biosustain/cameo issues and pull requests

#50 - replace add_demand with add_exchange

Pull Request - State: closed - Opened by meono almost 9 years ago

#50 - replace add_demand with add_exchange

Pull Request - State: closed - Opened by meono almost 9 years ago

#49 - Major spring cleanup + Flake8

Pull Request - State: closed - Opened by phantomas1234 almost 9 years ago - 3 comments

#49 - Major spring cleanup + Flake8

Pull Request - State: closed - Opened by phantomas1234 almost 9 years ago - 3 comments

#48 - Add support for wercker CI

Pull Request - State: closed - Opened by phantomas1234 almost 9 years ago - 3 comments

#48 - Add support for wercker CI

Pull Request - State: closed - Opened by phantomas1234 almost 9 years ago - 3 comments

#47 - Refactor plotting

Pull Request - State: closed - Opened by the-code-magician almost 9 years ago - 3 comments

#47 - Refactor plotting

Pull Request - State: closed - Opened by the-code-magician almost 9 years ago - 3 comments

#46 - Issue with GLPK loading in Cameo

Issue - State: closed - Opened by ThierryMondeel almost 9 years ago - 7 comments
Labels: bug

#46 - Issue with GLPK loading in Cameo

Issue - State: closed - Opened by ThierryMondeel almost 9 years ago - 7 comments
Labels: bug

#45 - Polish cameo for publication

Pull Request - State: closed - Opened by phantomas1234 almost 9 years ago - 1 comment

#45 - Polish cameo for publication

Pull Request - State: closed - Opened by phantomas1234 almost 9 years ago - 1 comment

#44 - OptGene as a method

Pull Request - State: closed - Opened by the-code-magician about 9 years ago

#44 - OptGene as a method

Pull Request - State: closed - Opened by the-code-magician about 9 years ago

#43 - Constrained inner objective

Pull Request - State: closed - Opened by KristianJensen about 9 years ago - 2 comments
Labels: wontfix

#43 - Constrained inner objective

Pull Request - State: closed - Opened by KristianJensen about 9 years ago - 2 comments
Labels: wontfix

#42 - Optknock

Pull Request - State: closed - Opened by KristianJensen over 9 years ago

#42 - Optknock

Pull Request - State: closed - Opened by KristianJensen over 9 years ago

#41 - Second try on implementing the enumeration of shortest elementary flux modes and MCS

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#41 - Second try on implementing the enumeration of shortest elementary flux modes and MCS

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#40 - Deal with non-reaction constraints

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#40 - Deal with non-reaction constraints

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#39 - Fseof

Pull Request - State: closed - Opened by KristianJensen over 9 years ago

#39 - Fseof

Pull Request - State: closed - Opened by KristianJensen over 9 years ago

#38 - FSEOF improvements

Pull Request - State: closed - Opened by KristianJensen over 9 years ago

#38 - FSEOF improvements

Pull Request - State: closed - Opened by KristianJensen over 9 years ago

#37 - Get cplex installed on travis-ci

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#37 - Get cplex installed on travis-ci

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#36 - Replace ModelFacade with lazy-object-proxy

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#36 - Replace ModelFacade with lazy-object-proxy

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#35 - Provide support for models hosted on http://bigg.ucsd.edu

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#35 - Provide support for models hosted on http://bigg.ucsd.edu

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#34 - Use appveyor to build windows wheels for cameo

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago - 1 comment

#34 - Use appveyor to build windows wheels for cameo

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago - 1 comment

#33 - Fixed bugs where changing bounds could give a value error

Pull Request - State: closed - Opened by KristianJensen over 9 years ago - 1 comment

#33 - Fixed bugs where changing bounds could give a value error

Pull Request - State: closed - Opened by KristianJensen over 9 years ago - 1 comment

#32 - Improve pathway prediction results

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#32 - Improve pathway prediction results

Pull Request - State: closed - Opened by phantomas1234 over 9 years ago

#31 - Redundant solutions

Pull Request - State: closed - Opened by the-code-magician over 9 years ago

#31 - Redundant solutions

Pull Request - State: closed - Opened by the-code-magician over 9 years ago

#30 - Better FSEOF output and more tests

Pull Request - State: closed - Opened by KristianJensen almost 10 years ago - 1 comment

#30 - Better FSEOF output and more tests

Pull Request - State: closed - Opened by KristianJensen almost 10 years ago - 1 comment

#29 - Simulation methods

Pull Request - State: closed - Opened by the-code-magician almost 10 years ago

#29 - Simulation methods

Pull Request - State: closed - Opened by the-code-magician almost 10 years ago

#28 - FSEOF and partition

Pull Request - State: closed - Opened by KristianJensen almost 10 years ago - 1 comment

#28 - FSEOF and partition

Pull Request - State: closed - Opened by KristianJensen almost 10 years ago - 1 comment

#27 - All reactions (not just reversible ones) have now forward_variable and r...

Pull Request - State: closed - Opened by phantomas1234 almost 10 years ago

#27 - All reactions (not just reversible ones) have now forward_variable and r...

Pull Request - State: closed - Opened by phantomas1234 almost 10 years ago

#26 - Python 3 compatibility (using python-modernize.py to get started)

Pull Request - State: closed - Opened by phantomas1234 almost 10 years ago - 17 comments

#26 - Python 3 compatibility (using python-modernize.py to get started)

Pull Request - State: closed - Opened by phantomas1234 almost 10 years ago - 17 comments

#25 - Dynamic fba

Pull Request - State: closed - Opened by the-code-magician almost 10 years ago - 3 comments

#25 - Dynamic fba

Pull Request - State: closed - Opened by the-code-magician almost 10 years ago - 3 comments

#24 - Make cameo python 3.4 compatible

Pull Request - State: closed - Opened by phantomas1234 almost 10 years ago - 2 comments

#24 - Make cameo python 3.4 compatible

Pull Request - State: closed - Opened by phantomas1234 almost 10 years ago - 2 comments

#23 - Adapt PathwayPredictor to also find shorter heterologous alternatives to a native pathway

Pull Request - State: closed - Opened by phantomas1234 almost 10 years ago

#23 - Adapt PathwayPredictor to also find shorter heterologous alternatives to a native pathway

Pull Request - State: closed - Opened by phantomas1234 almost 10 years ago

#22 - Changing the solver interface currently ignores non-reaction variables and constraints

Issue - State: closed - Opened by phantomas1234 almost 10 years ago
Labels: bug

#22 - Changing the solver interface currently ignores non-reaction variables and constraints

Issue - State: closed - Opened by phantomas1234 almost 10 years ago
Labels: bug

#21 - Run tests with cplex too ...

Pull Request - State: closed - Opened by phantomas1234 about 10 years ago

#21 - Run tests with cplex too ...

Pull Request - State: closed - Opened by phantomas1234 about 10 years ago

#20 - Adding a reaction from one model to another model should probably raise an exception

Issue - State: open - Opened by phantomas1234 about 10 years ago
Labels: enhancement

#20 - Adding a reaction from one model to another model should probably raise an exception

Issue - State: open - Opened by phantomas1234 about 10 years ago
Labels: enhancement

#19 - Maintenance ATP should not be knocked out (and other hard fixed constraints)

Issue - State: open - Opened by the-code-magician about 10 years ago
Labels: bug

#18 - Cleanup

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago - 2 comments

#17 - nicer results

Pull Request - State: closed - Opened by the-code-magician over 10 years ago

#16 - Shortest elementary flux modes

Pull Request - State: closed - Opened by the-code-magician over 10 years ago - 1 comment

#15 - Make cameo 100% compatible with cobrapy

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago - 4 comments

#14 - Fva infeasibility

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago - 7 comments

#13 - Extract stoichiometric matrix

Pull Request - State: closed - Opened by the-code-magician over 10 years ago - 5 comments

#12 - Sanitize crippled simpheny IDs

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago - 1 comment

#11 - use python-versioneer for awesome version management

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago - 2 comments

#10 - Fix add reactions

Pull Request - State: closed - Opened by the-code-magician over 10 years ago - 5 comments

#9 - Results features - pathway visualization using escher

Pull Request - State: closed - Opened by the-code-magician over 10 years ago - 3 comments

#8 - Fix efficiency problems with auxiliary variables

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago

#7 - Fixing adding reactions

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago - 1 comment

#6 - Add reactions fix

Pull Request - State: closed - Opened by the-code-magician over 10 years ago - 1 comment

#5 - Retrieve reverse_variable after one has been potentially added

Pull Request - State: closed - Opened by meono over 10 years ago

#4 - Multiprocess in notebook

Pull Request - State: closed - Opened by the-code-magician over 10 years ago

#3 - Heuristic methods use seed instead of pre-given random.

Pull Request - State: closed - Opened by the-code-magician over 10 years ago - 1 comment

#2 - Set up development & course environment with Vagrant

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago - 5 comments

#1 - Switch back and forth between reversible and irreversible models using as set of fixed auxiliary variables

Pull Request - State: closed - Opened by phantomas1234 over 10 years ago - 1 comment

GitHub / biosustain/cameo issues and pull requests