Script 'mail_helper' called by obssrc Hello community, here is the log from the commit of package bowtie2 for openSUSE:Factory checked in at 2021-07-03 20:51:00 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Comparing /work/SRC/openSUSE:Factory/bowtie2 (Old) and /work/SRC/openSUSE:Factory/.bowtie2.new.2625 (New) ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Package is "bowtie2" Sat Jul 3 20:51:00 2021 rev:7 rq:903854 version:2.4.4 Changes: -------- --- /work/SRC/openSUSE:Factory/bowtie2/bowtie2.changes 2020-10-23 12:23:35.360734503 +0200 +++ /work/SRC/openSUSE:Factory/.bowtie2.new.2625/bowtie2.changes 2021-07-03 20:51:29.688470655 +0200 @@ -1,0 +2,29 @@ +Fri Jul 2 23:48:10 UTC 2021 - Atri Bhattacharya <[email protected]> + +- Update to version 2.4.4: + * Fixed an issue that would sometimes cause deadlocks in bowtie2 + when running multithreaded. + +------------------------------------------------------------------- +Fri May 14 20:25:55 UTC 2021 - Atri Bhattacharya <[email protected]> + +- Update to version 2.4.3: + * Replaced TBB concurrency with C++ threads. + * Added native support for processing Zstd-compressed read files + to bowtie2. + * Added native support for processing Zstd-compressed + reference-genome files to bowtie2-build. + * Fixed an issue causing `bowtie2` to report incorrect + alignments on big-endian machines. + * Fixed an issue causing `bowtie2` to incorrectly process BAM + files on big-endian machines. + * Fixed an issue causing Bowtie2 to set an incorrect MAPQ when + AS and XS are the maximum for read length. + * Add support for building on Apple M1 processors. +- Update simde to version 0.7.0. +- Drop BuildRequires tbb-devel: no longer required. +- RelWithDebInfo isn't supported and assumes fully unoptimised + Debug mode; use Release mode instead by passing + `-DCMAKE_RELEASE_TYPE=Release` to cmake. + +------------------------------------------------------------------- Old: ---- bowtie2-2.4.2.tar.gz simde-0.6.0.tar.gz New: ---- bowtie2-2.4.4.tar.gz simde-0.7.0.tar.gz ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Other differences: ------------------ ++++++ bowtie2.spec ++++++ --- /var/tmp/diff_new_pack.3YpEDR/_old 2021-07-03 20:51:30.152467087 +0200 +++ /var/tmp/diff_new_pack.3YpEDR/_new 2021-07-03 20:51:30.156467057 +0200 @@ -1,7 +1,7 @@ # # spec file for package bowtie2 # -# Copyright (c) 2020 SUSE LLC +# Copyright (c) 2021 SUSE LLC # # All modifications and additions to the file contributed by third parties # remain the property of their copyright owners, unless otherwise agreed @@ -16,12 +16,12 @@ # -%global simde_version 0.6.0 +%global simde_version 0.7.0 %ifarch aarch64 %define _lto_cflags %{nil} %endif Name: bowtie2 -Version: 2.4.2 +Version: 2.4.4 Release: 0 Summary: Fast and memory-efficient short read aligner License: GPL-3.0-only @@ -33,7 +33,6 @@ BuildRequires: fdupes BuildRequires: gcc-c++ BuildRequires: pkgconfig -BuildRequires: tbb-devel BuildRequires: pkgconfig(zlib) ExclusiveArch: x86_64 s390x ppc64le ppc64 aarch64 @@ -61,10 +60,12 @@ sed -i -e 's/-msse2//' CMakeLists.txt sed -i -e 's/-m64//' CMakeLists.txt %endif +# Note: RelWithDebInfo isn't supported and assumes fully unoptimised DEBUG mode; use Release mode instead %cmake \ %ifarch aarch64 -DNO_POPCNT_CAPABILITY=1 \ %endif + -DCMAKE_BUILD_TYPE=Release %cmake_build @@ -82,13 +83,8 @@ %doc AUTHORS MANUAL NEWS TUTORIAL BOWTIE2_VERSION README.md %license LICENSE %{_bindir}/bowtie2 -%{_bindir}/bowtie2-align-l -%{_bindir}/bowtie2-align-s -%{_bindir}/bowtie2-build -%{_bindir}/bowtie2-build-l -%{_bindir}/bowtie2-build-s -%{_bindir}/bowtie2-inspect -%{_bindir}/bowtie2-inspect-l -%{_bindir}/bowtie2-inspect-s +%{_bindir}/bowtie2-build* +%{_bindir}/bowtie2-inspect* +%{_bindir}/bowtie2-align* %changelog ++++++ bowtie2-2.4.2.tar.gz -> bowtie2-2.4.4.tar.gz ++++++ /work/SRC/openSUSE:Factory/bowtie2/bowtie2-2.4.2.tar.gz /work/SRC/openSUSE:Factory/.bowtie2.new.2625/bowtie2-2.4.4.tar.gz differ: char 12, line 1 ++++++ simde-0.6.0.tar.gz -> simde-0.7.0.tar.gz ++++++ ++++ 267843 lines of diff (skipped)
