Andreas Tille pushed to branch master at Debian Med / mauve-aligner
Commits: b05e1390 by Andreas Tille at 2018-07-04T22:43:09+02:00 New upstream version 2.4.0+4736 - - - - - 96a461fa by Andreas Tille at 2018-07-04T22:43:10+02:00 Update upstream source from tag 'upstream/2.4.0+4736' Update to upstream version '2.4.0+4736' with Debian dir 432d6d6b75afe412d4b0a4e69007fd8dc68b1925 - - - - - 774dc06b by Andreas Tille at 2018-07-04T22:44:57+02:00 New upstream SVN checkout - - - - - a89a26a8 by Andreas Tille at 2018-07-04T22:45:51+02:00 Fake watch file - - - - - 45edeed5 by Andreas Tille at 2018-07-04T22:47:31+02:00 do not uselessly parse d/changelog - - - - - 66ee7a92 by Andreas Tille at 2018-07-04T22:47:41+02:00 debhelper 11 - - - - - 4c7255b5 by Andreas Tille at 2018-07-04T22:48:39+02:00 Point Vcs fields to salsa.debian.org - - - - - 88b32118 by Andreas Tille at 2018-07-04T22:48:39+02:00 Standards-Version: 4.1.4 - - - - - c3646caf by Andreas Tille at 2018-07-04T22:51:53+02:00 Upload to unstable - - - - - 16 changed files: - debian/changelog - debian/compat - debian/control - debian/rules - debian/watch - src/images/Back16.gif - src/images/Down16.gif - src/images/Forward16.gif - src/images/Home16.gif - src/images/Up16.gif - src/images/Zoom16.gif - src/images/ZoomIn16.gif - src/images/ZoomIn24.gif - src/images/ZoomOut16.gif - src/images/ZoomOut24.gif - src/org/gel/mauve/analysis/SnpExporter.java Changes: ===================================== debian/changelog ===================================== --- a/debian/changelog +++ b/debian/changelog @@ -1,3 +1,14 @@ +mauve-aligner (2.4.0+4736-1) unstable; urgency=medium + + * New upstream SVN checkout + * Fake watch file + * d/rules: do not uselessly parse d/changelog + * debhelper 11 + * Point Vcs fields to salsa.debian.org + * Standards-Version: 4.1.4 + + -- Andreas Tille <[email protected]> Wed, 04 Jul 2018 22:48:39 +0200 + mauve-aligner (2.4.0+4734-3) unstable; urgency=high * Add explicit dependency on libbiojava-java to enable ===================================== debian/compat ===================================== --- a/debian/compat +++ b/debian/compat @@ -1 +1 @@ -9 +11 ===================================== debian/control ===================================== --- a/debian/control +++ b/debian/control @@ -1,11 +1,10 @@ Source: mauve-aligner Maintainer: Debian Med Packaging Team <[email protected]> -Uploaders: - Andreas Tille <[email protected]>, - Afif Elghraoui <[email protected]>, +Uploaders: Andreas Tille <[email protected]>, + Afif Elghraoui <[email protected]> Section: science Priority: optional -Build-Depends: debhelper (>= 9), +Build-Depends: debhelper (>= 11~), javahelper, default-jdk, ant, @@ -17,10 +16,10 @@ Build-Depends: debhelper (>= 9), libzeus-jscl-java, icedtea-netx-common, libunixsocket-java, - imagemagick, -Standards-Version: 3.9.6 -Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/mauve-aligner.git -Vcs-Git: git://anonscm.debian.org/debian-med/mauve-aligner.git + imagemagick +Standards-Version: 4.1.4 +Vcs-Browser: https://salsa.debian.org/med-team/mauve-aligner +Vcs-Git: https://salsa.debian.org/med-team/mauve-aligner.git Homepage: http://darlinglab.org/mauve/ Package: mauve-aligner @@ -28,7 +27,7 @@ Architecture: any Depends: ${java:Depends}, java-wrappers, ${misc:Depends}, - libbiojava-java, + libbiojava-java, progressivemauve Recommends: ${java:Recommends} Description: multiple genome alignment ===================================== debian/rules ===================================== --- a/debian/rules +++ b/debian/rules @@ -6,8 +6,6 @@ #export DH_VERBOSE=1 -PACKAGE := $(shell dpkg-parsechangelog | sed -n 's/^Source: //p') - JAVA_HOME := /usr/lib/jvm/default-java DEBJAR := /usr/share/java ===================================== debian/watch ===================================== --- a/debian/watch +++ b/debian/watch @@ -1 +1,4 @@ -# There is no tarball download location, libMuscle is only available in SVN +version=4 + +opts=dversionmangle=s/.*/0.No-Release/ \ + https://people.debian.org/~eriberto/ FakeWatchNoUpstreamReleaseForThisPackage-(\d\S+)\.gz ===================================== src/images/Back16.gif ===================================== Binary files a/src/images/Back16.gif and b/src/images/Back16.gif differ ===================================== src/images/Down16.gif ===================================== Binary files a/src/images/Down16.gif and b/src/images/Down16.gif differ ===================================== src/images/Forward16.gif ===================================== Binary files a/src/images/Forward16.gif and b/src/images/Forward16.gif differ ===================================== src/images/Home16.gif ===================================== Binary files a/src/images/Home16.gif and b/src/images/Home16.gif differ ===================================== src/images/Up16.gif ===================================== Binary files a/src/images/Up16.gif and b/src/images/Up16.gif differ ===================================== src/images/Zoom16.gif ===================================== Binary files a/src/images/Zoom16.gif and b/src/images/Zoom16.gif differ ===================================== src/images/ZoomIn16.gif ===================================== Binary files a/src/images/ZoomIn16.gif and b/src/images/ZoomIn16.gif differ ===================================== src/images/ZoomIn24.gif ===================================== Binary files a/src/images/ZoomIn24.gif and b/src/images/ZoomIn24.gif differ ===================================== src/images/ZoomOut16.gif ===================================== Binary files a/src/images/ZoomOut16.gif and b/src/images/ZoomOut16.gif differ ===================================== src/images/ZoomOut24.gif ===================================== Binary files a/src/images/ZoomOut24.gif and b/src/images/ZoomOut24.gif differ ===================================== src/org/gel/mauve/analysis/SnpExporter.java ===================================== --- a/src/org/gel/mauve/analysis/SnpExporter.java +++ b/src/org/gel/mauve/analysis/SnpExporter.java @@ -130,6 +130,7 @@ public class SnpExporter { for (int i = 0; i < snps.length; i++){ output.write(snps[i].toString()+"\n"); } + output.flush(); // don't forget to flush! } public static void exportGaps(XmfaViewerModel model, XMFAAlignment xmfa, BufferedWriter output) throws IOException { @@ -139,6 +140,7 @@ public class SnpExporter { for (Gap[] ar: gaps) for (Gap g: ar) output.write(g.toString()+"\n"); + output.flush(); // don't forget to flush! } public static SNP[] getSNPs(XmfaViewerModel model){ View it on GitLab: https://salsa.debian.org/med-team/mauve-aligner/compare/cf12f0e9266670e6294d76593c06f373206d852d...c3646cafd58b37e51e135dfa4146a70bfea1ef04 -- View it on GitLab: https://salsa.debian.org/med-team/mauve-aligner/compare/cf12f0e9266670e6294d76593c06f373206d852d...c3646cafd58b37e51e135dfa4146a70bfea1ef04 You're receiving this email because of your account on salsa.debian.org.
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