISTVNAME).tar$(SUFFIX)'
- $(POSTOP)
-
-zipdist : $(DISTVNAME).zip
- $(NOECHO) $(NOOP)
-
-$(DISTVNAME).zip : distdir
- $(PREOP)
- $(ZIP) $(ZIPFLAGS) $(DISTVNAME).zip $(DISTVNAME)
- $(RM_RF) $(DISTVNAME)
- $(NOECHO) $(ECHO) 'Created $(DISTVNAME).zip'
- $(POSTOP)
-
-shdist : distdir
- $(PREOP)
- $(SHAR) $(DISTVNAME) > $(DISTVNAME).shar
- $(RM_RF) $(DISTVNAME)
- $(NOECHO) $(ECHO) 'Created $(DISTVNAME).shar'
- $(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
- 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 'exit unless -e q{META.yml};' \
- -e 'eval { maniadd({q{META.yml} => q{Module YAML meta-data (added by MakeMaker)}}) }' \
- -e ' or print "Could not add META.yml to MANIFEST: $$$${'\''@'\''}\n"' --
- $(NOECHO) cd $(DISTVNAME) && $(ABSPERLRUN) -MExtUtils::Manifest=maniadd -e 'exit unless -f q{META.json};' \
- -e 'eval { maniadd({q{META.json} => q{Module JSON meta-data (added by MakeMaker)}}) }' \
- -e ' or print "Could not add META.json to MANIFEST: $$$${'\''@'\''}\n"' --
-
-
-
-# --- MakeMaker distsignature section:
-distsignature : create_distdir
- $(NOECHO) cd $(DISTVNAME) && $(ABSPERLRUN) -MExtUtils::Manifest=maniadd -e 'eval { maniadd({q{SIGNATURE} => q{Public-key signature (added by MakeMaker)}}) }' \
- -e ' or print "Could not add SIGNATURE to MANIFEST: $$$${'\''@'\''}\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) $(MOD_INSTALL) \
- read $(PERL_ARCHLIB)/auto/$(FULLEXT)/.packlist \
- write $(DESTINSTALLARCHLIB)/auto/$(FULLEXT)/.packlist \
- $(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) $(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) $(MOD_INSTALL) \
- read $(VENDORARCHEXP)/auto/$(FULLEXT)/.packlist \
- write $(DESTINSTALLVENDORARCH)/auto/$(FULLEXT)/.packlist \
- $(INST_LIB) $(DESTINSTALLVENDORLIB) \
- $(INST_ARCHLIB) $(DESTINSTALLVENDORARCH) \
- $(INST_BIN) $(DESTINSTALLVENDORBIN) \
- $(INST_SCRIPT) $(DESTINSTALLVENDORSCRIPT) \
- $(INST_MAN1DIR) $(DESTINSTALLVENDORMAN1DIR) \
- $(INST_MAN3DIR) $(DESTINSTALLVENDORMAN3DIR)
-
-doc_perl_install :: all
- $(NOECHO) $(ECHO) Appending installation info to $(DESTINSTALLARCHLIB)/perllocal.pod
- -$(NOECHO) $(MKPATH) $(DESTINSTALLARCHLIB)
- -$(NOECHO) $(DOC_INSTALL) \
- "Module" "$(NAME)" \
- "installed into" "$(INSTALLPRIVLIB)" \
- LINKTYPE "$(LINKTYPE)" \
- VERSION "$(VERSION)" \
- EXE_FILES "$(EXE_FILES)" \
- >> $(DESTINSTALLARCHLIB)/perllocal.pod
-
-doc_site_install :: all
- $(NOECHO) $(ECHO) Appending installation info to $(DESTINSTALLARCHLIB)/perllocal.pod
- -$(NOECHO) $(MKPATH) $(DESTINSTALLARCHLIB)
- -$(NOECHO) $(DOC_INSTALL) \
- "Module" "$(NAME)" \
- "installed into" "$(INSTALLSITELIB)" \
- LINKTYPE "$(LINKTYPE)" \
- VERSION "$(VERSION)" \
- EXE_FILES "$(EXE_FILES)" \
- >> $(DESTINSTALLARCHLIB)/perllocal.pod
-
-doc_vendor_install :: all
- $(NOECHO) $(ECHO) Appending installation info to $(DESTINSTALLARCHLIB)/perllocal.pod
- -$(NOECHO) $(MKPATH) $(DESTINSTALLARCHLIB)
- -$(NOECHO) $(DOC_INSTALL) \
- "Module" "$(NAME)" \
- "installed into" "$(INSTALLVENDORLIB)" \
- LINKTYPE "$(LINKTYPE)" \
- VERSION "$(VERSION)" \
- EXE_FILES "$(EXE_FILES)" \
- >> $(DESTINSTALLARCHLIB)/perllocal.pod
-
-
-uninstall :: uninstall_from_$(INSTALLDIRS)dirs
- $(NOECHO) $(NOOP)
-
-uninstall_from_perldirs ::
- $(NOECHO) $(UNINSTALL) $(PERL_ARCHLIB)/auto/$(FULLEXT)/.packlist
-
-uninstall_from_sitedirs ::
- $(NOECHO) $(UNINSTALL) $(SITEARCHEXP)/auto/$(FULLEXT)/.packlist
-
-uninstall_from_vendordirs ::
- $(NOECHO) $(UNINSTALL) $(VENDORARCHEXP)/auto/$(FULLEXT)/.packlist
-
-
-# --- 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
- $(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=Ext \
- MAKEFILE=$(MAKE_APERL_FILE) LINKTYPE=static \
- MAKEAPERL=1 NORECURS=1 CCCDLFLAGS=
-
-
-# --- MakeMaker test section:
-
-TEST_VERBOSE=0
-TEST_TYPE=test_$(LINKTYPE)
-TEST_FILE = test.pl
-TEST_FILES = t/*.t
-TESTDB_SW = -d
-
-testdb :: testdb_$(LINKTYPE)
-
-test :: $(TEST_TYPE) subdirs-test
-
-subdirs-test ::
- $(NOECHO) $(NOOP)
-
-subdirs-test ::
- $(NOECHO) cd Ext && $(MAKE) test $(PASTHRU)
-
-
-test_dynamic :: pure_all
- PERL_DL_NONLAZY=1 $(FULLPERLRUN) "-MExtUtils::Command::MM" "-e" "test_harness($(TEST_VERBOSE), '$(INST_LIB)', '$(INST_ARCHLIB)')" $(TEST_FILES)
-
-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) "-MExtUtils::Command::MM" "-e" "test_harness($(TEST_VERBOSE), '$(INST_LIB)', '$(INST_ARCHLIB)')" $(TEST_FILES)
-
-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="$(VERSION)">' > $(DISTNAME).ppd
- $(NOECHO) $(ECHO) ' <ABSTRACT></ABSTRACT>' >> $(DISTNAME).ppd
- $(NOECHO) $(ECHO) ' <AUTHOR></AUTHOR>' >> $(DISTNAME).ppd
- $(NOECHO) $(ECHO) ' <IMPLEMENTATION>' >> $(DISTNAME).ppd
- $(NOECHO) $(ECHO) ' <ARCHITECTURE NAME="darwin-thread-multi-2level-5.12" />' >> $(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)'\'')' -- \
- TFBS/PatternGen/YMF.pm $(INST_LIB)/TFBS/PatternGen/YMF.pm \
- TFBS/DB/TRANSFAC.pm $(INST_LIB)/TFBS/DB/TRANSFAC.pm \
- TFBS/DB.pm $(INST_LIB)/TFBS/DB.pm \
- TFBS/DB/LocalTRANSFAC.pm $(INST_LIB)/TFBS/DB/LocalTRANSFAC.pm \
- TFBS/PatternGen/MEME.pm $(INST_LIB)/TFBS/PatternGen/MEME.pm \
- TFBS/PatternGen/Gibbs.pm $(INST_LIB)/TFBS/PatternGen/Gibbs.pm \
- TFBS/PatternGen/Elph.pm $(INST_LIB)/TFBS/PatternGen/Elph.pm \
- TFBS/DB/JASPAR4.pm $(INST_LIB)/TFBS/DB/JASPAR4.pm \
- TFBS/PatternGenI.pm $(INST_LIB)/TFBS/PatternGenI.pm \
- TFBS/Matrix/ICM.pm $(INST_LIB)/TFBS/Matrix/ICM.pm \
- TFBS/PatternGen/YMF/Motif.pm $(INST_LIB)/TFBS/PatternGen/YMF/Motif.pm \
- TFBS/SitePairSet.pm $(INST_LIB)/TFBS/SitePairSet.pm \
- TFBS/PatternGen/Elph/Motif.pm $(INST_LIB)/TFBS/PatternGen/Elph/Motif.pm \
- TFBS/Site.pm $(INST_LIB)/TFBS/Site.pm \
- TFBS/_Iterator/_MatrixSetIterator.pm $(INST_LIB)/TFBS/_Iterator/_MatrixSetIterator.pm \
- TFBS/Tools/SetOperations.pm $(INST_LIB)/TFBS/Tools/SetOperations.pm \
- TFBS/Matrix/PFM.pm $(INST_LIB)/TFBS/Matrix/PFM.pm \
- TFBS/PatternI.pm $(INST_LIB)/TFBS/PatternI.pm \
- TFBS/Word/Consensus.pm $(INST_LIB)/TFBS/Word/Consensus.pm \
- TFBS/PatternGen/Gibbs/Motif.pm $(INST_LIB)/TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/SiteSet.pm $(INST_LIB)/TFBS/SiteSet.pm \
- TFBS/Matrix/_Alignment.pm $(INST_LIB)/TFBS/Matrix/_Alignment.pm \
- TFBS/PatternGen/AnnSpec.pm $(INST_LIB)/TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/Motif/Word.pm $(INST_LIB)/TFBS/PatternGen/Motif/Word.pm \
- TFBS/SitePair.pm $(INST_LIB)/TFBS/SitePair.pm \
- TFBS/_Iterator/_SiteSetIterator.pm $(INST_LIB)/TFBS/_Iterator/_SiteSetIterator.pm \
- TFBS/_Iterator.pm $(INST_LIB)/TFBS/_Iterator.pm \
- TFBS/PatternGen/MEME/Motif.pm $(INST_LIB)/TFBS/PatternGen/MEME/Motif.pm \
- TFBS/DB/FlatFileDir.pm $(INST_LIB)/TFBS/DB/FlatFileDir.pm \
- TFBS/PatternGen.pm $(INST_LIB)/TFBS/PatternGen.pm \
- TFBS/MatrixSet.pm $(INST_LIB)/TFBS/MatrixSet.pm \
- TFBS/PatternGen/SimplePFM.pm $(INST_LIB)/TFBS/PatternGen/SimplePFM.pm \
- TFBS/Word.pm $(INST_LIB)/TFBS/Word.pm \
- TFBS/DB/JASPAR2.pm $(INST_LIB)/TFBS/DB/JASPAR2.pm \
- TFBS/Matrix.pm $(INST_LIB)/TFBS/Matrix.pm \
- TFBS/PatternGen/AnnSpec/Motif.pm $(INST_LIB)/TFBS/PatternGen/AnnSpec/Motif.pm \
- TFBS/PatternGen/Motif/Matrix.pm $(INST_LIB)/TFBS/PatternGen/Motif/Matrix.pm \
- TFBS/Matrix/PWM.pm $(INST_LIB)/TFBS/Matrix/PWM.pm
- $(NOECHO) $(TOUCH) pm_to_blib
-
-
-# --- MakeMaker selfdocument section:
-
-
-# --- MakeMaker postamble section:
-
-
-# End.
=====================================
Makefile.old deleted
=====================================
@@ -1,1156 +0,0 @@
-# This Makefile is for the TFBS extension to perl.
-#
-# It was generated automatically by MakeMaker version
-# 6.68 (Revision: 66800) from the contents of
-# Makefile.PL. Don't edit this file, edit Makefile.PL instead.
-#
-# ANY CHANGES MADE HERE WILL BE LOST!
-#
-# MakeMaker ARGV: ()
-#
-
-# MakeMaker Parameters:
-
-# BUILD_REQUIRES => { }
-# CONFIGURE_REQUIRES => { }
-# DISTNAME => q[TFBS]
-# NAME => q[TFBS]
-# PREREQ_PM => { }
-# TEST_REQUIRES => { }
-# VERSION => q[0.5.0]
-# dist => { DIST_DEFAULT=>q[all tardist], COMPRESS=>q[gzip -9f], SUFFIX=>q[.gz] }
-
-# --- MakeMaker post_initialize section:
-
-
-# --- MakeMaker const_config section:
-
-# These definitions are from config.sh (via /usr/local/Cellar/perl/5.14.3/lib/5.14.3/darwin-2level/Config.pm).
-# They may have been overridden via Makefile.PL or on the command line.
-AR = ar
-CC = cc
-CCCDLFLAGS =
-CCDLFLAGS =
-DLEXT = bundle
-DLSRC = dl_dlopen.xs
-EXE_EXT =
-FULL_AR = /usr/bin/ar
-LD = env MACOSX_DEPLOYMENT_TARGET=10.3 cc
-LDDLFLAGS = -bundle -undefined dynamic_lookup -L/usr/local/lib -fstack-protector
-LDFLAGS = -fstack-protector -L/usr/local/lib
-LIBC =
-LIB_EXT = .a
-OBJ_EXT = .o
-OSNAME = darwin
-OSVERS = 12.2.1
-RANLIB = ranlib
-SITELIBEXP = /usr/local/Cellar/perl/5.14.3/lib/site_perl/5.14.3
-SITEARCHEXP = /usr/local/Cellar/perl/5.14.3/lib/site_perl/5.14.3/darwin-2level
-SO = dylib
-VENDORARCHEXP =
-VENDORLIBEXP =
-
-
-# --- MakeMaker constants section:
-AR_STATIC_ARGS = cr
-DIRFILESEP = /
-DFSEP = $(DIRFILESEP)
-NAME = TFBS
-NAME_SYM = TFBS
-VERSION = 0.5.0
-VERSION_MACRO = VERSION
-VERSION_SYM = 0_5_0
-DEFINE_VERSION = -D$(VERSION_MACRO)=\"$(VERSION)\"
-XS_VERSION = 0.5.0
-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 = 1
-MAN3EXT = 3
-INSTALLDIRS = site
-DESTDIR =
-PREFIX = $(SITEPREFIX)
-PERLPREFIX = /usr/local/Cellar/perl/5.14.3
-SITEPREFIX = /usr/local/Cellar/perl/5.14.3
-VENDORPREFIX =
-INSTALLPRIVLIB = /usr/local/Cellar/perl/5.14.3/lib/5.14.3
-DESTINSTALLPRIVLIB = $(DESTDIR)$(INSTALLPRIVLIB)
-INSTALLSITELIB = /usr/local/Cellar/perl/5.14.3/lib/site_perl/5.14.3
-DESTINSTALLSITELIB = $(DESTDIR)$(INSTALLSITELIB)
-INSTALLVENDORLIB =
-DESTINSTALLVENDORLIB = $(DESTDIR)$(INSTALLVENDORLIB)
-INSTALLARCHLIB = /usr/local/Cellar/perl/5.14.3/lib/5.14.3/darwin-2level
-DESTINSTALLARCHLIB = $(DESTDIR)$(INSTALLARCHLIB)
-INSTALLSITEARCH = /usr/local/Cellar/perl/5.14.3/lib/site_perl/5.14.3/darwin-2level
-DESTINSTALLSITEARCH = $(DESTDIR)$(INSTALLSITEARCH)
-INSTALLVENDORARCH =
-DESTINSTALLVENDORARCH = $(DESTDIR)$(INSTALLVENDORARCH)
-INSTALLBIN = /usr/local/Cellar/perl/5.14.3/bin
-DESTINSTALLBIN = $(DESTDIR)$(INSTALLBIN)
-INSTALLSITEBIN = /usr/local/Cellar/perl/5.14.3/bin
-DESTINSTALLSITEBIN = $(DESTDIR)$(INSTALLSITEBIN)
-INSTALLVENDORBIN =
-DESTINSTALLVENDORBIN = $(DESTDIR)$(INSTALLVENDORBIN)
-INSTALLSCRIPT = /usr/local/Cellar/perl/5.14.3/bin
-DESTINSTALLSCRIPT = $(DESTDIR)$(INSTALLSCRIPT)
-INSTALLSITESCRIPT = /usr/local/Cellar/perl/5.14.3/bin
-DESTINSTALLSITESCRIPT = $(DESTDIR)$(INSTALLSITESCRIPT)
-INSTALLVENDORSCRIPT =
-DESTINSTALLVENDORSCRIPT = $(DESTDIR)$(INSTALLVENDORSCRIPT)
-INSTALLMAN1DIR = /usr/local/Cellar/perl/5.14.3/share/man/man1
-DESTINSTALLMAN1DIR = $(DESTDIR)$(INSTALLMAN1DIR)
-INSTALLSITEMAN1DIR = /usr/local/Cellar/perl/5.14.3/share/man/man1
-DESTINSTALLSITEMAN1DIR = $(DESTDIR)$(INSTALLSITEMAN1DIR)
-INSTALLVENDORMAN1DIR =
-DESTINSTALLVENDORMAN1DIR = $(DESTDIR)$(INSTALLVENDORMAN1DIR)
-INSTALLMAN3DIR = /usr/local/Cellar/perl/5.14.3/share/man/man3
-DESTINSTALLMAN3DIR = $(DESTDIR)$(INSTALLMAN3DIR)
-INSTALLSITEMAN3DIR = /usr/local/Cellar/perl/5.14.3/share/man/man3
-DESTINSTALLSITEMAN3DIR = $(DESTDIR)$(INSTALLSITEMAN3DIR)
-INSTALLVENDORMAN3DIR =
-DESTINSTALLVENDORMAN3DIR = $(DESTDIR)$(INSTALLVENDORMAN3DIR)
-PERL_LIB = /usr/local/Cellar/perl/5.14.3/lib/5.14.3
-PERL_ARCHLIB = /usr/local/Cellar/perl/5.14.3/lib/5.14.3/darwin-2level
-LIBPERL_A = libperl.a
-FIRST_MAKEFILE = Makefile
-MAKEFILE_OLD = Makefile.old
-MAKE_APERL_FILE = Makefile.aperl
-PERLMAINCC = $(CC)
-PERL_INC = /usr/local/Cellar/perl/5.14.3/lib/5.14.3/darwin-2level/CORE
-PERL = /usr/local/bin/perl
-FULLPERL = /usr/local/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/local/Cellar/perl/5.14.3/lib/5.14.3/ExtUtils/MakeMaker.pm
-MM_VERSION = 6.68
-MM_REVISION = 66800
-
-# 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 = TFBS
-BASEEXT = TFBS
-PARENT_NAME =
-DLBASE = $(BASEEXT)
-VERSION_FROM =
-OBJECT =
-LDFROM = $(OBJECT)
-LINKTYPE = dynamic
-BOOTDEP =
-
-# Handy lists of source code files:
-XS_FILES =
-C_FILES =
-O_FILES =
-H_FILES =
-MAN1PODS =
-MAN3PODS = TFBS/DB/FlatFileDir.pm \
- TFBS/DB/JASPAR2.pm \
- TFBS/DB/JASPAR4.pm \
- TFBS/DB/LocalTRANSFAC.pm \
- TFBS/DB/TRANSFAC.pm \
- TFBS/Matrix.pm \
- TFBS/Matrix/ICM.pm \
- TFBS/Matrix/PFM.pm \
- TFBS/Matrix/PWM.pm \
- TFBS/MatrixSet.pm \
- TFBS/PatternGen.pm \
- TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/AnnSpec/Motif.pm \
- TFBS/PatternGen/Elph.pm \
- TFBS/PatternGen/Elph/Motif.pm \
- TFBS/PatternGen/Gibbs.pm \
- TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/PatternGen/MEME.pm \
- TFBS/PatternGen/MEME/Motif.pm \
- TFBS/PatternGen/SimplePFM.pm \
- TFBS/PatternGen/YMF.pm \
- TFBS/PatternGen/YMF/Motif.pm \
- TFBS/PatternI.pm \
- TFBS/Site.pm \
- TFBS/SitePair.pm \
- TFBS/SitePairSet.pm \
- TFBS/SiteSet.pm \
- TFBS/Word.pm \
- TFBS/Word/Consensus.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_DYNAMIC =
-INST_BOOT =
-
-# Extra linker info
-EXPORT_LIST =
-PERL_ARCHIVE =
-PERL_ARCHIVE_AFTER =
-
-
-TO_INST_PM = TFBS/DB.pm \
- TFBS/DB/FlatFileDir.pm \
- TFBS/DB/JASPAR2.pm \
- TFBS/DB/JASPAR4.pm \
- TFBS/DB/LocalTRANSFAC.pm \
- TFBS/DB/TRANSFAC.pm \
- TFBS/Matrix.pm \
- TFBS/Matrix/ICM.pm \
- TFBS/Matrix/PFM.pm \
- TFBS/Matrix/PWM.pm \
- TFBS/Matrix/_Alignment.pm \
- TFBS/MatrixSet.pm \
- TFBS/PatternGen.pm \
- TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/AnnSpec/Motif.pm \
- TFBS/PatternGen/Elph.pm \
- TFBS/PatternGen/Elph/Motif.pm \
- TFBS/PatternGen/Gibbs.pm \
- TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/PatternGen/MEME.pm \
- TFBS/PatternGen/MEME/Motif.pm \
- TFBS/PatternGen/Motif/Matrix.pm \
- TFBS/PatternGen/Motif/Word.pm \
- TFBS/PatternGen/SimplePFM.pm \
- TFBS/PatternGen/YMF.pm \
- TFBS/PatternGen/YMF/Motif.pm \
- TFBS/PatternGenI.pm \
- TFBS/PatternI.pm \
- TFBS/Site.pm \
- TFBS/SitePair.pm \
- TFBS/SitePairSet.pm \
- TFBS/SiteSet.pm \
- TFBS/Tools/SetOperations.pm \
- TFBS/Word.pm \
- TFBS/Word/Consensus.pm \
- TFBS/_Iterator.pm \
- TFBS/_Iterator/_MatrixSetIterator.pm \
- TFBS/_Iterator/_SiteSetIterator.pm
-
-PM_TO_BLIB = TFBS/PatternGen/YMF.pm \
- $(INST_LIB)/TFBS/PatternGen/YMF.pm \
- TFBS/DB/TRANSFAC.pm \
- $(INST_LIB)/TFBS/DB/TRANSFAC.pm \
- TFBS/DB.pm \
- $(INST_LIB)/TFBS/DB.pm \
- TFBS/DB/LocalTRANSFAC.pm \
- $(INST_LIB)/TFBS/DB/LocalTRANSFAC.pm \
- TFBS/PatternGen/MEME.pm \
- $(INST_LIB)/TFBS/PatternGen/MEME.pm \
- TFBS/PatternGen/Gibbs.pm \
- $(INST_LIB)/TFBS/PatternGen/Gibbs.pm \
- TFBS/PatternGen/Elph.pm \
- $(INST_LIB)/TFBS/PatternGen/Elph.pm \
- TFBS/DB/JASPAR4.pm \
- $(INST_LIB)/TFBS/DB/JASPAR4.pm \
- TFBS/PatternGenI.pm \
- $(INST_LIB)/TFBS/PatternGenI.pm \
- TFBS/Matrix/ICM.pm \
- $(INST_LIB)/TFBS/Matrix/ICM.pm \
- TFBS/PatternGen/YMF/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/YMF/Motif.pm \
- TFBS/SitePairSet.pm \
- $(INST_LIB)/TFBS/SitePairSet.pm \
- TFBS/PatternGen/Elph/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/Elph/Motif.pm \
- TFBS/Site.pm \
- $(INST_LIB)/TFBS/Site.pm \
- TFBS/_Iterator/_MatrixSetIterator.pm \
- $(INST_LIB)/TFBS/_Iterator/_MatrixSetIterator.pm \
- TFBS/Tools/SetOperations.pm \
- $(INST_LIB)/TFBS/Tools/SetOperations.pm \
- TFBS/Matrix/PFM.pm \
- $(INST_LIB)/TFBS/Matrix/PFM.pm \
- TFBS/PatternI.pm \
- $(INST_LIB)/TFBS/PatternI.pm \
- TFBS/Word/Consensus.pm \
- $(INST_LIB)/TFBS/Word/Consensus.pm \
- TFBS/PatternGen/Gibbs/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/SiteSet.pm \
- $(INST_LIB)/TFBS/SiteSet.pm \
- TFBS/Matrix/_Alignment.pm \
- $(INST_LIB)/TFBS/Matrix/_Alignment.pm \
- TFBS/PatternGen/AnnSpec.pm \
- $(INST_LIB)/TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/Motif/Word.pm \
- $(INST_LIB)/TFBS/PatternGen/Motif/Word.pm \
- TFBS/SitePair.pm \
- $(INST_LIB)/TFBS/SitePair.pm \
- TFBS/_Iterator/_SiteSetIterator.pm \
- $(INST_LIB)/TFBS/_Iterator/_SiteSetIterator.pm \
- TFBS/_Iterator.pm \
- $(INST_LIB)/TFBS/_Iterator.pm \
- TFBS/PatternGen/MEME/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/MEME/Motif.pm \
- TFBS/DB/FlatFileDir.pm \
- $(INST_LIB)/TFBS/DB/FlatFileDir.pm \
- TFBS/PatternGen.pm \
- $(INST_LIB)/TFBS/PatternGen.pm \
- TFBS/MatrixSet.pm \
- $(INST_LIB)/TFBS/MatrixSet.pm \
- TFBS/PatternGen/SimplePFM.pm \
- $(INST_LIB)/TFBS/PatternGen/SimplePFM.pm \
- TFBS/Word.pm \
- $(INST_LIB)/TFBS/Word.pm \
- TFBS/DB/JASPAR2.pm \
- $(INST_LIB)/TFBS/DB/JASPAR2.pm \
- TFBS/Matrix.pm \
- $(INST_LIB)/TFBS/Matrix.pm \
- TFBS/PatternGen/AnnSpec/Motif.pm \
- $(INST_LIB)/TFBS/PatternGen/AnnSpec/Motif.pm \
- TFBS/PatternGen/Motif/Matrix.pm \
- $(INST_LIB)/TFBS/PatternGen/Motif/Matrix.pm \
- TFBS/Matrix/PWM.pm \
- $(INST_LIB)/TFBS/Matrix/PWM.pm
-
-
-# --- MakeMaker platform_constants section:
-MM_Unix_VERSION = 6.68
-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/local/Cellar/perl/5.14.3/lib/5.14.3/ExtUtils
-XSUBPP = $(XSUBPPDIR)$(DFSEP)xsubpp
-XSUBPPRUN = $(PERLRUN) $(XSUBPP)
-XSPROTOARG =
-XSUBPPDEPS = /usr/local/Cellar/perl/5.14.3/lib/5.14.3/ExtUtils/typemap $(XSUBPP)
-XSUBPPARGS = -typemap /usr/local/Cellar/perl/5.14.3/lib/5.14.3/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 = COPY_EXTENDED_ATTRIBUTES_DISABLE=1 COPYFILE_DISABLE=1 tar
-TARFLAGS = cvf
-ZIP = zip
-ZIPFLAGS = -r
-COMPRESS = gzip -9f
-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 = all tardist
-DISTNAME = TFBS
-DISTVNAME = TFBS-0.5.0
-
-
-# --- MakeMaker macro section:
-
-
-# --- MakeMaker depend section:
-
-
-# --- MakeMaker cflags section:
-
-CCFLAGS = -fno-common -DPERL_DARWIN -fno-strict-aliasing -pipe -fstack-protector -I/usr/local/include
-OPTIMIZE = -O3
-PERLTYPE =
-MPOLLUTE =
-
-
-# --- MakeMaker const_loadlibs section:
-
-# TFBS might depend on some other libraries:
-# See ExtUtils::Liblist for details
-#
-
-
-# --- 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)"
-
-
-# --- 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 > $*.i
-
-.c.s:
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-
-.c$(OBJ_EXT):
- $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c
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-.cpp$(OBJ_EXT):
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-.cxx$(OBJ_EXT):
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-.cc$(OBJ_EXT):
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-.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)
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-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)
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-# 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
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-$(INST_ARCHLIB)$(DFSEP).exists :: Makefile.PL
- $(NOECHO) $(MKPATH) $(INST_ARCHLIB)
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-$(INST_AUTODIR)$(DFSEP).exists :: Makefile.PL
- $(NOECHO) $(MKPATH) $(INST_AUTODIR)
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- $(NOECHO) $(MKPATH) $(INST_BIN)
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-$(INST_MAN1DIR)$(DFSEP).exists :: Makefile.PL
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-$(INST_MAN3DIR)$(DFSEP).exists :: Makefile.PL
- $(NOECHO) $(MKPATH) $(INST_MAN3DIR)
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-# --- MakeMaker linkext section:
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-linkext :: $(LINKTYPE)
- $(NOECHO) $(NOOP)
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-
-# --- MakeMaker dlsyms section:
-
-
-# --- MakeMaker dynamic section:
-
-dynamic :: $(FIRST_MAKEFILE) $(INST_DYNAMIC) $(INST_BOOT)
- $(NOECHO) $(NOOP)
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-
-# --- MakeMaker dynamic_bs section:
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-BOOTSTRAP =
-
-
-# --- MakeMaker dynamic_lib section:
-
-
-# --- MakeMaker static section:
-
-## $(INST_PM) has been moved to the all: target.
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-static :: $(FIRST_MAKEFILE) $(INST_STATIC)
- $(NOECHO) $(NOOP)
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-# --- MakeMaker static_lib section:
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-
-# --- MakeMaker manifypods section:
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-POD2MAN_EXE = $(PERLRUN) "-MExtUtils::Command::MM" -e pod2man "--"
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-
-
-# --- 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.
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-
-subdirs ::
- $(NOECHO) cd Ext && $(MAKE) $(USEMAKEFILE) $(FIRST_MAKEFILE) all $(PASTHRU)
-
-
-# --- MakeMaker clean_subdirs section:
-clean_subdirs :
- $(ABSPERLRUN) -e 'chdir '\''Ext'\''; system '\''$(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.
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-clean :: clean_subdirs
- - $(RM_F) \
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-# --- MakeMaker realclean_subdirs section:
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- - $(ABSPERLRUN) -e 'chdir '\''Ext'\''; system '\''$(MAKE) $(USEMAKEFILE) $(FIRST_MAKEFILE) realclean'\'' if -f '\''$(FIRST_MAKEFILE)'\'';' --
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-# --- MakeMaker realclean section:
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-realclean purge :: clean realclean_subdirs
- - $(RM_F) \
- $(MAKEFILE_OLD) $(FIRST_MAKEFILE)
- - $(RM_RF) \
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-
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-# --- MakeMaker metafile section:
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-# --- MakeMaker signature section:
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-# --- MakeMaker dist_basics section:
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-# --- MakeMaker dist_core section:
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-# --- MakeMaker distdir section:
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-# --- MakeMaker install section:
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-install :: pure_install doc_install
- $(NOECHO) $(NOOP)
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-install_perl :: pure_perl_install doc_perl_install
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-pure__install : pure_site_install
- $(NOECHO) $(ECHO) INSTALLDIRS not defined, defaulting to INSTALLDIRS=site
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-doc__install : doc_site_install
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- $(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) $(MOD_INSTALL) \
- read $(VENDORARCHEXP)/auto/$(FULLEXT)/.packlist \
- write $(DESTINSTALLVENDORARCH)/auto/$(FULLEXT)/.packlist \
- $(INST_LIB) $(DESTINSTALLVENDORLIB) \
- $(INST_ARCHLIB) $(DESTINSTALLVENDORARCH) \
- $(INST_BIN) $(DESTINSTALLVENDORBIN) \
- $(INST_SCRIPT) $(DESTINSTALLVENDORSCRIPT) \
- $(INST_MAN1DIR) $(DESTINSTALLVENDORMAN1DIR) \
- $(INST_MAN3DIR) $(DESTINSTALLVENDORMAN3DIR)
-
-doc_perl_install :: all
- $(NOECHO) $(ECHO) Appending installation info to $(DESTINSTALLARCHLIB)/perllocal.pod
- -$(NOECHO) $(MKPATH) $(DESTINSTALLARCHLIB)
- -$(NOECHO) $(DOC_INSTALL) \
- "Module" "$(NAME)" \
- "installed into" "$(INSTALLPRIVLIB)" \
- LINKTYPE "$(LINKTYPE)" \
- VERSION "$(VERSION)" \
- EXE_FILES "$(EXE_FILES)" \
- >> $(DESTINSTALLARCHLIB)/perllocal.pod
-
-doc_site_install :: all
- $(NOECHO) $(ECHO) Appending installation info to $(DESTINSTALLARCHLIB)/perllocal.pod
- -$(NOECHO) $(MKPATH) $(DESTINSTALLARCHLIB)
- -$(NOECHO) $(DOC_INSTALL) \
- "Module" "$(NAME)" \
- "installed into" "$(INSTALLSITELIB)" \
- LINKTYPE "$(LINKTYPE)" \
- VERSION "$(VERSION)" \
- EXE_FILES "$(EXE_FILES)" \
- >> $(DESTINSTALLARCHLIB)/perllocal.pod
-
-doc_vendor_install :: all
- $(NOECHO) $(ECHO) Appending installation info to $(DESTINSTALLARCHLIB)/perllocal.pod
- -$(NOECHO) $(MKPATH) $(DESTINSTALLARCHLIB)
- -$(NOECHO) $(DOC_INSTALL) \
- "Module" "$(NAME)" \
- "installed into" "$(INSTALLVENDORLIB)" \
- LINKTYPE "$(LINKTYPE)" \
- VERSION "$(VERSION)" \
- EXE_FILES "$(EXE_FILES)" \
- >> $(DESTINSTALLARCHLIB)/perllocal.pod
-
-
-uninstall :: uninstall_from_$(INSTALLDIRS)dirs
- $(NOECHO) $(NOOP)
-
-uninstall_from_perldirs ::
- $(NOECHO) $(UNINSTALL) $(PERL_ARCHLIB)/auto/$(FULLEXT)/.packlist
-
-uninstall_from_sitedirs ::
- $(NOECHO) $(UNINSTALL) $(SITEARCHEXP)/auto/$(FULLEXT)/.packlist
-
-uninstall_from_vendordirs ::
- $(NOECHO) $(UNINSTALL) $(VENDORARCHEXP)/auto/$(FULLEXT)/.packlist
-
-
-# --- 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
- $(NOECHO) $(ECHO) "==> Your Makefile has been rebuilt. <=="
- $(NOECHO) $(ECHO) "==> Please rerun the $(MAKE) command. <=="
- $(FALSE)
-
-
-
-# --- MakeMaker staticmake section:
-
-# --- MakeMaker makeaperl section ---
-MAP_TARGET = perl
-FULLPERL = /usr/local/bin/perl
-
-$(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) $(PERLRUNINST) \
- Makefile.PL DIR=Ext \
- MAKEFILE=$(MAKE_APERL_FILE) LINKTYPE=static \
- MAKEAPERL=1 NORECURS=1 CCCDLFLAGS=
-
-
-# --- MakeMaker test section:
-
-TEST_VERBOSE=0
-TEST_TYPE=test_$(LINKTYPE)
-TEST_FILE = test.pl
-TEST_FILES = t/*.t
-TESTDB_SW = -d
-
-testdb :: testdb_$(LINKTYPE)
-
-test :: $(TEST_TYPE) subdirs-test
-
-subdirs-test ::
- $(NOECHO) $(NOOP)
-
-subdirs-test ::
- $(NOECHO) cd Ext && $(MAKE) test $(PASTHRU)
-
-
-test_dynamic :: pure_all
- PERL_DL_NONLAZY=1 $(FULLPERLRUN) "-MExtUtils::Command::MM" "-e" "test_harness($(TEST_VERBOSE), '$(INST_LIB)', '$(INST_ARCHLIB)')" $(TEST_FILES)
-
-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) "-MExtUtils::Command::MM" "-e" "test_harness($(TEST_VERBOSE), '$(INST_LIB)', '$(INST_ARCHLIB)')" $(TEST_FILES)
-
-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="$(VERSION)">' > $(DISTNAME).ppd
- $(NOECHO) $(ECHO) ' <ABSTRACT></ABSTRACT>' >> $(DISTNAME).ppd
- $(NOECHO) $(ECHO) ' <AUTHOR></AUTHOR>' >> $(DISTNAME).ppd
- $(NOECHO) $(ECHO) ' <IMPLEMENTATION>' >> $(DISTNAME).ppd
- $(NOECHO) $(ECHO) ' <ARCHITECTURE NAME="darwin-2level-5.14" />' >> $(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)'\'')' -- \
- TFBS/PatternGen/YMF.pm $(INST_LIB)/TFBS/PatternGen/YMF.pm \
- TFBS/DB/TRANSFAC.pm $(INST_LIB)/TFBS/DB/TRANSFAC.pm \
- TFBS/DB.pm $(INST_LIB)/TFBS/DB.pm \
- TFBS/DB/LocalTRANSFAC.pm $(INST_LIB)/TFBS/DB/LocalTRANSFAC.pm \
- TFBS/PatternGen/MEME.pm $(INST_LIB)/TFBS/PatternGen/MEME.pm \
- TFBS/PatternGen/Gibbs.pm $(INST_LIB)/TFBS/PatternGen/Gibbs.pm \
- TFBS/PatternGen/Elph.pm $(INST_LIB)/TFBS/PatternGen/Elph.pm \
- TFBS/DB/JASPAR4.pm $(INST_LIB)/TFBS/DB/JASPAR4.pm \
- TFBS/PatternGenI.pm $(INST_LIB)/TFBS/PatternGenI.pm \
- TFBS/Matrix/ICM.pm $(INST_LIB)/TFBS/Matrix/ICM.pm \
- TFBS/PatternGen/YMF/Motif.pm $(INST_LIB)/TFBS/PatternGen/YMF/Motif.pm \
- TFBS/SitePairSet.pm $(INST_LIB)/TFBS/SitePairSet.pm \
- TFBS/PatternGen/Elph/Motif.pm $(INST_LIB)/TFBS/PatternGen/Elph/Motif.pm \
- TFBS/Site.pm $(INST_LIB)/TFBS/Site.pm \
- TFBS/_Iterator/_MatrixSetIterator.pm $(INST_LIB)/TFBS/_Iterator/_MatrixSetIterator.pm \
- TFBS/Tools/SetOperations.pm $(INST_LIB)/TFBS/Tools/SetOperations.pm \
- TFBS/Matrix/PFM.pm $(INST_LIB)/TFBS/Matrix/PFM.pm \
- TFBS/PatternI.pm $(INST_LIB)/TFBS/PatternI.pm \
- TFBS/Word/Consensus.pm $(INST_LIB)/TFBS/Word/Consensus.pm \
- TFBS/PatternGen/Gibbs/Motif.pm $(INST_LIB)/TFBS/PatternGen/Gibbs/Motif.pm \
- TFBS/SiteSet.pm $(INST_LIB)/TFBS/SiteSet.pm \
- TFBS/Matrix/_Alignment.pm $(INST_LIB)/TFBS/Matrix/_Alignment.pm \
- TFBS/PatternGen/AnnSpec.pm $(INST_LIB)/TFBS/PatternGen/AnnSpec.pm \
- TFBS/PatternGen/Motif/Word.pm $(INST_LIB)/TFBS/PatternGen/Motif/Word.pm \
- TFBS/SitePair.pm $(INST_LIB)/TFBS/SitePair.pm \
- TFBS/_Iterator/_SiteSetIterator.pm $(INST_LIB)/TFBS/_Iterator/_SiteSetIterator.pm \
- TFBS/_Iterator.pm $(INST_LIB)/TFBS/_Iterator.pm \
- TFBS/PatternGen/MEME/Motif.pm $(INST_LIB)/TFBS/PatternGen/MEME/Motif.pm \
- TFBS/DB/FlatFileDir.pm $(INST_LIB)/TFBS/DB/FlatFileDir.pm \
- TFBS/PatternGen.pm $(INST_LIB)/TFBS/PatternGen.pm \
- TFBS/MatrixSet.pm $(INST_LIB)/TFBS/MatrixSet.pm \
- TFBS/PatternGen/SimplePFM.pm $(INST_LIB)/TFBS/PatternGen/SimplePFM.pm \
- TFBS/Word.pm $(INST_LIB)/TFBS/Word.pm \
- TFBS/DB/JASPAR2.pm $(INST_LIB)/TFBS/DB/JASPAR2.pm \
- TFBS/Matrix.pm $(INST_LIB)/TFBS/Matrix.pm \
- TFBS/PatternGen/AnnSpec/Motif.pm $(INST_LIB)/TFBS/PatternGen/AnnSpec/Motif.pm \
- TFBS/PatternGen/Motif/Matrix.pm $(INST_LIB)/TFBS/PatternGen/Motif/Matrix.pm \
- TFBS/Matrix/PWM.pm $(INST_LIB)/TFBS/Matrix/PWM.pm
- $(NOECHO) $(TOUCH) pm_to_blib
-
-
-# --- MakeMaker selfdocument section:
-
-
-# --- MakeMaker postamble section:
-
-
-# End.
View it on GitLab: https://salsa.debian.org/med-team/libtfbs-perl/-/commit/1589aaadcc08ac89551e9f96ddc5d7e20692ab58
--
View it on GitLab: https://salsa.debian.org/med-team/libtfbs-perl/-/commit/1589aaadcc08ac89551e9f96ddc5d7e20692ab58
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