Hello community,
here is the log from the commit of package bowtie2 for openSUSE:Factory checked
in at 2020-10-20 16:08:51
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Comparing /work/SRC/openSUSE:Factory/bowtie2 (Old)
and /work/SRC/openSUSE:Factory/.bowtie2.new.3486 (New)
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Package is "bowtie2"
Tue Oct 20 16:08:51 2020 rev:5 rq:842506 version:2.4.1
Changes:
--------
--- /work/SRC/openSUSE:Factory/bowtie2/bowtie2.changes 2020-06-15
20:32:43.666844564 +0200
+++ /work/SRC/openSUSE:Factory/.bowtie2.new.3486/bowtie2.changes
2020-10-20 16:19:23.898265158 +0200
@@ -1,0 +2,17 @@
+Fri Oct 16 12:13:11 UTC 2020 - Atri Bhattacharya <badshah...@gmail.com>
+
+- Update to version 2.4.2:
+ * Fixed an issue that would cause the `bowtie2` wrapper script
+ to throw an error when using wrapper-specific arguments.
+ * Added new `--sam-append-comment` flag that appends comment
+ from FASTA/Q read to corresponding SAM record.
+ * Fixed an issue that would cause qupto, `-u`, to overflow when
+ there are >= 2^32 query sequences
+ (gh#BenLangmead/bowtie2#312).
+ * Fixed an issue that would cause bowtie2-build script to
+ incorrectly process reference files.
+- Drop _service file and use tagged version of simde instead (at
+ version 0.6.0); correspondingly drop the obsinfo and obscpio
+ files as well.
+
+-------------------------------------------------------------------
Old:
----
_service
simde-0.0~git20190101.422ed9c.obscpio
simde.obsinfo
New:
----
simde-0.6.0.tar.gz
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Other differences:
------------------
++++++ bowtie2.spec ++++++
--- /var/tmp/diff_new_pack.Uns60R/_old 2020-10-20 16:19:33.874269882 +0200
+++ /var/tmp/diff_new_pack.Uns60R/_new 2020-10-20 16:19:33.874269882 +0200
@@ -16,6 +16,7 @@
#
+%global simde_version 0.6.0
%ifarch aarch64
%define _lto_cflags %{nil}
%endif
@@ -27,7 +28,7 @@
Group: Productivity/Scientific/Other
URL: http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
Source0:
https://github.com/BenLangmead/bowtie2/archive/v%{version}.tar.gz#/%{name}-%{version}.tar.gz
-Source1: simde-0.0~git20190101.422ed9c.tar.xz
+Source1:
https://github.com/simd-everywhere/simde/archive/v%{simde_version}.tar.gz#/simde-%{simde_version}.tar.gz
# PATCH-FIX-UPSTREAM bowtie2-cmake-install-targets.patch
gh#BenLangmead/bowtie2#292 badshah...@gmail.com -- Add install targets to cmake
scripts and fix tests; patch taken from upstream git
Patch0: bowtie2-cmake-install-targets.patch
Patch1: bowtie2-processor_support.patch
