python-biopython_1.73+dfsg-1ubuntu1_amd64.deb


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Description

python-biopython - Python library for bioinformatics (implemented in Python 2)

Property Value
Distribution Ubuntu 19.04 (Disco Dingo)
Repository Ubuntu Universe amd64
Package filename python-biopython_1.73+dfsg-1ubuntu1_amd64.deb
Package name python-biopython
Package version 1.73+dfsg
Package release 1ubuntu1
Package architecture amd64
Package type deb
Category universe/python
Homepage http://biopython.org
License -
Maintainer Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
Download size 1.27 MB
Installed size 8.76 MB
The Biopython Project is an international association
of developers of freely available Python tools for
computational molecular biology.
It is a distributed collaborative effort to develop Python
libraries and applications which address the needs of
current and future work in bioinformatics. The source code
is made available under the Biopython License, which is
extremely liberal and compatible with almost every license in
the world. The project works along with the Open Bioinformatics
Foundation, who generously provide web and CVS space for
the project.
This package is targeting Python version 2.

Alternatives

Package Version Architecture Repository
python-biopython_1.73+dfsg-1ubuntu1_i386.deb 1.73+dfsg i386 Ubuntu Universe
python-biopython - - -

Requires

Name Value
libc6 >= 2.14
python << 2.8
python >= 2.7~
python-numpy >= 1:1.16.0~rc1
python-numpy-abi9 -
python-reportlab -
python:any >= 2.7~
python:any << 2.8

Download

Type URL
Mirror archive.ubuntu.com
Binary Package python-biopython_1.73+dfsg-1ubuntu1_amd64.deb
Source Package python-biopython

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install python-biopython deb package:
    # sudo apt-get install python-biopython

Files

Path
/usr/lib/python2.7/dist-packages/Bio/File.py
/usr/lib/python2.7/dist-packages/Bio/Index.py
/usr/lib/python2.7/dist-packages/Bio/LogisticRegression.py
/usr/lib/python2.7/dist-packages/Bio/MarkovModel.py
/usr/lib/python2.7/dist-packages/Bio/MaxEntropy.py
/usr/lib/python2.7/dist-packages/Bio/NaiveBayes.py
/usr/lib/python2.7/dist-packages/Bio/Seq.py
/usr/lib/python2.7/dist-packages/Bio/SeqFeature.py
/usr/lib/python2.7/dist-packages/Bio/SeqRecord.py
/usr/lib/python2.7/dist-packages/Bio/__init__.py
/usr/lib/python2.7/dist-packages/Bio/_utils.py
/usr/lib/python2.7/dist-packages/Bio/bgzf.py
/usr/lib/python2.7/dist-packages/Bio/cpairwise2.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/Bio/cpairwise2module.c
/usr/lib/python2.7/dist-packages/Bio/kNN.py
/usr/lib/python2.7/dist-packages/Bio/pairwise2.py
/usr/lib/python2.7/dist-packages/Bio/trie.c
/usr/lib/python2.7/dist-packages/Bio/trie.h
/usr/lib/python2.7/dist-packages/Bio/trie.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/Bio/triefind.py
/usr/lib/python2.7/dist-packages/Bio/triemodule.c
/usr/lib/python2.7/dist-packages/Bio/Affy/CelFile.py
/usr/lib/python2.7/dist-packages/Bio/Affy/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Align/AlignInfo.py
/usr/lib/python2.7/dist-packages/Bio/Align/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Align/_aligners.c
/usr/lib/python2.7/dist-packages/Bio/Align/_aligners.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_ClustalOmega.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_Clustalw.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_Dialign.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_MSAProbs.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_Mafft.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_Muscle.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_Prank.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_Probcons.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/_TCoffee.py
/usr/lib/python2.7/dist-packages/Bio/Align/Applications/__init__.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/ClustalIO.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/EmbossIO.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/FastaIO.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/Interfaces.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/MafIO.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/MauveIO.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/NexusIO.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/PhylipIO.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/StockholmIO.py
/usr/lib/python2.7/dist-packages/Bio/AlignIO/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Alphabet/IUPAC.py
/usr/lib/python2.7/dist-packages/Bio/Alphabet/Reduced.py
/usr/lib/python2.7/dist-packages/Bio/Alphabet/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Application/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Blast/Applications.py
/usr/lib/python2.7/dist-packages/Bio/Blast/NCBIWWW.py
/usr/lib/python2.7/dist-packages/Bio/Blast/NCBIXML.py
/usr/lib/python2.7/dist-packages/Bio/Blast/ParseBlastTable.py
/usr/lib/python2.7/dist-packages/Bio/Blast/Record.py
/usr/lib/python2.7/dist-packages/Bio/Blast/__init__.py
/usr/lib/python2.7/dist-packages/Bio/CAPS/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Cluster/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Cluster/_cluster.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/Bio/Cluster/cluster.c
/usr/lib/python2.7/dist-packages/Bio/Cluster/cluster.h
/usr/lib/python2.7/dist-packages/Bio/Cluster/clustermodule.c
/usr/lib/python2.7/dist-packages/Bio/Compass/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Crystal/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Data/CodonTable.py
/usr/lib/python2.7/dist-packages/Bio/Data/IUPACData.py
/usr/lib/python2.7/dist-packages/Bio/Data/SCOPData.py
/usr/lib/python2.7/dist-packages/Bio/Data/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Emboss/Applications.py
/usr/lib/python2.7/dist-packages/Bio/Emboss/Primer3.py
/usr/lib/python2.7/dist-packages/Bio/Emboss/PrimerSearch.py
/usr/lib/python2.7/dist-packages/Bio/Emboss/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Entrez/Parser.py
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/usr/lib/python2.7/dist-packages/Bio/SubsMat/__init__.py
/usr/lib/python2.7/dist-packages/Bio/SwissProt/KeyWList.py
/usr/lib/python2.7/dist-packages/Bio/SwissProt/__init__.py
/usr/lib/python2.7/dist-packages/Bio/TogoWS/__init__.py
/usr/lib/python2.7/dist-packages/Bio/UniGene/__init__.py
/usr/lib/python2.7/dist-packages/Bio/UniProt/GOA.py
/usr/lib/python2.7/dist-packages/Bio/UniProt/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Wise/__init__.py
/usr/lib/python2.7/dist-packages/Bio/Wise/dnal.py
/usr/lib/python2.7/dist-packages/Bio/Wise/psw.py
/usr/lib/python2.7/dist-packages/Bio/_py3k/__init__.py
/usr/lib/python2.7/dist-packages/Bio/codonalign/__init__.py
/usr/lib/python2.7/dist-packages/Bio/codonalign/chisq.py
/usr/lib/python2.7/dist-packages/Bio/codonalign/codonalignment.py
/usr/lib/python2.7/dist-packages/Bio/codonalign/codonalphabet.py
/usr/lib/python2.7/dist-packages/Bio/codonalign/codonseq.py
/usr/lib/python2.7/dist-packages/Bio/motifs/__init__.py
/usr/lib/python2.7/dist-packages/Bio/motifs/_pwm.c
/usr/lib/python2.7/dist-packages/Bio/motifs/_pwm.x86_64-linux-gnu.so
/usr/lib/python2.7/dist-packages/Bio/motifs/alignace.py
/usr/lib/python2.7/dist-packages/Bio/motifs/mast.py
/usr/lib/python2.7/dist-packages/Bio/motifs/matrix.py
/usr/lib/python2.7/dist-packages/Bio/motifs/meme.py
/usr/lib/python2.7/dist-packages/Bio/motifs/minimal.py
/usr/lib/python2.7/dist-packages/Bio/motifs/thresholds.py
/usr/lib/python2.7/dist-packages/Bio/motifs/transfac.py
/usr/lib/python2.7/dist-packages/Bio/motifs/applications/__init__.py
/usr/lib/python2.7/dist-packages/Bio/motifs/applications/_xxmotif.py
/usr/lib/python2.7/dist-packages/Bio/motifs/jaspar/__init__.py
/usr/lib/python2.7/dist-packages/Bio/motifs/jaspar/db.py
/usr/lib/python2.7/dist-packages/Bio/phenotype/__init__.py
/usr/lib/python2.7/dist-packages/Bio/phenotype/phen_micro.py
/usr/lib/python2.7/dist-packages/Bio/phenotype/pm_fitting.py
/usr/lib/python2.7/dist-packages/biopython-1.73.egg-info/PKG-INFO
/usr/lib/python2.7/dist-packages/biopython-1.73.egg-info/dependency_links.txt
/usr/lib/python2.7/dist-packages/biopython-1.73.egg-info/requires.txt
/usr/lib/python2.7/dist-packages/biopython-1.73.egg-info/top_level.txt
/usr/share/doc/python-biopython/CONTRIB.rst.gz
/usr/share/doc/python-biopython/CONTRIBUTING.rst.gz
/usr/share/doc/python-biopython/DEPRECATED.rst.gz
/usr/share/doc/python-biopython/NEWS.rst.gz
/usr/share/doc/python-biopython/README.Debian
/usr/share/doc/python-biopython/changelog.Debian.gz
/usr/share/doc/python-biopython/copyright

Changelog

2019-03-04 - Adam Conrad <adconrad@ubuntu.com>
python-biopython (1.73+dfsg-1ubuntu1) disco; urgency=medium
* debian/patches/test_phenotype_fit-ppc64el.patch:
- reduce precision on one test, per upstream recommendation at:
https://github.com/biopython/biopython/issues/1945
2019-01-11 - Andreas Tille <tille@debian.org>
python-biopython (1.73+dfsg-1) unstable; urgency=medium
* New upstream version
* debhelper 12
* Standards-Version: 4.3.0
2018-12-05 - Graham Inggs <ginggs@debian.org>
python-biopython (1.72+dfsg-2) unstable; urgency=medium
[ Andreas Tille ]
* Remove unneeded comment about samtools - which is not found by biopython
anyway
[ Graham Inggs ]
* Team upload
* Fix compatibility with ReportLab 3.5 (Closes: #913064)
* Clean up some trailing whitespace in debian/* files
2018-07-28 - Andreas Tille <tille@debian.org>
python-biopython (1.72+dfsg-1) unstable; urgency=medium
* New upstream version
Closes: #904317
* Standards-Version: 4.1.5
* debian/rules: Respect DEB_BUILD_OPTIONS in dh_auto_test
* Drop ancient Python version fields
* Deactivate exclusion of samtools_tool test and see if it works
2018-04-06 - Andreas Tille <tille@debian.org>
python-biopython (1.71+dfsg-1) unstable; urgency=medium
* New upstream version
* Standards-Version: 4.1.3
* Point Vcs fields to salsa.debian.org
* debhelper 11
* Add dh-python to Build-Depends since this will be dropped from python3's
Depends soon
* Fix Python version in Suggestes
* Make sure Doc dir ends up in python-biopython-doc package
2017-12-19 - Andreas Tille <tille@debian.org>
python-biopython (1.70+dfsg-4) unstable; urgency=medium
* Symlink to mathml2.dtd of w3-dtd-mathml package
Closes: #672407
* Standards-Version: 4.1.2
2017-11-07 - Andreas Tille <tille@debian.org>
python-biopython (1.70+dfsg-3) unstable; urgency=medium
* Copy *.rst doc files.
Closes: #872222
* Apply two upstream patches to deal with change in BWA output
Closes: #880236
* Drop duplicated python*-numpy in Build-Depends
* Standards-Version: 4.1.1
* Fix permission of dtd files
2017-07-31 - Steffen Moeller <moeller@debian.org>
python-biopython (1.70+dfsg-2) unstable; urgency=medium
* Team upload
* Fixed build dependencies (added python-setuptools) (Closes: #869597).
2017-07-23 - Steffen Moeller <moeller@debian.org>
python-biopython (1.70+dfsg-1) unstable; urgency=medium
* Team upload
* New upstream release.
* debian/upstream/metadata: Added references to
OMICtools, bio.tools, RRID
* debian/rules: Merged two redundant clean overrides
2017-01-20 - Andreas Tille <tille@debian.org>
python-biopython (1.68+dfsg-3) unstable; urgency=medium
* (Build-)Depend: phyml only on those architectures where it is available
* Relax test conditions in test_phenotype_fit to work around some rounding
differences on arm64
(see https://github.com/biopython/biopython/issues/1038 )

See Also

Package Description
python-biosig_1.9.3-2_amd64.deb Python bindings for BioSig library
python-biotools_1.2.12-3_all.deb Python bioinformatics utilities for high-throughput genomic sequencing
python-biplist_1.0.3-1_all.deb Python 2 library for reading/writing Mac OS X binary plists
python-bitarray_0.8.1-1build6_amd64.deb Python module for efficient boolean array handling
python-bitbucket_0.1-1_all.deb Python bindings for the bitbucket.org REST API
python-bitcoin_1.1.42-1_all.deb library for cryptocurrency transactions — Python 2
python-bitstring-doc_3.1.5-1_all.deb Python module for manipulation of binary data (documentation)
python-bitstring_3.1.5-1_all.deb Python module for manipulation of binary data (Python 2)
python-bitstruct_3.7.0-1_all.deb Python bit pack/unpack package
python-bittorrent_3.4.2-12_all.deb Scatter-gather network file transfer
python-bjsonrpc_0.2.0-2_all.deb asynchronous bidirectional JSON-RPC protocol over TCP/IP
python-black-doc_18.9b0-1-6_all.deb uncompromising Python code formatter (common documentation)
python-blazarclient_2.1.0-0ubuntu1_all.deb OpenStack Reservation Service API client - Python 2
python-bleach-doc_3.1.0-1_all.deb whitelist-based HTML-sanitizing library (common documentation)
python-bleach_3.1.0-1_all.deb whitelist-based HTML-sanitizing library (Python 2)
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