python-cobra_0.4.0b6-1build1_amd64.deb


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Description

python-cobra - constraint-based modeling of biological networks (Python 2)

Distribution: Ubuntu 16.04 LTS (Xenial Xerus)
Repository: Ubuntu Universe amd64
Package name: python-cobra
Package version: 0.4.0b6
Package release: 1build1
Package architecture: amd64
Package type: deb
Installed size: 694 B
Download size: 140.74 KB
Official Mirror: archive.ubuntu.com
COnstraint-Based Reconstruction and Analysis (COBRA) methods are widely used for genome-scale modeling of metabolic networks in both prokaryotes and eukaryotes. COBRApy is a constraint-based modeling package that is designed to accommodate the biological complexity of the next generation of COBRA models and provides access to commonly used COBRA methods, such as flux balance analysis, flux variability analysis, and gene deletion analyses. This package provides the Python 2 module.

Alternatives

    Download

    Source package: python-cobra

    Install Howto

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

    Files

    • /usr/lib/python2.7/dist-packages/cobra/VERSION
    • /usr/lib/python2.7/dist-packages/cobra/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/version.py
    • /usr/lib/python2.7/dist-packages/cobra-0.4.0b6.egg-info/PKG-INFO
    • /usr/lib/python2.7/dist-packages/cobra-0.4.0b6.egg-info/dependency_links.txt
    • /usr/lib/python2.7/dist-packages/cobra-0.4.0b6.egg-info/requires.txt
    • /usr/lib/python2.7/dist-packages/cobra-0.4.0b6.egg-info/top_level.txt
    • /usr/lib/python2.7/dist-packages/cobra/core/ArrayBasedModel.py
    • /usr/lib/python2.7/dist-packages/cobra/core/DictList.py
    • /usr/lib/python2.7/dist-packages/cobra/core/Formula.py
    • /usr/lib/python2.7/dist-packages/cobra/core/Gene.py
    • /usr/lib/python2.7/dist-packages/cobra/core/Metabolite.py
    • /usr/lib/python2.7/dist-packages/cobra/core/Model.py
    • /usr/lib/python2.7/dist-packages/cobra/core/Object.py
    • /usr/lib/python2.7/dist-packages/cobra/core/Reaction.py
    • /usr/lib/python2.7/dist-packages/cobra/core/Solution.py
    • /usr/lib/python2.7/dist-packages/cobra/core/Species.py
    • /usr/lib/python2.7/dist-packages/cobra/core/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/design/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/design/design_algorithms.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/deletion_worker.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/double_deletion.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/essentiality.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/gapfilling.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/loopless.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/moma.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/parsimonious.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/phenotype_phase_plane.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/reaction.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/single_deletion.py
    • /usr/lib/python2.7/dist-packages/cobra/flux_analysis/variability.py
    • /usr/lib/python2.7/dist-packages/cobra/io/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/io/json.py
    • /usr/lib/python2.7/dist-packages/cobra/io/mat.py
    • /usr/lib/python2.7/dist-packages/cobra/io/sbml.py
    • /usr/lib/python2.7/dist-packages/cobra/io/sbml3.py
    • /usr/lib/python2.7/dist-packages/cobra/manipulation/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/manipulation/annotate.py
    • /usr/lib/python2.7/dist-packages/cobra/manipulation/delete.py
    • /usr/lib/python2.7/dist-packages/cobra/manipulation/modify.py
    • /usr/lib/python2.7/dist-packages/cobra/manipulation/validate.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/cglpk.x86_64-linux-gnu.so
    • /usr/lib/python2.7/dist-packages/cobra/solvers/coin.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/cplex_solver.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/cplex_solver_java.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/esolver.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/glpk_solver.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/glpk_solver_java.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/gurobi_solver.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/gurobi_solver_java.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/mosek.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/parameters.py
    • /usr/lib/python2.7/dist-packages/cobra/solvers/wrappers.py
    • /usr/lib/python2.7/dist-packages/cobra/test/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/test/data
    • /usr/lib/python2.7/dist-packages/cobra/test/design.py
    • /usr/lib/python2.7/dist-packages/cobra/test/flux_analysis.py
    • /usr/lib/python2.7/dist-packages/cobra/test/io_tests.py
    • /usr/lib/python2.7/dist-packages/cobra/test/manipulation.py
    • /usr/lib/python2.7/dist-packages/cobra/test/solvers.py
    • /usr/lib/python2.7/dist-packages/cobra/test/unit_tests.py
    • /usr/lib/python2.7/dist-packages/cobra/topology/__init__.py
    • /usr/lib/python2.7/dist-packages/cobra/topology/reporter_metabolites.py
    • /usr/share/doc/python-cobra/README.md
    • /usr/share/doc/python-cobra/changelog.Debian.gz
    • /usr/share/doc/python-cobra/copyright

    Changelog

    2016-01-19 - Matthias Klose <doko@ubuntu.com> python-cobra (0.4.0b6-1build1) xenial; urgency=medium * No-change rebuild to drop python3.4 support.

    2015-12-21 - Afif Elghraoui <afif@ghraoui.name> python-cobra (0.4.0b6-1) unstable; urgency=medium * Run autopkgtests from outside the source tree * Imported Upstream version 0.4.0b6

    2015-09-13 - Afif Elghraoui <afif@ghraoui.name> python-cobra (0.4.0b4-1) unstable; urgency=medium * Imported Upstream version 0.4.0b4

    2015-08-28 - Afif Elghraoui <afif@ghraoui.name> python-cobra (0.4.0b3-1) unstable; urgency=medium * Imported Upstream version 0.4.0b3 * Removed patch that was applied upstream * Adjusted autopkgtest commands * Refreshed quilt patch

    2015-08-04 - Afif Elghraoui <afif@ghraoui.name> python-cobra (0.4.0b2-1) unstable; urgency=medium * Adjust package relationships as requested by upstream * Imported Upstream version 0.4.0b2 (Closes: 794978) * Require matching version of the data package * Configured autopkgtests * Allowed tests to run without python-jsonschema * Added lintian overrides for python-cobra-data

    2015-07-10 - Afif Elghraoui <afif@ghraoui.name> python-cobra (0.4.0b1-2) unstable; urgency=medium * Add more recommended packages in d/control * Add suggestion of jython for python-cobra * Really remove jython files from python3-package. Thanks to Aaron Ucko for the bug report (Closes: 792058)

    2015-06-09 - Afif Elghraoui <afif@ghraoui.name> python-cobra (0.3.2-1) unstable; urgency=medium * Initial release (Closes: #788224) * Add patches to improve Python3 compatibility * Specify copyright for the externally-contributed modules * Exclude cobra/test/data/update_pickles.py * Create package for data and documentation * Use packaged versions of javascript libraries where available

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