[med-svn] [Git][med-team/rapmap][master] 5 commits: Lintian override for script-with-language-extension
Andreas Tille
gitlab at salsa.debian.org
Wed Dec 12 22:09:39 GMT 2018
Andreas Tille pushed to branch master at Debian Med / rapmap
Commits:
54475a3f by Andreas Tille at 2018-12-12T20:48:53Z
Lintian override for script-with-language-extension
- - - - -
f9108f8e by Andreas Tille at 2018-12-12T21:35:52Z
More header files needed in salmon
- - - - -
7d0171bb by Andreas Tille at 2018-12-12T21:36:21Z
Avoid privacy breach by pointing to pre-fetched copy of the image in question
- - - - -
20b41510 by Andreas Tille at 2018-12-12T22:04:46Z
Add even more header files needed by salmon
- - - - -
f50b9d72 by Andreas Tille at 2018-12-12T22:06:21Z
Upload to unstable
- - - - -
7 changed files:
- debian/changelog
- + debian/imgs/Join_Chat.svg
- + debian/patches/avoid_privacy_breach.patch
- debian/patches/series
- debian/rapmap-dev.install
- debian/rapmap.docs
- + debian/rapmap.lintian-overrides
Changes:
=====================================
debian/changelog
=====================================
@@ -1,4 +1,4 @@
-rapmap (0.12.0+dfsg-1) UNRELEASED; urgency=medium
+rapmap (0.12.0+dfsg-1) unstable; urgency=medium
* New upstream version
* Point Vcs fields to salsa.debian.org
@@ -11,8 +11,10 @@ rapmap (0.12.0+dfsg-1) UNRELEASED; urgency=medium
Closes: #909766
* Add rapmap-dev package to simplify building salmon and avoid code
duplication in salmon package source
+ * Lintian override for script-with-language-extension
+ * Avoid privacy breach
- -- Andreas Tille <tille at debian.org> Wed, 12 Dec 2018 20:47:27 +0100
+ -- Andreas Tille <tille at debian.org> Wed, 12 Dec 2018 23:05:04 +0100
rapmap (0.5.0+dfsg-3) unstable; urgency=medium
=====================================
debian/imgs/Join_Chat.svg
=====================================
@@ -0,0 +1 @@
+<svg xmlns="http://www.w3.org/2000/svg" width="99" height="20"><linearGradient id="b" x2="0" y2="100%"><stop offset="0" stop-color="#bbb" stop-opacity=".1"/><stop offset="1" stop-opacity=".1"/></linearGradient><mask id="a"><rect width="99" height="20" rx="3" fill="#fff"/></mask><g mask="url(#a)"><path fill="#555" d="M0 0h40v20H0z"/><path fill="#46BC99" d="M40 0h59v20H40z"/><path fill="url(#b)" d="M0 0h99v20H0z"/></g><g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11"><text x="20" y="15" fill="#010101" fill-opacity=".3">gitter</text><text x="20" y="14">gitter</text><text x="68.5" y="15" fill="#010101" fill-opacity=".3">join chat</text><text x="68.5" y="14">join chat</text></g></svg>
\ No newline at end of file
=====================================
debian/patches/avoid_privacy_breach.patch
=====================================
@@ -0,0 +1,12 @@
+Description: Avoid privacy breach by pointing to pre-fetched copy of the image in question
+Author: Andreas Tille <tille at debian.org>
+Last-Update: Wed, 12 Dec 2018 20:47:27 +0100
+
+--- a/README.md
++++ b/README.md
+@@ -1,4 +1,4 @@
+-[](https://gitter.im/COMBINE-lab/RapMap?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge)
++[](https://gitter.im/COMBINE-lab/RapMap?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge)
+
+ # What is RapMap?
+
=====================================
debian/patches/series
=====================================
@@ -1,2 +1,3 @@
use-debian-libs.patch
use_shared_libs.patch
+avoid_privacy_breach.patch
=====================================
debian/rapmap-dev.install
=====================================
@@ -1,12 +1,21 @@
-src/bit_array.c usr/share/rapmap/src
-src/HitManager.cpp usr/share/rapmap/src
-src/rank9b.cpp usr/share/rapmap/src
-src/RapMapFileSystem.cpp usr/share/rapmap/src
-src/RapMapSAIndex.cpp usr/share/rapmap/src
-src/RapMapSAIndexer.cpp usr/share/rapmap/src
-src/RapMapUtils.cpp usr/share/rapmap/src
+src/bit_array.c usr/share/rapmap/src
+src/HitManager.cpp usr/share/rapmap/src
+src/rank9b.cpp usr/share/rapmap/src
+src/RapMapFileSystem.cpp usr/share/rapmap/src
+src/RapMapSAIndex.cpp usr/share/rapmap/src
+src/RapMapSAIndexer.cpp usr/share/rapmap/src
+src/RapMapUtils.cpp usr/share/rapmap/src
-include/macros.h usr/include/rapmap
-include/rank9b.h usr/include/rapmap
-include/Kmer.hpp usr/include/rapmap
-include/RapMapFileSystem.hpp usr/include/rapmap
+include/kseq.h usr/include/rapmap
+include/macros.h usr/include/rapmap
+include/rank9b.h usr/include/rapmap
+include/chobo/small_vector.hpp usr/include/chobo
+include/sparsepp/spp.h usr/include/rapmap/sparsepp
+include/sparsepp/spp_config.h usr/include/rapmap/sparsepp
+include/sparsepp/spp_stdint.h usr/include/rapmap/sparsepp
+include/sparsepp/spp_traits.h usr/include/rapmap/sparsepp
+include/sparsepp/spp_utils.h usr/include/rapmap/sparsepp
+include/Kmer.hpp usr/include/rapmap
+include/RapMapFileSystem.hpp usr/include/rapmap
+include/RapMapUtils.hpp usr/include/rapmap
+include/SparseHashSerializer.hpp usr/include/rapmap
=====================================
debian/rapmap.docs
=====================================
@@ -1 +1,2 @@
README.html
+debian/imgs
=====================================
debian/rapmap.lintian-overrides
=====================================
@@ -0,0 +1,2 @@
+# see https://lists.debian.org/debian-med/2018/06/msg00043.html
+rapmap: script-with-language-extension usr/bin/RunRapMap.sh
View it on GitLab: https://salsa.debian.org/med-team/rapmap/compare/b2a5edcbb1f86062a01d6f12356eac9bc74af9af...f50b9d72962e0ccad8e35d0942890cfd1ad65015
--
View it on GitLab: https://salsa.debian.org/med-team/rapmap/compare/b2a5edcbb1f86062a01d6f12356eac9bc74af9af...f50b9d72962e0ccad8e35d0942890cfd1ad65015
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