biosustain/cameo issues and pull requests

#100 - Minor bugfix: display objective functions

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 1 comment

#100 - Minor bugfix: display objective functions

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 1 comment

#99 - As a user I want to compute heterologous pathways with optimal stoichiometric conversion

Issue - State: open - Opened by hredestig about 8 years ago
Labels: enhancement

#99 - As a user I want to compute heterologous pathways with optimal stoichiometric conversion

Issue - State: open - Opened by hredestig about 8 years ago
Labels: enhancement

#98 - As a cameo user I want to compute growth coupled designs using minimal cut sets

Issue - State: open - Opened by hredestig about 8 years ago
Labels: enhancement

#98 - As a cameo user I want to compute growth coupled designs using minimal cut sets

Issue - State: open - Opened by hredestig about 8 years ago
Labels: enhancement

#97 - Stress test cameo.api.design

Issue - State: closed - Opened by phantomas1234 about 8 years ago - 1 comment

#97 - Stress test cameo.api.design

Issue - State: closed - Opened by phantomas1234 about 8 years ago - 1 comment

#96 - As a user of cameo (or maybe separate package) I want to be able to run dynamic FBA

Issue - State: closed - Opened by phantomas1234 about 8 years ago - 1 comment
Labels: enhancement

#96 - As a user of cameo (or maybe separate package) I want to be able to run dynamic FBA

Issue - State: closed - Opened by phantomas1234 about 8 years ago - 1 comment
Labels: enhancement

#95 - Fix plotting stuff

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 1 comment

#95 - Fix plotting stuff

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 1 comment

#94 - Add heatmap vis to production envelope visualizations in 3D

Issue - State: open - Opened by phantomas1234 about 8 years ago - 1 comment
Labels: enhancement

#94 - Add heatmap vis to production envelope visualizations in 3D

Issue - State: open - Opened by phantomas1234 about 8 years ago - 1 comment
Labels: enhancement

#93 - Feature: Implement multiobjective function

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 2 comments

#93 - Feature: Implement multiobjective function

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 2 comments

#92 - fix: use cameo.core.metabolite

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 1 comment

#92 - fix: use cameo.core.metabolite

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 1 comment

#91 - fix: remove non-existent libglp dependency

Pull Request - State: closed - Opened by phantomas1234 about 8 years ago - 2 comments

#91 - fix: remove non-existent libglp dependency

Pull Request - State: closed - Opened by phantomas1234 about 8 years ago - 2 comments

#90 - cobrapy versus cameo (Ice Cream)

Issue - State: closed - Opened by aabversteeg about 8 years ago - 2 comments

#90 - cobrapy versus cameo (Ice Cream)

Issue - State: closed - Opened by aabversteeg about 8 years ago - 2 comments

#89 - fix: drop (most) cobrapy tests

Pull Request - State: closed - Opened by hredestig about 8 years ago - 1 comment

#89 - fix: drop (most) cobrapy tests

Pull Request - State: closed - Opened by hredestig about 8 years ago - 1 comment

#88 - OptKnock should warn the user if the target rxn cannot carry flux

Issue - State: open - Opened by phantomas1234 about 8 years ago
Labels: enhancement

#88 - OptKnock should warn the user if the target rxn cannot carry flux

Issue - State: open - Opened by phantomas1234 about 8 years ago
Labels: enhancement

#87 - Fix solution

Pull Request - State: closed - Opened by hredestig about 8 years ago - 1 comment

#87 - Fix solution

Pull Request - State: closed - Opened by hredestig about 8 years ago - 1 comment

#86 - Revert "Make use of batch retrieval inside Solution"

Pull Request - State: closed - Opened by hredestig about 8 years ago

#86 - Revert "Make use of batch retrieval inside Solution"

Pull Request - State: closed - Opened by hredestig about 8 years ago

#85 - High level api

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 5 comments

#85 - High level api

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 5 comments

#84 - Make use of batch retrieval inside Solution

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 4 comments

#84 - Make use of batch retrieval inside Solution

Pull Request - State: closed - Opened by the-code-magician about 8 years ago - 4 comments

#83 - chore: make travis report to slack less frequently

Pull Request - State: closed - Opened by phantomas1234 about 8 years ago - 3 comments
Labels: enhancement

#83 - chore: make travis report to slack less frequently

Pull Request - State: closed - Opened by phantomas1234 about 8 years ago - 3 comments
Labels: enhancement

#82 - Fix load model

Pull Request - State: closed - Opened by KristianJensen over 8 years ago - 1 comment

#82 - Fix load model

Pull Request - State: closed - Opened by KristianJensen over 8 years ago - 1 comment

#81 - Cameo crashes after COBRApy import on macOS

Issue - State: closed - Opened by zakandrewking over 8 years ago - 9 comments
Labels: bug

#81 - Cameo crashes after COBRApy import on macOS

Issue - State: closed - Opened by zakandrewking over 8 years ago - 9 comments
Labels: bug

#80 - New version of metabolite knock_out keeping the steady-state constraints.

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment
Labels: enhancement

#80 - New version of metabolite knock_out keeping the steady-state constraints.

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment
Labels: enhancement

#79 - OptGene should raise a warning if a model does not contain any genes

Issue - State: open - Opened by phantomas1234 over 8 years ago
Labels: enhancement

#79 - OptGene should raise a warning if a model does not contain any genes

Issue - State: open - Opened by phantomas1234 over 8 years ago
Labels: enhancement

#78 - fix: clean imports and use load_model to load all models

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment

#78 - fix: clean imports and use load_model to load all models

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment

#77 - Improve cached lmoma (and moma too btw)

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment
Labels: enhancement

#77 - Improve cached lmoma (and moma too btw)

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment
Labels: enhancement

#76 - Feature - improved ProblemCache

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 2 comments
Labels: enhancement

#76 - Feature - improved ProblemCache

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 2 comments
Labels: enhancement

#75 - Fix bugs when changing bounds

Pull Request - State: closed - Opened by KristianJensen over 8 years ago - 2 comments

#75 - Fix bugs when changing bounds

Pull Request - State: closed - Opened by KristianJensen over 8 years ago - 2 comments

#74 - Bugfix/test flux

Pull Request - State: closed - Opened by hredestig over 8 years ago - 3 comments

#74 - Bugfix/test flux

Pull Request - State: closed - Opened by hredestig over 8 years ago - 3 comments

#73 - fitness plot not showing with bokeh > 0.12.0

Issue - State: open - Opened by hredestig over 8 years ago
Labels: bug

#73 - fitness plot not showing with bokeh > 0.12.0

Issue - State: open - Opened by hredestig over 8 years ago
Labels: bug

#72 - Doc/contributing

Pull Request - State: closed - Opened by hredestig over 8 years ago - 1 comment

#72 - Doc/contributing

Pull Request - State: closed - Opened by hredestig over 8 years ago - 1 comment

#71 - Fix/missing dep safe tests

Pull Request - State: closed - Opened by hredestig over 8 years ago - 3 comments

#71 - Fix/missing dep safe tests

Pull Request - State: closed - Opened by hredestig over 8 years ago - 3 comments

#70 - feat: essential metabolites

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 2 comments
Labels: enhancement

#70 - feat: essential metabolites

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 2 comments
Labels: enhancement

#69 - Fix: gene.knock_out method

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 2 comments
Labels: bug

#69 - Fix: gene.knock_out method

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 2 comments
Labels: bug

#68 - travis build not working for pull requests

Issue - State: closed - Opened by hredestig over 8 years ago - 1 comment

#68 - travis build not working for pull requests

Issue - State: closed - Opened by hredestig over 8 years ago - 1 comment

#67 - Feature/optswap

Pull Request - State: closed - Opened by hredestig over 8 years ago - 1 comment

#67 - Feature/optswap

Pull Request - State: closed - Opened by hredestig over 8 years ago - 1 comment

#66 - RuntimeError removing metabolites with destructive method

Issue - State: closed - Opened by bruno2git over 8 years ago - 1 comment
Labels: bug

#66 - RuntimeError removing metabolites with destructive method

Issue - State: closed - Opened by bruno2git over 8 years ago - 1 comment
Labels: bug

#65 - implement optswap

Issue - State: closed - Opened by hredestig over 8 years ago
Labels: enhancement

#65 - implement optswap

Issue - State: closed - Opened by hredestig over 8 years ago
Labels: enhancement

#64 - feat: adapt model to real experiments, helper class

Pull Request - State: closed - Opened by sgalkina over 8 years ago - 5 comments

#64 - feat: adapt model to real experiments, helper class

Pull Request - State: closed - Opened by sgalkina over 8 years ago - 5 comments

#63 - Feature/phenopp yield

Pull Request - State: closed - Opened by hredestig over 8 years ago - 3 comments
Labels: enhancement

#63 - Feature/phenopp yield

Pull Request - State: closed - Opened by hredestig over 8 years ago - 3 comments
Labels: enhancement

#62 - plot flux scanning based on enforced objective flux results

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment

#62 - plot flux scanning based on enforced objective flux results

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment

#61 - Seed OptGene run method

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment

#61 - Seed OptGene run method

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 1 comment

#60 - Metabolite Turnover as variables

Issue - State: open - Opened by the-code-magician over 8 years ago
Labels: enhancement

#60 - Metabolite Turnover as variables

Issue - State: open - Opened by the-code-magician over 8 years ago
Labels: enhancement

#59 - Support multiple reactions in ratio constraints…

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 5 comments

#59 - Support multiple reactions in ratio constraints…

Pull Request - State: closed - Opened by the-code-magician over 8 years ago - 5 comments

#58 - Optmize the speed of adding single reactions

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#58 - Optmize the speed of adding single reactions

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#57 - Metanetx dictionaries update

Pull Request - State: closed - Opened by sgalkina over 8 years ago - 1 comment

#57 - Metanetx dictionaries update

Pull Request - State: closed - Opened by sgalkina over 8 years ago - 1 comment

#56 - Add a Gitter chat badge to README.md

Pull Request - State: closed - Opened by gitter-badger over 8 years ago - 2 comments

#56 - Add a Gitter chat badge to README.md

Pull Request - State: closed - Opened by gitter-badger over 8 years ago - 2 comments

#55 - fix: molecular formula distance

Pull Request - State: closed - Opened by sgalkina over 8 years ago - 1 comment

#55 - fix: molecular formula distance

Pull Request - State: closed - Opened by sgalkina over 8 years ago - 1 comment

#54 - Cache reaction variables

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#54 - Cache reaction variables

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#53 - fix: clone genes and metabolites (in addition to reaction)

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#53 - fix: clone genes and metabolites (in addition to reaction)

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#52 - Preparing v0.6.0 release

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#52 - Preparing v0.6.0 release

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#51 - Use transactions in optlang

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

#51 - Use transactions in optlang

Pull Request - State: closed - Opened by phantomas1234 over 8 years ago

GitHub / biosustain/cameo issues and pull requests