Author: lkajan-guest Date: 2012-09-28 19:39:30 +0000 (Fri, 28 Sep 2012) New Revision: 12293
Added: trunk/packages/concavity/trunk/debian/concavity.examples trunk/packages/concavity/trunk/debian/concavity.install trunk/packages/concavity/trunk/debian/dirs trunk/packages/concavity/trunk/debian/patches/spelling Modified: trunk/packages/concavity/trunk/debian/README.source trunk/packages/concavity/trunk/debian/control trunk/packages/concavity/trunk/debian/patches/series Log: fixed lintian warnings Modified: trunk/packages/concavity/trunk/debian/README.source =================================================================== --- trunk/packages/concavity/trunk/debian/README.source 2012-09-28 15:59:19 UTC (rev 12292) +++ trunk/packages/concavity/trunk/debian/README.source 2012-09-28 19:39:30 UTC (rev 12293) @@ -13,8 +13,7 @@ Static linking to GAPS library ------------------------------ -These are the files in pkg/. In a personal communication the author (Thomas Funkhouser <[email protected]>) did not endorse the separate packaging of this library, although the license would allow this. -His argument is: -'The problem is that gaps is truly a research-oriented code base. It is highly dynamic, it is partially implemented (some functionality is very fleshed out and other is not at all depending on the needs of our research), and it is not easy to learn (there is no user manual). [...] If other people used the gaps, then they would surely stumble across aspects of the code they don't understand and/or aren't implemented and/or don't work. Unfortunately, I am not in a position to answer questions or to fix/complete the parts of the code not relevant to our research.' +These are the files in pkg/. In a personal communication the author (Thomas Funkhouser <[email protected]>) did not endorse the separate packaging of this library, although the license would allow this. +His argument is roughly that GAPS is handled very dynamically by its developers and its versions are not expected to be compatible. # vim:et:ts=2: Added: trunk/packages/concavity/trunk/debian/concavity.examples =================================================================== --- trunk/packages/concavity/trunk/debian/concavity.examples (rev 0) +++ trunk/packages/concavity/trunk/debian/concavity.examples 2012-09-28 19:39:30 UTC (rev 12293) @@ -0,0 +1 @@ +examples/* Added: trunk/packages/concavity/trunk/debian/concavity.install =================================================================== --- trunk/packages/concavity/trunk/debian/concavity.install (rev 0) +++ trunk/packages/concavity/trunk/debian/concavity.install 2012-09-28 19:39:30 UTC (rev 12293) @@ -0,0 +1 @@ +bin/x86_64/concavity usr/bin Modified: trunk/packages/concavity/trunk/debian/control =================================================================== --- trunk/packages/concavity/trunk/debian/control 2012-09-28 15:59:19 UTC (rev 12292) +++ trunk/packages/concavity/trunk/debian/control 2012-09-28 19:39:30 UTC (rev 12293) @@ -4,7 +4,7 @@ Maintainer: Debian Med Packaging Team <[email protected]> Uploaders: Laszlo Kajan <[email protected]> Build-Depends: debhelper (>= 8.0.0) -Standards-Version: 3.9.3 +Standards-Version: 3.9.4 Homepage: http://compbio.cs.princeton.edu/concavity/ Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/concavity/trunk/ Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/concavity/trunk/ @@ -13,6 +13,7 @@ Package: concavity Architecture: any Depends: ${shlibs:Depends}, ${misc:Depends} +Suggests: pymol Description: predictor of protein ligand binding sites from structure and conservation ConCavity predicts protein ligand binding sites by combining evolutionary sequence conservation and 3D structure. @@ -35,9 +36,10 @@ Conservation and 3D Structure. PLoS Comput Biol, 5(12).'. Package: concavity-dbg +Section: debug Architecture: any Depends: concavity (= ${binary:Version}), ${shlibs:Depends}, ${misc:Depends} -Description: predictor of protein ligand binding sites from structure and conservation (debug) +Description: predictor of protein ligand binding sites (debug) ConCavity predicts protein ligand binding sites by combining evolutionary sequence conservation and 3D structure. . Added: trunk/packages/concavity/trunk/debian/dirs =================================================================== --- trunk/packages/concavity/trunk/debian/dirs (rev 0) +++ trunk/packages/concavity/trunk/debian/dirs 2012-09-28 19:39:30 UTC (rev 12293) @@ -0,0 +1 @@ +usr/bin Modified: trunk/packages/concavity/trunk/debian/patches/series =================================================================== --- trunk/packages/concavity/trunk/debian/patches/series 2012-09-28 15:59:19 UTC (rev 12292) +++ trunk/packages/concavity/trunk/debian/patches/series 2012-09-28 19:39:30 UTC (rev 12293) @@ -4,3 +4,4 @@ CFLAGSasf compiler_errors noopengllink +spelling Added: trunk/packages/concavity/trunk/debian/patches/spelling =================================================================== --- trunk/packages/concavity/trunk/debian/patches/spelling (rev 0) +++ trunk/packages/concavity/trunk/debian/patches/spelling 2012-09-28 19:39:30 UTC (rev 12293) @@ -0,0 +1,11 @@ +--- a/apps/concavity/pocket_extraction.C ++++ b/apps/concavity/pocket_extraction.C +@@ -1028,7 +1028,7 @@ + printf(" Minimum cavity radius = %g\n", min_cavity_radius); + printf(" Minimum cavity volume = %g\n", min_cavity_volume); + printf(" Max cavities = %d\n", max_cavities); +- printf(" Grid treshold = %g\n", threshold_range.Mid()); ++ printf(" Grid threshold = %g\n", threshold_range.Mid()); + printf(" Cardinality = %d\n", mask->Cardinality()); + printf(" Volume = %g\n", mask->Volume()); + RNInterval grid_range = mask->Range(); _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
