Alexandre Mestiashvili pushed to branch master at Debian Med / bowtie
Commits: 9130118e by Alexandre Mestiashvili at 2018-09-05T11:50:09Z Add patch fixing FTBFS #906341 - - - - - 856f986e by Alexandre Mestiashvili at 2018-09-05T13:27:36Z Check for DEB_BUILD_OPTIONS and nocheck option - - - - - bfcc2330 by Alexandre Mestiashvili at 2018-09-05T14:31:45Z Print DEB_BUILD_OPTIONS Gbp-Dch: Ignore - - - - - 64216a44 by Alexandre Mestiashvili at 2018-09-05T14:34:50Z Bump policy to 4.2.1, update Uploader's email - - - - - 5c093e5d by Alexandre Mestiashvili at 2018-09-05T14:36:59Z Update changelog, prepare for release Gbp-Dch: Ignore - - - - - 5 changed files: - debian/changelog - debian/control - + debian/patches/fix_isa_return.patch - debian/patches/series - debian/rules Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,19 @@ +bowtie (1.2.2+dfsg-4) unstable; urgency=medium + + [ Andreas Tille ] + * spelling + * Upload to unstable + + [ Dylan Aïssi ] + * Update metadata: Add bio.tools ref + + [ Alexandre Mestiashvili ] + * Add patch fixing FTBFS, thanks to ch4rr0 at github.com + Closes: #906341 + * Check for DEB_BUILD_OPTIONS and nocheck + + -- Alexandre Mestiashvili <[email protected]> Wed, 05 Sep 2018 14:34:56 +0000 + bowtie (1.2.2+dfsg-3) unstable; urgency=medium * Fix watch file to not detect beta versions ===================================== debian/control ===================================== @@ -4,7 +4,7 @@ Uploaders: Steffen Moeller <[email protected]>, Andreas Tille <[email protected]>, Ognyan Kulev <[email protected]>, Stephan Struckmann <[email protected]>, - Alexandre Mestiashvili <[email protected]> + Alexandre Mestiashvili <[email protected]> Section: science Priority: optional Build-Depends: debhelper (>= 11), @@ -13,7 +13,7 @@ Build-Depends: debhelper (>= 11), python, seqan-dev (>= 1.4), zlib1g-dev -Standards-Version: 4.1.4 +Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/med-team/bowtie Vcs-Git: https://salsa.debian.org/med-team/bowtie.git Homepage: http://bowtie-bio.sourceforge.net/ ===================================== debian/patches/fix_isa_return.patch ===================================== @@ -0,0 +1,15 @@ +Subject: Fix isa return type +From: ch4rr0 +Comment: + see https://github.com/BenLangmead/bowtie/commit/58c6ac97b1938909881877ef83167f5eff0e8ab1 +--- bowtie.orig/ebwt.h ++++ bowtie/ebwt.h +@@ -862,7 +862,7 @@ + TIndexOffU* ftab() const { return _ftab; } + TIndexOffU* eftab() const { return _eftab; } + TIndexOffU* offs() const { return _offs; } +- uint32_t* isa() const { return _isa; } /* check */ ++ TIndexOffU* isa() const { return _isa; } /* check */ + TIndexOffU* plen() const { return _plen; } + TIndexOffU* rstarts() const { return _rstarts; } + uint8_t* ebwt() const { return _ebwt; } ===================================== debian/patches/series ===================================== @@ -1,3 +1,4 @@ +fix_isa_return.patch no_hash_style_both_for_mips.patch use-dpkg-buildflags.patch use_debian_seqan.patch ===================================== debian/rules ===================================== @@ -44,6 +44,10 @@ override_dh_auto_clean: dh_auto_clean override_dh_auto_test: + # print DEB_BUILD_OPTIONS + $(info $$DEB_BUILD_OPTIONS is [${DEB_BUILD_OPTIONS}]) +ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS))) ln -s debian/tests sh debian/tests/run-unit-test test_at_build_time rm -f tests examples[0-9].out +endif View it on GitLab: https://salsa.debian.org/med-team/bowtie/compare/64ec87f2e7baba2a5c255abcd1eb32b6501847e8...5c093e5db47c129a0e9b1fbd6c8d6b97b6d827f7 -- View it on GitLab: https://salsa.debian.org/med-team/bowtie/compare/64ec87f2e7baba2a5c255abcd1eb32b6501847e8...5c093e5db47c129a0e9b1fbd6c8d6b97b6d827f7 You're receiving this email because of your account on salsa.debian.org.
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