Author: tille Date: 2011-01-30 21:51:11 +0000 (Sun, 30 Jan 2011) New Revision: 5834
Added: trunk/packages/tm-align/trunk/debian/get-orig-source Modified: trunk/packages/tm-align/trunk/debian/changelog trunk/packages/tm-align/trunk/debian/compat trunk/packages/tm-align/trunk/debian/control trunk/packages/tm-align/trunk/debian/rules Log: Added (working) get-orig-source, cleaned up changelog which should not be that verbose for not yet uploaded packages, debhelper 7 Modified: trunk/packages/tm-align/trunk/debian/changelog =================================================================== --- trunk/packages/tm-align/trunk/debian/changelog 2011-01-30 21:03:03 UTC (rev 5833) +++ trunk/packages/tm-align/trunk/debian/changelog 2011-01-30 21:51:11 UTC (rev 5834) @@ -1,43 +1,5 @@ -tm-align (20110124-1) unstable; urgency=low +tm-align (20110130-1) unstable; urgency=low - * New upstream version - - 2005/06/01: A small bug of two-point superposition was fixed. - - 2005/10/19: the program was reformed so that the alignment results - are not dependent on the specific compilers. - - 2006/06/20: select 'A' if there is altLoc when reading PDB file. - - 2007/02/27: rotation matrix from Chain-1 to Chain-2 was added. - - 2007/04/18: added options with TM-score normalized by average - length, shorter length, or longer length of two - structures. - - 2007/05/23: added additional output file 'TM.sup_all' for showing - all atoms while 'TM.sup' is only for aligned atoms - - 2007/09/19: added a new feature alignment to deal with the problem - of aligning fractional structures (e.g. protein - interfaces). - - 2007/10/16: A bug for irregular bond-length models was fixed. - - 2009/03/14: A new initial alignment was added and previous initial - alignments are further enhanced. This change increased - accuracy by 4% but increases CPU cost by 40%. - - 2009/08/20: A bug for asymmetry alignment result was fixed. - - 2010/08/02: A new RMSD matrix was used to remove obsolete - statements. Staled subroutines were deleted. - - 2011/01/03: The length of pdb file names were extended to 500 - - 2011/01/24: Fixed a bug on output file name created on 2011/01/03 - * Tweaked get-orig-source in rules to spot version in upstream file - - * New standards version 3.9.4 - - -- Tim Booth <[email protected]> Sun, 30 Jan 2011 13:34:53 +0000 - -tm-align (20050601-2) UNRELEASED; urgency=low - - * Updated to Standards-Version 3.7.3 (no changes needed) - - -- David Paleino <[email protected]> Wed, 06 Feb 2008 13:11:58 +0100 - -tm-align (20050601-1) unstable; urgency=low - * Initial release (Closes: #447505) - -- Steffen Moeller <[email protected]> Sun, 21 Oct 2007 17:11:53 +0200 - + -- Andreas Tille <[email protected]> Sun, 30 Jan 2011 22:49:21 +0100 Modified: trunk/packages/tm-align/trunk/debian/compat =================================================================== --- trunk/packages/tm-align/trunk/debian/compat 2011-01-30 21:03:03 UTC (rev 5833) +++ trunk/packages/tm-align/trunk/debian/compat 2011-01-30 21:51:11 UTC (rev 5834) @@ -1 +1 @@ -5 +7 Modified: trunk/packages/tm-align/trunk/debian/control =================================================================== --- trunk/packages/tm-align/trunk/debian/control 2011-01-30 21:03:03 UTC (rev 5833) +++ trunk/packages/tm-align/trunk/debian/control 2011-01-30 21:51:11 UTC (rev 5834) @@ -3,9 +3,11 @@ Priority: optional Maintainer: Debian Med Packaging Team <[email protected]> DM-Upload-Allowed: yes -Uploaders: Steffen Moeller <[email protected]>, Tim Booth <[email protected]> -Build-Depends: debhelper (>= 5), gfortran -Standards-Version: 3.9.4 +Uploaders: Steffen Moeller <[email protected]>, + Tim Booth <[email protected]>, + Andreas Tille <[email protected]> +Build-Depends: debhelper (>= 7), gfortran +Standards-Version: 3.9.1 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/tm-align/trunk/?rev=0&sc=0 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/tm-align/trunk/ Homepage: http://zhang.bioinformatics.ku.edu/TM-align/ Added: trunk/packages/tm-align/trunk/debian/get-orig-source =================================================================== --- trunk/packages/tm-align/trunk/debian/get-orig-source (rev 0) +++ trunk/packages/tm-align/trunk/debian/get-orig-source 2011-01-30 21:51:11 UTC (rev 5834) @@ -0,0 +1,20 @@ +#!/bin/sh +tmpdir=tm-align-tmp +srcfile=TMalign.f +[ -d "$tmpdir" ] && rm -rf "$tmpdir" +mkdir "$tmpdir" +wget -N -q http://zhanglab.ccmb.med.umich.edu/TM-align/"$srcfile"; --output-document="$tmpdir"/"$srcfile" +if [ ! -s "$tmpdir"/"$srcfile" ] ; then + echo "Failed to download $srcfile from http://zhanglab.ccmb.med.umich.edu/TM-align/"; + exit -1 +fi +version=`egrep '\* [0-9]{4}/[0-9]{2}/[0-9]{2}: ' "$tmpdir"/"$srcfile" | tail -n 1 | cut -f 1 -d : | sed 's/[* /]//g'` +if [ "$version" = "" ] ; then + echo "Failed to obtain version number from $tmpdir/$srcfile. Giving up." + exit -1 +fi +newname="tm-align-${version}" +[ -d "$newname" ] && rm -rf $newname +mv $tmpdir $newname +GZIP="--best --no-name" tar czvf tm-align_${version}.orig.tar.gz $newname +[ -d "$newname" ] && rm -rf $newname Modified: trunk/packages/tm-align/trunk/debian/rules =================================================================== --- trunk/packages/tm-align/trunk/debian/rules 2011-01-30 21:03:03 UTC (rev 5833) +++ trunk/packages/tm-align/trunk/debian/rules 2011-01-30 21:51:11 UTC (rev 5834) @@ -64,13 +64,6 @@ binary: binary-arch get-orig-source: - mkdir tm-align-tmp - ( cd tm-align-tmp && wget http://zhanglab.ccmb.med.umich.edu/TM-align/TMalign.f ) ; \ - version=`egrep '\* [0-9]{4}/[0-9]{2}/[0-9]{2}: ' tm-align-20050601/TMalign.f | tail -n 1 | cut -f 1 -d : | sed 's/[* /]//g'` ; \ - newname="tm-align-$$version" ;\ - [ -d "$$newname" ] && rm -rf $$newname ; \ - mv tm-align-tmp $$newname ; \ - tar czvf tm-align_$$version.orig.tar.gz $$newname ; \ - [ -d "$$newname" ] && rm -rf $$newname + . debian/get-orig-source .PHONY: build clean binary-indep binary-arch binary install configure _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
