This is an automated email from the git hooks/post-receive script. afif-guest pushed a commit to branch debian/jessie-backports in repository python-cobra.
commit 42fc5676fb7478c2116c997996cae6b223a92407 Merge: 4d742e2 9768b71 Author: Afif Elghraoui <[email protected]> Date: Sat Dec 26 22:20:32 2015 -0800 Merge branch 'master' into debian/jessie-backports .gitignore | 1 + .travis.yml | 16 +- CONTRIBUTING.md | 25 ++ INSTALL.md | 3 +- README.md | 2 +- appveyor.yml | 23 +- appveyor/run_with_compiler.cmd | 47 --- appveyor/run_with_env.cmd | 88 +++++ cobra/VERSION | 2 +- cobra/__init__.py | 2 +- cobra/core/DictList.py | 7 +- cobra/core/Gene.py | 2 +- cobra/core/Metabolite.py | 2 +- cobra/core/Model.py | 1 + cobra/core/Object.py | 2 +- cobra/core/Reaction.py | 13 +- cobra/design/__init__.py | 1 + cobra/design/design_algorithms.py | 400 +++++++++++++++++++++ cobra/flux_analysis/phenotype_phase_plane.py | 15 +- cobra/flux_analysis/reaction.py | 5 +- cobra/io/json.py | 4 +- cobra/io/mat.py | 14 +- cobra/io/sbml.py | 68 +++- cobra/io/sbml3.py | 110 +++--- cobra/manipulation/__init__.py | 9 +- cobra/manipulation/annotate.py | 24 ++ cobra/manipulation/modify.py | 110 +++++- cobra/manipulation/validate.py | 54 +++ cobra/solvers/__init__.py | 6 +- cobra/solvers/cglpk.pyx | 11 +- cobra/solvers/cplex_solver.py | 3 +- cobra/solvers/cplex_solver_java.py | 16 +- cobra/solvers/glpk_solver.py | 13 +- cobra/solvers/glpk_solver_java.py | 30 +- cobra/solvers/gurobi_solver.py | 36 +- cobra/solvers/gurobi_solver_java.py | 14 +- cobra/solvers/mosek.py | 6 + cobra/test/__init__.py | 3 +- cobra/test/data/invalid0.xml | 47 +++ cobra/test/data/invalid1.xml | 45 +++ cobra/test/data/invalid2.xml | 68 ++++ cobra/test/data/mini.json | 24 +- cobra/test/data/mini.mat | Bin 14352 -> 14600 bytes cobra/test/data/mini.pickle | Bin 25348 -> 25060 bytes cobra/test/data/mini_cobra.xml | 212 ++++++----- cobra/test/data/mini_fbc1.xml | 218 +++++------ cobra/test/data/mini_fbc2.xml | 44 +-- cobra/test/data/mini_fbc2.xml.bz2 | Bin 4939 -> 4957 bytes cobra/test/data/mini_fbc2.xml.gz | Bin 5637 -> 5670 bytes cobra/test/data/textbook.xml.gz | Bin 16329 -> 16890 bytes cobra/test/design.py | 89 +++++ cobra/test/flux_analysis.py | 157 +------- cobra/test/io_tests.py | 37 +- cobra/test/manipulation.py | 250 +++++++++++++ cobra/test/unit_tests.py | 36 ++ cobra/test_all.py | 7 - cobra/topology/reporter_metabolites.py | 4 +- debian/changelog | 7 + debian/python-cobra-data.lintian-overrides | 3 + debian/tests/control | 4 +- documentation_builder/io.ipynb | 12 +- documentation_builder/io.rst | 41 +-- documentation_builder/loopless.ipynb | 4 +- documentation_builder/loopless.rst | 4 +- documentation_builder/phenotype_phase_plane.ipynb | 23 +- documentation_builder/phenotype_phase_plane.rst | 7 +- .../phenotype_phase_plane_3_0.png | Bin 94579 -> 89909 bytes .../phenotype_phase_plane_5_0.png | Bin 106030 -> 100924 bytes .../phenotype_phase_plane_5_1.png | Bin 97694 -> 92540 bytes .../phenotype_phase_plane_7_0.png | Bin 68889 -> 63193 bytes documentation_builder/simulating.ipynb | 80 ++++- documentation_builder/simulating.rst | 43 ++- documentation_builder/solvers.ipynb | 2 +- setup.py | 20 +- 74 files changed, 1998 insertions(+), 678 deletions(-) diff --cc debian/changelog index 5aaca13,2a02489..827ea8b --- a/debian/changelog +++ b/debian/changelog @@@ -1,15 -1,10 +1,22 @@@ + python-cobra (0.4.0b6-1) unstable; urgency=medium + + * Run autopkgtests from outside the source tree + * Imported Upstream version 0.4.0b6 + + -- Afif Elghraoui <[email protected]> Mon, 21 Dec 2015 21:29:51 -0800 + +python-cobra (0.4.0b4-1~bpo8+2) jessie-backports; urgency=medium + + * Fix Python3 package. + + -- Afif Elghraoui <[email protected]> Wed, 07 Oct 2015 20:59:22 -0700 + +python-cobra (0.4.0b4-1~bpo8+1) jessie-backports; urgency=medium + + * Rebuild for jessie-backports. + + -- Afif Elghraoui <[email protected]> Sat, 19 Sep 2015 12:45:29 -0700 + python-cobra (0.4.0b4-1) unstable; urgency=medium * Imported Upstream version 0.4.0b4 -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/python-cobra.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
