Author: ogi Date: 2014-03-08 14:02:19 +0000 (Sat, 08 Mar 2014) New Revision: 16400
Added: trunk/packages/bowtie/trunk/debian/patches/seqan-popcount.patch Modified: trunk/packages/bowtie/trunk/debian/changelog trunk/packages/bowtie/trunk/debian/control trunk/packages/bowtie/trunk/debian/patches/series Log: New patch debian/patches/seqan-popcount.patch. SeqAn 1.4 is required. Standards-Version: 3.9.5. Updated Vcs-Svn and Vcs-Browse. Modified: trunk/packages/bowtie/trunk/debian/changelog =================================================================== --- trunk/packages/bowtie/trunk/debian/changelog 2014-03-07 11:15:12 UTC (rev 16399) +++ trunk/packages/bowtie/trunk/debian/changelog 2014-03-08 14:02:19 UTC (rev 16400) @@ -1,3 +1,12 @@ +bowtie (1.0.0-6) unstable; urgency=low + + * debian/patches/seqan-popcount.patch: New patch. + * Version 1.4 of seqan-dev is required now. + * Standards-Version: 3.9.5 (no changes needed). + * Updated Vcs-Svn and Vcs-Browse fields as per Debian-Med policy. + + -- Ognyan Kulev <[email protected]> Sat, 08 Mar 2014 15:13:16 +0200 + bowtie (1.0.0-5) unstable; urgency=low * Fixed (hopefully) FTBFS by using override_dh_fixperms-indep target Modified: trunk/packages/bowtie/trunk/debian/control =================================================================== --- trunk/packages/bowtie/trunk/debian/control 2014-03-07 11:15:12 UTC (rev 16399) +++ trunk/packages/bowtie/trunk/debian/control 2014-03-08 14:02:19 UTC (rev 16400) @@ -6,11 +6,11 @@ Yask Gupta <[email protected]>, Andreas Tille <[email protected]>, Ognyan Kulev <[email protected]> -Build-Depends: debhelper (>= 9), help2man, seqan-dev (>= 1.3) -Standards-Version: 3.9.4 +Build-Depends: debhelper (>= 9), help2man, seqan-dev (>= 1.4) +Standards-Version: 3.9.5 Homepage: http://bowtie-bio.sourceforge.net/ -Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/bowtie/trunk -Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/bowtie/trunk/ +Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/bowtie/trunk/ +Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/bowtie/trunk/ Package: bowtie Architecture: any Added: trunk/packages/bowtie/trunk/debian/patches/seqan-popcount.patch =================================================================== --- trunk/packages/bowtie/trunk/debian/patches/seqan-popcount.patch (rev 0) +++ trunk/packages/bowtie/trunk/debian/patches/seqan-popcount.patch 2014-03-08 14:02:19 UTC (rev 16400) @@ -0,0 +1,24 @@ +Description: Use SeqAn 1.4's seqan::popCount() function instead of own function +Author: Ognyan Kulev <[email protected]> +Last-Update: 2014-03-08 +--- +This patch header follows DEP-3: http://dep.debian.net/deps/dep3/ +--- bowtie-1.0.0.orig/diff_sample.h ++++ bowtie-1.0.0/diff_sample.h +@@ -475,6 +475,8 @@ + return amap; + } + ++// Debian: Use seqan::popCount ++#if 0 + /** + * Return population count (count of all bits set to 1) of i. + */ +@@ -487,6 +489,7 @@ + } + return cnt; + } ++#endif + + /** + * Calculate log-base-2 of i Modified: trunk/packages/bowtie/trunk/debian/patches/series =================================================================== --- trunk/packages/bowtie/trunk/debian/patches/series 2014-03-07 11:15:12 UTC (rev 16399) +++ trunk/packages/bowtie/trunk/debian/patches/series 2014-03-08 14:02:19 UTC (rev 16400) @@ -5,3 +5,4 @@ seqan-rename-fill-to-resize.patch disable_bits_flag.patch no_hash_style_both_for_mips.patch +seqan-popcount.patch _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
