Author: tbooth-guest Date: 2011-01-30 14:02:47 +0000 (Sun, 30 Jan 2011) New Revision: 5823
Modified: trunk/packages/tm-align/trunk/debian/changelog trunk/packages/tm-align/trunk/debian/control trunk/packages/tm-align/trunk/debian/copyright trunk/packages/tm-align/trunk/debian/rules Log: Updated and some fixes at sprint Modified: trunk/packages/tm-align/trunk/debian/changelog =================================================================== --- trunk/packages/tm-align/trunk/debian/changelog 2011-01-30 13:59:12 UTC (rev 5822) +++ trunk/packages/tm-align/trunk/debian/changelog 2011-01-30 14:02:47 UTC (rev 5823) @@ -1,3 +1,34 @@ +tm-align (20110124-1) 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) Modified: trunk/packages/tm-align/trunk/debian/control =================================================================== --- trunk/packages/tm-align/trunk/debian/control 2011-01-30 13:59:12 UTC (rev 5822) +++ trunk/packages/tm-align/trunk/debian/control 2011-01-30 14:02:47 UTC (rev 5823) @@ -3,9 +3,9 @@ Priority: optional Maintainer: Debian Med Packaging Team <[email protected]> DM-Upload-Allowed: yes -Uploaders: Steffen Moeller <[email protected]> +Uploaders: Steffen Moeller <[email protected]>, Tim Booth <[email protected]> Build-Depends: debhelper (>= 5), gfortran -Standards-Version: 3.7.3 +Standards-Version: 3.9.4 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/ Modified: trunk/packages/tm-align/trunk/debian/copyright =================================================================== --- trunk/packages/tm-align/trunk/debian/copyright 2011-01-30 13:59:12 UTC (rev 5822) +++ trunk/packages/tm-align/trunk/debian/copyright 2011-01-30 14:02:47 UTC (rev 5823) @@ -9,9 +9,9 @@ Jeffrey Skolnick -right: +Copyright: - Yang Zhang <[email protected]> + 2005-2011 Yang Zhang <[email protected]> Jeffrey Skolnick The copyrights of the employing universities is still unclear, @@ -21,6 +21,6 @@ The program can be freely copied or modified or redistributed. -The Debian packaging is (C) 2007, Steffen Moeller <[email protected]> and +The Debian packaging is (C) 2011, Steffen Moeller <[email protected]> and is licensed under the GPL, see `/usr/share/common-licenses/GPL'. Modified: trunk/packages/tm-align/trunk/debian/rules =================================================================== --- trunk/packages/tm-align/trunk/debian/rules 2011-01-30 13:59:12 UTC (rev 5822) +++ trunk/packages/tm-align/trunk/debian/rules 2011-01-30 14:02:47 UTC (rev 5823) @@ -65,8 +65,8 @@ get-orig-source: mkdir tm-align-tmp - ( cd tm-align-tmp && wget http://zhang.bioinformatics.ku.edu/TM-align/TMalign.f ) ; \ - version=`grep -A1 history tm-align-tmp/TMalign.f | tail -1 | cut -f1 -d: | tr -d ' */'` ; \ + ( 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 ; \ _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
