Debian NEW package overview for bwa-mem2
| bwa-mem2_2.2.1-1_amd64.changes (click to toggle) | |
|---|---|
| Format: | 1.8 |
| Date: | Thu, 18 Nov 2021 18:55:34 +0100 |
| Source: | bwa-mem2 |
| Binary: | bwa-mem2 bwa-mem2-dbgsym |
| Architecture: | source amd64 |
| Version: | 2.2.1-1 |
| Distribution: | unstable |
| Urgency: | medium |
| Maintainer: | Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org> |
| Changed-By: | Michael R. Crusoe <crusoe@debian.org> |
| Description: | bwa-mem2 - Sequence alignment using Burrows-Wheeler Transform |
| Closes: | 950607 |
| Changes: | bwa-mem2 (2.2.1-1) unstable; urgency=medium * Initial release. (Closes: #950607) |
| Files: | 37c704e7c910c006df51364320ac5dcb 2014 science optional bwa-mem2_2.2.1-1.dsc e68e6cd8575d8158539dbaed8ab4b6f2 230828 science optional bwa-mem2_2.2.1.orig.tar.xz aeb238dab8b6af2c2529ca0bdb88605e 26792 science optional bwa-mem2_2.2.1-1.debian.tar.xz 2aea9019b5452f3ba7b73ff48ecd3696 1955400 debug optional bwa-mem2-dbgsym_2.2.1-1_amd64.deb 6988e40cd1e0ec53494ba77e8aac3097 6045 science optional bwa-mem2_2.2.1-1_amd64.buildinfo e390773a32ec1040738d3e2a26e85b59 367032 science optional bwa-mem2_2.2.1-1_amd64.deb |
| bwa-mem2_2.2.1-1.dsc (click to toggle) | |
|---|---|
| Format: | 3.0 (quilt) |
| Source: | bwa-mem2 |
| Binary: | bwa-mem2 |
| Architecture: | any |
| Version: | 2.2.1-1 |
| Maintainer: | Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org> |
| Uploaders: | Dylan Aïssi <daissi@debian.org>, Michael R. Crusoe <crusoe@debian.org> |
| Homepage: | https://github.com/bwa-mem2/bwa-mem2 |
| Standards-Version: | 4.6.0 |
| Vcs-Browser: | https://salsa.debian.org/med-team/bwa-mem2 |
| Vcs-Git: | https://salsa.debian.org/med-team/bwa-mem2.git |
| Testsuite: | autopkgtest |
| Build-Depends: | debhelper-compat (=13), zlib1g-dev, libsimde-dev, help2man |
| Package-List: | bwa-mem2 deb science optional arch=any |
| Files: | e68e6cd8575d8158539dbaed8ab4b6f2 230828 bwa-mem2_2.2.1.orig.tar.xz aeb238dab8b6af2c2529ca0bdb88605e 26792 bwa-mem2_2.2.1-1.debian.tar.xz |
| control file for bwa-mem2_2.2.1-1_amd64.deb (click to toggle) | |
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| Package: | bwa-mem2 |
| Version: | 2.2.1-1 |
| Architecture: | amd64 |
| Maintainer: | Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org> |
| Installed-Size: | 1730 |
| Depends: | libc6 (>=2.38), libgcc-s1 (>=3.4), libstdc++6 (>=13.1), zlib1g (>=1:1.1.4) |
| Section: | science |
| Priority: | optional |
| Homepage: | https://github.com/bwa-mem2/bwa-mem2 |
| Description: | Sequence alignment using Burrows-Wheeler Transform BWA is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM. The first algorithm is designed for Illumina sequence reads up to 100bp, while the rest two for longer sequences ranged from 70bp to 1Mbp. BWA-MEM and BWA-SW share similar features such as long-read support and split alignment, but BWA-MEM, which is the latest, is generally recommended for high-quality queries as it is faster and more accurate. BWA-MEM also has better performance than BWA-backtrack for 70-100bp Illumina reads. |
| contents of bwa-mem2_2.2.1-1_amd64.deb (click to toggle) | |
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drwxr-xr-x root/root 0 2021-11-18 17:55 ./ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/bin/ -rwxr-xr-x root/root 14568 2021-11-18 17:55 ./usr/bin/bwa-mem2 -rwxr-xr-x root/root 334488 2021-11-18 17:55 ./usr/bin/bwa-mem2.avx -rwxr-xr-x root/root 346776 2021-11-18 17:55 ./usr/bin/bwa-mem2.avx2 -rwxr-xr-x root/root 367256 2021-11-18 17:55 ./usr/bin/bwa-mem2.avx512bw -rwxr-xr-x root/root 338584 2021-11-18 17:55 ./usr/bin/bwa-mem2.sse41 -rwxr-xr-x root/root 338584 2021-11-18 17:55 ./usr/bin/bwa-mem2.sse42 drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/share/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/share/doc/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/ -rw-r--r-- root/root 1435 2021-03-17 05:38 ./usr/share/doc/bwa-mem2/NEWS.md.gz -rw-r--r-- root/root 3022 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/README.md.gz -rw-r--r-- root/root 163 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/changelog.Debian.gz -rw-r--r-- root/root 4775 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/copyright drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/examples/ -rw-r--r-- root/root 96 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/examples/read1.fq -rw-r--r-- root/root 96 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/examples/read2.fq -rw-r--r-- root/root 384 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/examples/reads.fq -rw-r--r-- root/root 192 2021-11-18 17:55 ./usr/share/doc/bwa-mem2/examples/ref.fa drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/share/man/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/share/man/man1/ -rw-r--r-- root/root 1651 2021-11-18 17:55 ./usr/share/man/man1/bwa-mem2-mem.1.gz -rw-r--r-- root/root 358 2021-11-18 17:55 ./usr/share/man/man1/bwa-mem2.1.gz | |
| copyright of bwa-mem2_2.2.1-1_amd64.deb (click to toggle) | |
|---|---|
Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
Upstream-Name: BWA-MEM2
Upstream-Contact: Heng Li <lh3@me.com>
Source: https://github.com/bwa-mem2/bwa-mem2/
Files-Excluded: .git
Files: *
Copyright: 2019 Vasimuddin Md <vasimuddin.md@intel.com>
2019 Sanchit Misra <sanchit.misra@intel.com>
2019 Intel Corporation
2019 Heng Li <hli@jimmy.harvard.edu>
License: Expat
Files: src/bntseq.*
src/bwtindex.cpp
src/khash.h
src/kseq.h
src/ksort.h
src/ksw.cpp
src/kvec.h
src/sais.h
src/utils.*
Copyright: 2008 Genome Research Ltd (GRL).
2008-2019 Heng Li <hli@jimmy.harvard.edu>
2008, 2009, 2011 by Attractive Chaos <attractor@live.co.uk>
2008-2010 Yuta Mori All Rights Reserved. (sais.hxx for sais-lite)
2019 Vasimuddin Md <vasimuddin.md@intel.com>
2019 Sanchit Misra <sanchit.misra@intel.com>
License: Expat
Files: src/bwt.h
Copyright: 2008 Genome Research Ltd (GRL).
2008-2019 Heng Li <hli@jimmy.harvard.edu>
2019 Vasimuddin Md <vasimuddin.md@intel.com>
2019 Sanchit Misra <sanchit.misra@intel.com>
2019 Intel Corporation
License: Expat
Comment: There is still reference to previous MIT licence
Files: src/kbtree.h
Copyright: © 1997-1999, 2001, John-Mark Gurney.
© 2008-2009, Attractive Chaos <attractor@live.co.uk>
License: BSD-2-Clause
Files: debian/*
Copyright: 2019 Dylan Aïssi <daissi@debian.org>
2020 Michael R. Crusoe <crusoe@debian.org>
License: GPL-3+
This program is free software; you can redistribute it and/or modify it under
the terms of the GNU General Public License as published by the Free Software
Foundation, either version 3 of the License, or (at your option) any later
version.
.
This program is distributed in the hope that it will be useful, but WITHOUT ANY
WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A
PARTICULAR PURPOSE. See the GNU General Public License for more details.
.
You should have received a copy of the GNU General Public License along with
this program. If not, see <http://www.gnu.org/licenses/>.
.
On Debian systems, the complete text of the GNU General
Public License can be found in `/usr/share/common-licenses/GPL-3'.
Files: debian/patches/*
Copyright: 2020 Michael R. Crusoe <crusoe@debian.org>
License: Expat
License: BSD-2-Clause
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions
are met:
.
1. Redistributions of source code must retain the above copyright
notice, this list of conditions and the following disclaimer.
2. Redistributions in binary form must reproduce the above copyright
notice, this list of conditions and the following disclaimer in the
documentation and/or other materials provided with the distribution.
.
THIS SOFTWARE IS PROVIDED BY THE AUTHOR AND CONTRIBUTORS ``AS IS'' AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
ARE DISCLAIMED. IN NO EVENT SHALL THE AUTHOR OR CONTRIBUTORS BE LIABLE
FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS
OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF
SUCH DAMAGE.
License: Expat
Permission is hereby granted, free of charge, to any person obtaining
a copy of this software and associated documentation files (the
"Software"), to deal in the Software without restriction, including
without limitation the rights to use, copy, modify, merge, publish,
distribute, sublicense, and/or sell copies of the Software, and to
permit persons to whom the Software is furnished to do so, subject to
the following conditions:
.
The above copyright notice and this permission notice shall be
included in all copies or substantial portions of the Software.
.
THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
SOFTWARE.
| |
| control file for bwa-mem2-dbgsym_2.2.1-1_amd64.deb (click to toggle) | |
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| Package: | bwa-mem2-dbgsym |
| Source: | bwa-mem2 |
| Version: | 2.2.1-1 |
| Auto-Built-Package: | debug-symbols |
| Architecture: | amd64 |
| Maintainer: | Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org> |
| Installed-Size: | 2393 |
| Depends: | bwa-mem2 (=2.2.1-1) |
| Section: | debug |
| Priority: | optional |
| Description: | debug symbols for bwa-mem2 |
| Build-Ids: | 5a43925efe281b5567e5717bd3421b12cf3d4829 5b3c736ce828425b205f03545d9be8f7fa60a1ef 6a1de2a1ad9056f3a8e3973bf097c1deec166a52 7a28ad21cc04ab9895bcee286241fe29b1a67f2e 88af5d16140ac678625a66beabd926ee9062cf62 95464db4b0403970f8bb61c6448ecafda81f8b7f |
| contents of bwa-mem2-dbgsym_2.2.1-1_amd64.deb (click to toggle) | |
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drwxr-xr-x root/root 0 2021-11-18 17:55 ./ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.build-id/5a/ -rw-r--r-- root/root 457328 2021-11-18 17:55 ./usr/lib/debug/.build-id/5a/43925efe281b5567e5717bd3421b12cf3d4829.debug drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.build-id/5b/ -rw-r--r-- root/root 462752 2021-11-18 17:55 ./usr/lib/debug/.build-id/5b/3c736ce828425b205f03545d9be8f7fa60a1ef.debug drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.build-id/6a/ -rw-r--r-- root/root 456952 2021-11-18 17:55 ./usr/lib/debug/.build-id/6a/1de2a1ad9056f3a8e3973bf097c1deec166a52.debug drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.build-id/7a/ -rw-r--r-- root/root 458712 2021-11-18 17:55 ./usr/lib/debug/.build-id/7a/28ad21cc04ab9895bcee286241fe29b1a67f2e.debug drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.build-id/88/ -rw-r--r-- root/root 20696 2021-11-18 17:55 ./usr/lib/debug/.build-id/88/af5d16140ac678625a66beabd926ee9062cf62.debug drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.build-id/95/ -rw-r--r-- root/root 487480 2021-11-18 17:55 ./usr/lib/debug/.build-id/95/464db4b0403970f8bb61c6448ecafda81f8b7f.debug drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 85136 2021-11-18 17:55 ./usr/lib/debug/.dwz/x86_64-linux-gnu/bwa-mem2.debug drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/share/ drwxr-xr-x root/root 0 2021-11-18 17:55 ./usr/share/doc/ lrwxrwxrwx root/root 0 2021-11-18 17:55 ./usr/share/doc/bwa-mem2-dbgsym -> bwa-mem2 | |
| copyright of bwa-mem2-dbgsym_2.2.1-1_amd64.deb (click to toggle) | |
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WARNING: No copyright found, please check package manually. | |
Timestamp: 27.02.2025 / 13:02:26 (UTC)