Author: moeller Date: 2010-06-25 16:19:19 +0000 (Fri, 25 Jun 2010) New Revision: 4930
Added: trunk/packages/python-cogent/ trunk/packages/python-cogent/trunk/ trunk/packages/python-cogent/trunk/debian/ trunk/packages/python-cogent/trunk/debian/README.Debian trunk/packages/python-cogent/trunk/debian/README.source trunk/packages/python-cogent/trunk/debian/changelog trunk/packages/python-cogent/trunk/debian/compat trunk/packages/python-cogent/trunk/debian/control trunk/packages/python-cogent/trunk/debian/copyright trunk/packages/python-cogent/trunk/debian/docs trunk/packages/python-cogent/trunk/debian/python-cogent.doc-base.EX trunk/packages/python-cogent/trunk/debian/python-cogent.prerm.debhelper trunk/packages/python-cogent/trunk/debian/python-cogent.substvars trunk/packages/python-cogent/trunk/debian/pyversions trunk/packages/python-cogent/trunk/debian/rules trunk/packages/python-cogent/trunk/debian/watch Modified: trunk/packages/R/r-other-mott-happy/trunk/debian/changelog Log: Initial attempt to package pycogent. Modified: trunk/packages/R/r-other-mott-happy/trunk/debian/changelog =================================================================== --- trunk/packages/R/r-other-mott-happy/trunk/debian/changelog 2010-06-25 15:34:12 UTC (rev 4929) +++ trunk/packages/R/r-other-mott-happy/trunk/debian/changelog 2010-06-25 16:19:19 UTC (rev 4930) @@ -1,3 +1,9 @@ +r-other-mott-happy (2.2.hbrem~beta-2) unstable; urgency=low + + * patch to happyplot + + -- Steffen Moeller <[email protected]> Wed, 28 Apr 2010 18:24:05 +0200 + r-other-mott-happy (2.2.hbrem~beta-1) unstable; urgency=low * New upstream release. Property changes on: trunk/packages/python-cogent/trunk/debian ___________________________________________________________________ Added: mergeWithUpstream + 1 Added: trunk/packages/python-cogent/trunk/debian/README.Debian =================================================================== --- trunk/packages/python-cogent/trunk/debian/README.Debian (rev 0) +++ trunk/packages/python-cogent/trunk/debian/README.Debian 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,6 @@ +python-pycogent for Debian +-------------------------- + +<possible notes regarding this package - if none, delete this file> + + -- root <r...@unknown> Fri, 25 Jun 2010 17:23:58 +0200 Added: trunk/packages/python-cogent/trunk/debian/README.source =================================================================== --- trunk/packages/python-cogent/trunk/debian/README.source (rev 0) +++ trunk/packages/python-cogent/trunk/debian/README.source 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,9 @@ +python-pycogent for Debian +-------------------------- + +<this file describes information about the source package, see Debian policy +manual section 4.14. You WILL either need to modify or delete this file> + + + + Added: trunk/packages/python-cogent/trunk/debian/changelog =================================================================== --- trunk/packages/python-cogent/trunk/debian/changelog (rev 0) +++ trunk/packages/python-cogent/trunk/debian/changelog 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,6 @@ +python-cogent (1.4.1-1) unstable; urgency=low + + * Initial release (Closes: #nnnn) + + -- Sri Girish Srinivasa Murthy <[email protected]> Fri, 25 Jun 2010 17:23:58 +0200 + Added: trunk/packages/python-cogent/trunk/debian/compat =================================================================== --- trunk/packages/python-cogent/trunk/debian/compat (rev 0) +++ trunk/packages/python-cogent/trunk/debian/compat 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1 @@ +7 Added: trunk/packages/python-cogent/trunk/debian/control =================================================================== --- trunk/packages/python-cogent/trunk/debian/control (rev 0) +++ trunk/packages/python-cogent/trunk/debian/control 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,19 @@ +Source: python-cogent +Section: science +Priority: extra +Maintainer: Sri Girish Srinivasa Murthy <[email protected]> +Build-Depends: debhelper (>= 7), cdbs, python, python-central, python-numpy (>= 1.3.0) +Standards-Version: 3.8.4 +Homepage: http://pycogent.sourceforge.net/ + +Package: python-cogent +Architecture: any +Depends: ${shlibs:Depends}, ${misc:Depends}, ${misc:Depends}, ${python:Depends} +Description: framework for genomic biology + PyCogent is a software library for genomic biology. It is a fully + integrated and thoroughly tested framework for: controlling third-party + applications; devising workflows; querying databases; conducting novel + probabilistic analyses of biological sequence evolution; and generating + publication quality graphics. It is distinguished by many unique built-in + capabilities (such as true codon alignment) and the frequent addition + of entirely new methods for the analysis of genomic data. Added: trunk/packages/python-cogent/trunk/debian/copyright =================================================================== --- trunk/packages/python-cogent/trunk/debian/copyright (rev 0) +++ trunk/packages/python-cogent/trunk/debian/copyright 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,27 @@ +This work was packaged for Debian by: + + root <r...@unknown> on Fri, 25 Jun 2010 17:23:58 +0200 + +It was downloaded from <http://pycogent.sorceforge.net> + +Upstream Authors: + + Gavin Huttley <[email protected]> + Andrew Butterfield + Peter Maxwell + Rob Knight + +Copyright: + + Copyright 2007-2009, The Cogent Project" + +License: + + GPL-2+ + +The Debian packaging is: + + Copyright (C) 2010 root <r...@unknown> + +and is licensed under the same copyright, +see `/usr/share/common-licenses/GPL-2'. Added: trunk/packages/python-cogent/trunk/debian/docs =================================================================== --- trunk/packages/python-cogent/trunk/debian/docs (rev 0) +++ trunk/packages/python-cogent/trunk/debian/docs 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,3 @@ +cogent-requirements.txt +NumpyPortingNotes.txt +README Added: trunk/packages/python-cogent/trunk/debian/python-cogent.doc-base.EX =================================================================== --- trunk/packages/python-cogent/trunk/debian/python-cogent.doc-base.EX (rev 0) +++ trunk/packages/python-cogent/trunk/debian/python-cogent.doc-base.EX 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,20 @@ +Document: python-pycogent +Title: Debian python-pycogent Manual +Author: <insert document author here> +Abstract: This manual describes what python-pycogent is + and how it can be used to + manage online manuals on Debian systems. +Section: unknown + +Format: debiandoc-sgml +Files: /usr/share/doc/python-pycogent/python-pycogent.sgml.gz + +Format: postscript +Files: /usr/share/doc/python-pycogent/python-pycogent.ps.gz + +Format: text +Files: /usr/share/doc/python-pycogent/python-pycogent.text.gz + +Format: HTML +Index: /usr/share/doc/python-pycogent/html/index.html +Files: /usr/share/doc/python-pycogent/html/*.html Added: trunk/packages/python-cogent/trunk/debian/python-cogent.prerm.debhelper =================================================================== --- trunk/packages/python-cogent/trunk/debian/python-cogent.prerm.debhelper (rev 0) +++ trunk/packages/python-cogent/trunk/debian/python-cogent.prerm.debhelper 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,45 @@ +# Automatically added by dh_pycentral +case "$1" in remove|upgrade) + pkgremove=y +esac +if [ -f /var/lib/pycentral/python-cogent.pkgremove ] || [ -f /var/lib/pycentral/pkgremove ]; then + pkgremove=y +fi +if [ "$pkgremove" = y ]; then +if which python >/dev/null 2>&1 && which pycentral >/dev/null 2>&1; then + pycentral pkgremove python-cogent +else + flist=$(tempfile) + slist=$(tempfile) + dpkg -L python-cogent | tee $flist | \ + while read n; do + case "$n" in + /usr/share/pyshared/*) + n2=${n#/usr/share/pyshared/*} + case "$n" in + *.py) echo "p $n";; + *) [ -d "$n" ] && echo "d $n2" || echo "f $n2" + esac + ;; + *) continue + esac + done > $slist + if [ -s $slist ]; then + for d in /usr/lib/python[0-9].[0-9]/????-packages; do + case "$d" in */python2.1/*|*/python2.2/*) continue; esac + while read t n; do + case "$t" in + p) rm -f $d/$n $d/${n}[co];; + d) rmdir $d/$n 2>/dev/null || true;; + *) rm -f $d/$n + esac + done < $slist + done + fi + awk '/\/usr\/share\/pyshared/ {next} /\.py$/ {print $0"c\n" $0"o"}' $flist \ + | xargs -r rm -f >&2 + rm -f $flist $slist +fi +rm -f /var/lib/pycentral/python-cogent.pkgremove +fi +# End automatically added section Added: trunk/packages/python-cogent/trunk/debian/python-cogent.substvars =================================================================== --- trunk/packages/python-cogent/trunk/debian/python-cogent.substvars (rev 0) +++ trunk/packages/python-cogent/trunk/debian/python-cogent.substvars 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,5 @@ +python:Versions=2.6 +python:Provides=python2.6-cogent +python:Depends=python (<< 2.7), python (>= 2.6), python-central (>= 0.6.11) +shlibs:Depends=libc6 (>= 2.3.4) +misc:Depends= Added: trunk/packages/python-cogent/trunk/debian/pyversions =================================================================== --- trunk/packages/python-cogent/trunk/debian/pyversions (rev 0) +++ trunk/packages/python-cogent/trunk/debian/pyversions 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1 @@ +2.6 Added: trunk/packages/python-cogent/trunk/debian/rules =================================================================== --- trunk/packages/python-cogent/trunk/debian/rules (rev 0) +++ trunk/packages/python-cogent/trunk/debian/rules 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,19 @@ +#!/usr/bin/make -f +# -*- makefile -*- + +# Uncomment this to turn on verbose mode. +#export DH_VERBOSE=1 + +export DEB_PYTHON_SYSTEM=pycentral + +include /usr/share/cdbs/1/rules/debhelper.mk +include /usr/share/cdbs/1/class/python-distutils.mk +#include /usr/share/cdbs/1/rules/patchsys-quilt.mk + +install:: + find . -name runAdt | xargs -r chmod +x + +clean:: + find . -name CVS -a -type d | xargs -r rm -r + find . -name runAdt | xargs -r chmod +x + rm -rf build build-stamp Property changes on: trunk/packages/python-cogent/trunk/debian/rules ___________________________________________________________________ Added: svn:executable + * Added: trunk/packages/python-cogent/trunk/debian/watch =================================================================== --- trunk/packages/python-cogent/trunk/debian/watch (rev 0) +++ trunk/packages/python-cogent/trunk/debian/watch 2010-06-25 16:19:19 UTC (rev 4930) @@ -0,0 +1,2 @@ +version=3 +http://sf.net/pycogent/PyCogent-(.*)\.tar\.gz _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
