python-biom-format-doc_2.1.5+dfsg-7build2_all.deb


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Description

python-biom-format-doc - documentation for BIOM format

Property Value
Distribution Ubuntu 18.04 LTS (Bionic Beaver)
Repository Ubuntu Universe i386
Package filename python-biom-format-doc_2.1.5+dfsg-7build2_all.deb
Package name python-biom-format-doc
Package version 2.1.5+dfsg
Package release 7build2
Package architecture all
Package type deb
Category universe/doc
Homepage http://biom-format.org/
License -
Maintainer Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
Download size 60.78 KB
Installed size 489.00 KB
The BIOM file format (canonically pronounced biome) is designed to be a
general-use format for representing biological sample by observation
contingency tables. BIOM is a recognized standard for the Earth
Microbiome Project and is a Genomics Standards Consortium candidate
project.
The BIOM format is designed for general use in broad areas of
comparative -omics. For example, in marker-gene surveys, the primary use
of this format is to represent OTU tables: the observations in this case
are OTUs and the matrix contains counts corresponding to the number of
times each OTU is observed in each sample. With respect to metagenome
data, this format would be used to represent metagenome tables: the
observations in this case might correspond to SEED subsystems, and the
matrix would contain counts corresponding to the number of times each
subsystem is observed in each metagenome. Similarly, with respect to
genome data, this format may be used to represent a set of genomes: the
observations in this case again might correspond to SEED subsystems, and
the counts would correspond to the number of times each subsystem is
observed in each genome.
This package provides the documentation for the BIOM format Python package.

Alternatives

Package Version Architecture Repository
python-biom-format-doc_2.1.5+dfsg-7build2_all.deb 2.1.5+dfsg all Ubuntu Universe
python-biom-format-doc - - -

Requires

Name Value
libjs-sphinxdoc >= 1.0

Replaces

Name Value
python-biom-format <= 2.1+dfsg-1

Download

Type URL
Mirror archive.ubuntu.com
Binary Package python-biom-format-doc_2.1.5+dfsg-7build2_all.deb
Source Package python-biom-format

Install Howto

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

Files

Path
/usr/share/doc-base/python-biom-format
/usr/share/doc/python-biom-format-doc/changelog.Debian.gz
/usr/share/doc/python-biom-format-doc/copyright
/usr/share/doc/python-biom-format-doc/examples/min_sparse_otu_table.biom
/usr/share/doc/python-biom-format-doc/examples/min_sparse_otu_table_hdf5.biom.gz
/usr/share/doc/python-biom-format-doc/examples/obs_md.txt
/usr/share/doc/python-biom-format-doc/examples/rich_sparse_otu_table.biom
/usr/share/doc/python-biom-format-doc/examples/rich_sparse_otu_table_hdf5.biom.gz
/usr/share/doc/python-biom-format-doc/examples/sam_md.txt
/usr/share/doc/python-biom-format-doc/html/BIOM_LICENSE.html
/usr/share/doc/python-biom-format-doc/html/index.html
/usr/share/doc/python-biom-format-doc/html/objects.inv
/usr/share/doc/python-biom-format-doc/html/search.html
/usr/share/doc/python-biom-format-doc/html/searchindex.js
/usr/share/doc/python-biom-format-doc/html/_images/biom-format.png
/usr/share/doc/python-biom-format-doc/html/_sources/BIOM_LICENSE.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/index.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/adding_metadata.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/biom_conversion.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/biom_format.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/index.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/quick_usage_examples.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/summarizing_biom_tables.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/table_objects.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/format_versions/biom-1.0.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/format_versions/biom-2.0.rst.txt
/usr/share/doc/python-biom-format-doc/html/_sources/documentation/format_versions/biom-2.1.rst.txt
/usr/share/doc/python-biom-format-doc/html/_static/ajax-loader.gif
/usr/share/doc/python-biom-format-doc/html/_static/alert_info_32.png
/usr/share/doc/python-biom-format-doc/html/_static/alert_warning_32.png
/usr/share/doc/python-biom-format-doc/html/_static/basic.css
/usr/share/doc/python-biom-format-doc/html/_static/bg-page.png
/usr/share/doc/python-biom-format-doc/html/_static/biom-format.png
/usr/share/doc/python-biom-format-doc/html/_static/bullet_orange.png
/usr/share/doc/python-biom-format-doc/html/_static/comment-bright.png
/usr/share/doc/python-biom-format-doc/html/_static/comment-close.png
/usr/share/doc/python-biom-format-doc/html/_static/comment.png
/usr/share/doc/python-biom-format-doc/html/_static/copybutton.js
/usr/share/doc/python-biom-format-doc/html/_static/doctools.js
/usr/share/doc/python-biom-format-doc/html/_static/down-pressed.png
/usr/share/doc/python-biom-format-doc/html/_static/down.png
/usr/share/doc/python-biom-format-doc/html/_static/file.png
/usr/share/doc/python-biom-format-doc/html/_static/haiku.css
/usr/share/doc/python-biom-format-doc/html/_static/jquery.js
/usr/share/doc/python-biom-format-doc/html/_static/minus.png
/usr/share/doc/python-biom-format-doc/html/_static/plus.png
/usr/share/doc/python-biom-format-doc/html/_static/pygments.css
/usr/share/doc/python-biom-format-doc/html/_static/searchtools.js
/usr/share/doc/python-biom-format-doc/html/_static/underscore.js
/usr/share/doc/python-biom-format-doc/html/_static/up-pressed.png
/usr/share/doc/python-biom-format-doc/html/_static/up.png
/usr/share/doc/python-biom-format-doc/html/documentation/adding_metadata.html
/usr/share/doc/python-biom-format-doc/html/documentation/biom_conversion.html
/usr/share/doc/python-biom-format-doc/html/documentation/biom_format.html
/usr/share/doc/python-biom-format-doc/html/documentation/index.html
/usr/share/doc/python-biom-format-doc/html/documentation/quick_usage_examples.html
/usr/share/doc/python-biom-format-doc/html/documentation/summarizing_biom_tables.html
/usr/share/doc/python-biom-format-doc/html/documentation/table_objects.html
/usr/share/doc/python-biom-format-doc/html/documentation/format_versions/biom-1.0.html
/usr/share/doc/python-biom-format-doc/html/documentation/format_versions/biom-2.0.html
/usr/share/doc/python-biom-format-doc/html/documentation/format_versions/biom-2.1.html

Changelog

2017-08-05 - Matthias Klose <doko@ubuntu.com>
python-biom-format (2.1.5+dfsg-7build2) artful; urgency=medium
* No-change rebuild to build to drop python3.5.
2017-06-07 - Michael Hudson-Doyle <michael.hudson@ubuntu.com>
python-biom-format (2.1.5+dfsg-7build1) artful; urgency=medium
* No change rebuild to add Python 3.6 support.
2017-01-12 - Andreas Tille <tille@debian.org>
python-biom-format (2.1.5+dfsg-7) unstable; urgency=medium
* d/copyright: Update Upstream-Contact
* Add another random seed to past tests relieably on all architectures
2016-12-19 - Andreas Tille <tille@debian.org>
python-biom-format (2.1.5+dfsg-6) unstable; urgency=medium
* Add random seed to test that fails under some circumstances
Closes: #848410
* debhelper 10
* d/watch: version=4
2016-10-12 - Andreas Tille <tille@debian.org>
python-biom-format (2.1.5+dfsg-5) unstable; urgency=medium
* Restrict set of architectures also for biom-format-tools to make sure
the package will not be built on architectures that are affected by
the h5py issue.
2016-09-12 - Andreas Tille <tille@debian.org>
python-biom-format (2.1.5+dfsg-4) unstable; urgency=medium
* Restrict build to those architectures not affected by h5py issue
https://github.com/h5py/h5py/issues/428
This does not really close bug #820060 but we can lower its severity
at least to important.
2016-07-14 - Andreas Tille <tille@debian.org>
python-biom-format (2.1.5+dfsg-3) unstable; urgency=medium
* Use sphinxdoc
Closes: #831239
* Use python-shinx in Build-Depends (instead only Build-Depends-Indep)
* cme fix dpkg-control
* hardening+=bindnow
2016-04-10 - Andreas Tille <tille@debian.org>
python-biom-format (2.1.5+dfsg-2) unstable; urgency=medium
* Breaks+Replaces: python-biom-format (<= 2.1+dfsg-1)
Closes: #820028
* Enable building arch all packages separately
Closes: #820621
2016-03-08 - Andreas Tille <tille@debian.org>
python-biom-format (2.1.5+dfsg-1) unstable; urgency=medium
[ Andreas Tille ]
* Removed pyqi as well as generation of bash_completion
* Build-Depends: python-click
[ Ghislain Antony Vaillant ]
* Properly run the upstream testsuite during the package build process
* Add packaging testsuite
* Provide documentation in separate arch-independent package
* d/rules: add call to dh_numpy
* let dh_python fill the binary package dependencies
* Provide command-line tools in separate package
* Provide the Python 3 package
2015-11-10 - Andreas Tille <tille@debian.org>
python-biom-format (2.1.4+dfsg-2) unstable; urgency=medium
* Fix test target
Closes: #804441
* Fix clean target enabling building twice in a row

See Also

Package Description
python-biom-format_2.1.5+dfsg-7build2_i386.deb Biological Observation Matrix (BIOM) format (Python 2)
python-biopython-doc_1.70+dfsg-4_all.deb Documentation for the Biopython library
python-biopython-sql_1.70+dfsg-4_all.deb Biopython support for the BioSQL database schema (Python 2)
python-biopython_1.70+dfsg-4_i386.deb Python library for bioinformatics (implemented in Python 2)
python-biosig_1.3.0-2.2build1_i386.deb Python bindings for BioSig library
python-biotools_1.2.12-2_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_0.8.1-1build4_i386.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_3.4.0-1_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
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