{"push_id":1510652373,"size":3,"distinct_size":3,"ref":"refs/heads/compartment-spec","head":"33e02fb522937c7fc3be9b0c296376fa65d30f9c","before":"008bb2a3394f18fb50e9a2d08ed2c2ea47f45bfe","commits":[{"sha":"72228f4f9d1eeb53a629a57111875612ea7da2b5","author":{"name":"Jon Lund Steffensen","email":"224ca3ea2b067a4b6cc6502f01b05773938aa83b@gmail.com"},"message":"metabolicmodel: Fix adding exchange reactions\n\nA bug in the add_all_exchange_reactions() would cause the method\nto add additional exchange reactions for models with multiple\ncompartments. This was fixed to only add one exchange reaction\nfor each compound in the model.","distinct":true,"url":"https://api.github.com/repos/jonls/psamm/commits/72228f4f9d1eeb53a629a57111875612ea7da2b5"},{"sha":"c5004642e433c573334f2fae0aa8aff6bf6084ed","author":{"name":"Jon Lund Steffensen","email":"224ca3ea2b067a4b6cc6502f01b05773938aa83b@gmail.com"},"message":"metabolicmodel: Add additional artificial transport reactions\n\nChange the method all_all_transport_reactions() to take a\nparameter specifying the compartment boundaries to use for\nadded artificial transport reactions. Transport reactions will\nbe added only across those boundaries.","distinct":true,"url":"https://api.github.com/repos/jonls/psamm/commits/c5004642e433c573334f2fae0aa8aff6bf6084ed"},{"sha":"33e02fb522937c7fc3be9b0c296376fa65d30f9c","author":{"name":"Jon Lund Steffensen","email":"224ca3ea2b067a4b6cc6502f01b05773938aa83b@gmail.com"},"message":"fastgapfill: Use compartment spec for extended model\n\nWhen creating the extended model, use the compartment boundaries\nspecified in the model to generate transport reactions. For\nconsistency, this also changes the inclusion of database reactions\nto only include reactions in the compartments that are specified\nin the model. New warnings are output if no compartments are\nspecified in the model.","distinct":true,"url":"https://api.github.com/repos/jonls/psamm/commits/33e02fb522937c7fc3be9b0c296376fa65d30f9c"}]}
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