Author: smoe-guest Date: 2008-07-18 16:30:27 +0000 (Fri, 18 Jul 2008) New Revision: 2257
Added: trunk/packages/libtfbs-perl/ trunk/packages/libtfbs-perl/trunk/ trunk/packages/libtfbs-perl/trunk/debian/ trunk/packages/libtfbs-perl/trunk/debian/changelog trunk/packages/libtfbs-perl/trunk/debian/compat trunk/packages/libtfbs-perl/trunk/debian/control trunk/packages/libtfbs-perl/trunk/debian/copyright trunk/packages/libtfbs-perl/trunk/debian/patches/ trunk/packages/libtfbs-perl/trunk/debian/patches/nomysqlserver.patch trunk/packages/libtfbs-perl/trunk/debian/patches/series trunk/packages/libtfbs-perl/trunk/debian/rules trunk/packages/libtfbs-perl/trunk/debian/watch Log: Some initial packaging - awaiting reply from upstream still. Added: trunk/packages/libtfbs-perl/trunk/debian/changelog =================================================================== --- trunk/packages/libtfbs-perl/trunk/debian/changelog (rev 0) +++ trunk/packages/libtfbs-perl/trunk/debian/changelog 2008-07-18 16:30:27 UTC (rev 2257) @@ -0,0 +1,5 @@ +libtfbs-perl (0.5.0-1) unstable; urgency=low + + * Initial Release. + + -- Steffen Moeller <[EMAIL PROTECTED]> Fri, 18 Jul 2008 15:21:37 +0200 Added: trunk/packages/libtfbs-perl/trunk/debian/compat =================================================================== --- trunk/packages/libtfbs-perl/trunk/debian/compat (rev 0) +++ trunk/packages/libtfbs-perl/trunk/debian/compat 2008-07-18 16:30:27 UTC (rev 2257) @@ -0,0 +1 @@ +5 Added: trunk/packages/libtfbs-perl/trunk/debian/control =================================================================== --- trunk/packages/libtfbs-perl/trunk/debian/control (rev 0) +++ trunk/packages/libtfbs-perl/trunk/debian/control 2008-07-18 16:30:27 UTC (rev 2257) @@ -0,0 +1,19 @@ +Source: libtfbs-perl +Section: perl +Priority: optional +Build-Depends: debhelper (>= 5), perl (>= 5.6.10-12), pdl, quilt +Maintainer: Steffen Moeller <[EMAIL PROTECTED]> +Standards-Version: 3.8.0 +Homepage: http://tfbs.genereg.net + +Package: libtfbs-perl +Architecture: any +Depends: ${perl:Depends}, ${shlibs:Depends}, ${misc:Depends}, pdl, bioperl +Description: Perl extension for scanning a DNA sequence object with a position weight matrix + Set of routines to interact with the Transfac and Jaspar databases that + describe a special family of proteins, the transcription factors. These + bind to genomic DNA to initiate (or prevent) the readout of a gene. + Once multiple binding sites are known for a transcription factor, + these are gathered in a single file and are aligned in order to find + position-specific characteristica that might be used to predict such + binding events in novel DNA sequences. Added: trunk/packages/libtfbs-perl/trunk/debian/copyright =================================================================== --- trunk/packages/libtfbs-perl/trunk/debian/copyright (rev 0) +++ trunk/packages/libtfbs-perl/trunk/debian/copyright 2008-07-18 16:30:27 UTC (rev 2257) @@ -0,0 +1,14 @@ +This is the debian package for the TFBS module. +It was created by Steffen Moeller <[EMAIL PROTECTED]> using dh-make-perl. + +It was downloaded from http://tfbs.genereg.net. + +This Perl module is distributed under the same license as Perl itself. +Debian summarises the current license on /usr/share/doc/perl/copyright. + +The upstream author is: + + Borid Lenhard <[EMAIL PROTECTED]> + +The Debian packaging is (C) 2008, Steffen Moeller <[EMAIL PROTECTED]> and +is licensed under the same terms as the software itself (see above). Added: trunk/packages/libtfbs-perl/trunk/debian/patches/nomysqlserver.patch =================================================================== --- trunk/packages/libtfbs-perl/trunk/debian/patches/nomysqlserver.patch (rev 0) +++ trunk/packages/libtfbs-perl/trunk/debian/patches/nomysqlserver.patch 2008-07-18 16:30:27 UTC (rev 2257) @@ -0,0 +1,16 @@ +Index: tfbs-0.5.0/Makefile.PL +=================================================================== +--- tfbs-0.5.0.orig/Makefile.PL 2008-07-18 18:13:33.000000000 +0200 ++++ tfbs-0.5.0/Makefile.PL 2008-07-18 18:14:02.000000000 +0200 +@@ -21,11 +21,6 @@ + + sub get_sql_data { + my $ans = "abc"; +- do { +- print "Do you have write access to a MySQL database server? [n] "; +- $ans=<STDIN>; chomp $ans; +- } until $ans =~ /^y|n/i or $ans eq ""; +- + if (uc(substr($ans,0,1)) eq 'Y') { + print "\nOK, tell me more about it.\n\n"; + print "\tHost name : [localhost] "; Added: trunk/packages/libtfbs-perl/trunk/debian/patches/series =================================================================== --- trunk/packages/libtfbs-perl/trunk/debian/patches/series (rev 0) +++ trunk/packages/libtfbs-perl/trunk/debian/patches/series 2008-07-18 16:30:27 UTC (rev 2257) @@ -0,0 +1 @@ +nomysqlserver.patch Added: trunk/packages/libtfbs-perl/trunk/debian/rules =================================================================== --- trunk/packages/libtfbs-perl/trunk/debian/rules (rev 0) +++ trunk/packages/libtfbs-perl/trunk/debian/rules 2008-07-18 16:30:27 UTC (rev 2257) @@ -0,0 +1,69 @@ +#!/usr/bin/make -f + +export PERL_MM_USE_DEFAULT=1 + +include /usr/share/quilt/quilt.make + +PERL ?= /usr/bin/perl +PACKAGE = $(shell dh_listpackages) +TMP = $(CURDIR)/debian/$(PACKAGE) + +CFLAGS = -Wall -g +ifneq (,$(findstring noopt,$(DEB_BUILD_OPTIONS))) + CFLAGS += -O0 +else + CFLAGS += -O2 +endif + +Makefile: Makefile.PL + $(PERL) Makefile.PL INSTALLDIRS=vendor + +build: patch build-stamp +build-stamp: Makefile + dh_testdir + # Add commands to compile the package here + $(MAKE) OPTIMIZE="$(CFLAGS)" LD_RUN_PATH="" + #$(MAKE) test + touch $@ + +clean: unpatch + dh_testdir + dh_testroot + dh_clean build-stamp install-stamp + [ -f Makefile ] && $(MAKE) realclean || echo "No Makefile present, assuming prestine setup." + +install: install-stamp +install-stamp: build-stamp + dh_testdir + dh_testroot + dh_clean -k + # Add commands to install the package into $(TMP) + $(MAKE) install DESTDIR=$(TMP) PREFIX=/usr + if [ -d $(TMP)/usr/share/perl5 ]; then \ + rmdir --ignore-fail-on-non-empty --parents --verbose $(TMP)/usr/share/perl5; \ + else \ + echo "No install directory to clean"; \ + fi + touch $@ + +binary-indep: build install +# We have nothing to do here for an architecture-dependent package + +binary-arch: build install + dh_testdir + dh_testroot + dh_installexamples examples/* + dh_installdocs BUGS README + dh_installchangelogs Changes + dh_shlibdeps + dh_strip + dh_perl + dh_compress + dh_fixperms + dh_installdeb + dh_gencontrol + dh_md5sums + dh_builddeb + +binary: binary-indep binary-arch +.PHONY: build clean binary-indep binary-arch binary install Property changes on: trunk/packages/libtfbs-perl/trunk/debian/rules ___________________________________________________________________ Name: svn:executable + * Added: trunk/packages/libtfbs-perl/trunk/debian/watch =================================================================== --- trunk/packages/libtfbs-perl/trunk/debian/watch (rev 0) +++ trunk/packages/libtfbs-perl/trunk/debian/watch 2008-07-18 16:30:27 UTC (rev 2257) @@ -0,0 +1,2 @@ +version=3 +http://tfbs.genereg.net/TFBS-(.*)\.tar\.gz _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
