bowtie-1.3.1-1.11 RPM for x86_64

From OpenSuSE Tumbleweed for x86_64

Bowtie is an ultrafast, memory-efficient short read aligner. It aligns short
DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp
reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep
its memory footprint small: typically about 2.2 GB for the human genome
(2.9 GB for paired-end).

Provides

• bowtie
• bowtie(x86-64)

Requires

• /usr/bin/python3
• libc.so.6()(64bit)
• libc.so.6(GLIBC_2.14)(64bit)
• libc.so.6(GLIBC_2.2.5)(64bit)
• libc.so.6(GLIBC_2.32)(64bit)
• libc.so.6(GLIBC_2.33)(64bit)
• libc.so.6(GLIBC_2.34)(64bit)
• libc.so.6(GLIBC_2.38)(64bit)
• libgcc_s.so.1()(64bit)
• libgcc_s.so.1(GCC_3.0)(64bit)
• libm.so.6()(64bit)
• libm.so.6(GLIBC_2.2.5)(64bit)
• libm.so.6(GLIBC_2.27)(64bit)
• libstdc++.so.6()(64bit)
• libstdc++.so.6(CXXABI_1.3)(64bit)
• libstdc++.so.6(CXXABI_1.3.2)(64bit)
• libstdc++.so.6(CXXABI_1.3.8)(64bit)
• libstdc++.so.6(CXXABI_1.3.9)(64bit)
• libstdc++.so.6(GLIBCXX_3.4)(64bit)
• libstdc++.so.6(GLIBCXX_3.4.11)(64bit)
• libstdc++.so.6(GLIBCXX_3.4.20)(64bit)
• libstdc++.so.6(GLIBCXX_3.4.21)(64bit)
• libstdc++.so.6(GLIBCXX_3.4.22)(64bit)
• libstdc++.so.6(GLIBCXX_3.4.26)(64bit)
• libstdc++.so.6(GLIBCXX_3.4.30)(64bit)
• libstdc++.so.6(GLIBCXX_3.4.32)(64bit)
• libstdc++.so.6(GLIBCXX_3.4.9)(64bit)
• libz.so.1()(64bit)
• libz.so.1(ZLIB_1.2.0.2)(64bit)
• libz.so.1(ZLIB_1.2.3.3)(64bit)
• libz.so.1(ZLIB_1.2.3.5)(64bit)
• rpmlib(CompressedFileNames) <= 3.0.4-1
• rpmlib(FileDigests) <= 4.6.0-1
• rpmlib(PayloadFilesHavePrefix) <= 4.0-1
• rpmlib(PayloadIsZstd) <= 5.4.18-1

License

Artistic-1.0

Changelog

* Wed May 18 2022 Dominique Leuenberger <dimstar@opensuse.org>
  - Update to version 1.3.1:
    + Fixed an overflow issue in `bowtie-build` that would sometimes
      yield corrupt "large" (64-bit) indexes; the resulting index
      would sometimes cause `bowtie` to hang. Note: `bowtie2-build`
      does not have this issue.
    + Fixed an issue in `bowtie` causing XM:i SAM optional field to
      sometimes be off by 1 when using the `-m/-M` flags.
    + Fixed an issue that would sometimes cause deadlocks in `bowtie`
      when running multithreaded.
    + Fixed an issue causing build errors when compiling against
      a pre-C++11 standard.
* Thu Apr 22 2021 Ferdinand Thiessen <rpm@fthiessen.de>
  - Fixed SPEC file: Replaced broken URL
* Mon Sep 14 2020 Christophe Giboudeaux <christophe@krop.fr>
  - Update to 1.3.0:
    * Fixed an issue causing bowtie to report incorrect results
      when using a Bowtie 2 index.
    * New, more efficient implementation of --reorder for
      keeping SAM output lines in same order as input reads
    * Added -x parameter for specifying index. bowtie still
      supports specifying an index via positional parameter,
      but this behavior will be deprecated.
    * Migrated python scripts to python3.
    * Fully removed colorspace functionality.
    * Added support for compiling on ARM architectures.
    * Fixed an issue preventing bowtie from outputting newlines
      in --max and --un output files.
    * Fixed an issue causing alignment results to vary based
      on read names.
    * Fixed an issue preventing --no-unal from suppressing
      unmapped reads.
    * Removed dependence on some third-party libraries,
      simplifying the code and improving portability.
    * Fix an issue preventing bowtie from running with
      many threads on big-endian machines.
  - Spec cleanup
  - Enable aarch64 and disable ppc* and s390x.
* Tue May 12 2020 Guillaume GARDET <guillaume.gardet@opensuse.org>
  - aarch64 is not yet supported on Bowtie1. See:
    https://github.com/BenLangmead/bowtie/pull/13
* Thu Nov 07 2019 Atri Bhattacharya <badshah400@gmail.com>
  - Update to version 1.2.3:
    * Added support for reading and inspecting Bowtie 2 indexes.
      Bowtie 2 indexes can now be used with either Bowtie or Bowtie
      2.
    * Added support for building an index from a gzipped-compressed
      FASTA.
    * Fixed issue preventing bowtie from reporting repeated
      alignments when -M is specified.
    * Fixed issue with -F mode omitting final base of each read.
    * Fixed clipping of first letter of first read in batches after
      first.
    * Fixed an issue preventing bowtie wrapper script from finding
      indexes.
  - New BuildRequires: tbb-devel.
  - Fix env based hashbangs.
  - Use %%license to install LICENSE.
  - Only build on 64-bit, building on 32-bit is no longer supported.
* Thu May 05 2016 flyos@mailoo.org
  - Initial release

Files

/usr/bin/bowtie
/usr/bin/bowtie-align-l
/usr/bin/bowtie-align-s
/usr/bin/bowtie-build
/usr/bin/bowtie-build-l
/usr/bin/bowtie-build-s
/usr/bin/bowtie-inspect
/usr/bin/bowtie-inspect-l
/usr/bin/bowtie-inspect-s
/usr/share/doc/packages/bowtie
/usr/share/doc/packages/bowtie/AUTHORS
/usr/share/doc/packages/bowtie/MANUAL
/usr/share/doc/packages/bowtie/NEWS
/usr/share/doc/packages/bowtie/README
/usr/share/doc/packages/bowtie/TUTORIAL
/usr/share/doc/packages/bowtie/VERSION
/usr/share/licenses/bowtie
/usr/share/licenses/bowtie/LICENSE

Generated by rpm2html 1.8.1

Fabrice Bellet, Wed Oct 22 22:37:11 2025