Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / micom-dev/micom issues and pull requests
#190 - Bump actions/setup-python from 5.1.1 to 5.2.0
Pull Request -
State: closed - Opened by dependabot[bot] 28 days ago
Labels: dependencies
#188 - Updates to minimal_media and GrowthResults
Pull Request -
State: closed - Opened by cdiener 2 months ago
- 1 comment
#187 - Hybrid solver broken for numpy 2.0+
Issue -
State: closed - Opened by shalabs 2 months ago
- 2 comments
#186 - Bump actions/setup-python from 5.1.0 to 5.1.1
Pull Request -
State: closed - Opened by dependabot[bot] 3 months ago
Labels: dependencies
#183 - Bump codecov/codecov-action from 4.4.1 to 4.5.0
Pull Request -
State: closed - Opened by dependabot[bot] 3 months ago
Labels: dependencies
#182 - Issue: No Rendered Output When Following MICOM Documentation for Constraint-Based Modeling
Issue -
State: closed - Opened by wtscott31 4 months ago
- 5 comments
#181 - saving intermediate output from "grow"
Issue -
State: open - Opened by zoey-rw 4 months ago
- 1 comment
#180 - Bump codecov/codecov-action from 4.4.0 to 4.4.1
Pull Request -
State: closed - Opened by dependabot[bot] 4 months ago
Labels: dependencies
#179 - Some small fixes
Pull Request -
State: closed - Opened by cdiener 5 months ago
- 1 comment
#178 - UnboundLocalError when running minimal_media with `summarize=False`
Issue -
State: closed - Opened by zoey-rw 5 months ago
- 1 comment
#176 - Bump codecov/codecov-action from 4.3.0 to 4.3.1
Pull Request -
State: closed - Opened by dependabot[bot] 5 months ago
- 1 comment
Labels: dependencies
#174 - Bump peaceiris/actions-gh-pages from 3 to 4
Pull Request -
State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies
#173 - Bump codecov/codecov-action from 4.2.0 to 4.3.0
Pull Request -
State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies
#172 - Possible Bug in `com.knockout_taxa()`
Issue -
State: open - Opened by alejandrocs98 6 months ago
- 4 comments
#171 - [feature] Transition the phenotype associations to non-parametric tests
Pull Request -
State: closed - Opened by cdiener 6 months ago
#170 - [feature] Add new interaction analysis API
Pull Request -
State: closed - Opened by cdiener 6 months ago
- 5 comments
#169 - Bump codecov/codecov-action from 4.1.1 to 4.2.0
Pull Request -
State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies
#168 - Bump actions/setup-python from 5.0.0 to 5.1.0
Pull Request -
State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies
#167 - Bump codecov/codecov-action from 4.1.0 to 4.1.1
Pull Request -
State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies
#166 - Switch the multiprocessing default method to spawn
Issue -
State: closed - Opened by cdiener 6 months ago
#165 - "build" step stalling at 99% complete
Issue -
State: closed - Opened by zoey-rw 7 months ago
- 4 comments
#164 - Analyse sample growth on multiple media (multi threading)
Issue -
State: open - Opened by PathogeNish 7 months ago
- 3 comments
#163 - Bump codecov/codecov-action from 4.0.2 to 4.1.0
Pull Request -
State: closed - Opened by dependabot[bot] 7 months ago
Labels: dependencies
#162 - Bump codecov/codecov-action from 4.0.1 to 4.0.2
Pull Request -
State: closed - Opened by dependabot[bot] 7 months ago
Labels: dependencies
#161 - Increase the number of threads for grow for a single model
Issue -
State: closed - Opened by PathogeNish 8 months ago
- 2 comments
#157 - Bump codecov/codecov-action from 3.1.4 to 3.1.5
Pull Request -
State: closed - Opened by dependabot[bot] 8 months ago
Labels: dependencies
#153 - Hotfix to prefix trimming code
Pull Request -
State: closed - Opened by cdiener 9 months ago
#152 - Bump actions/upload-artifact from 3 to 4
Pull Request -
State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies
#149 - Bump actions/setup-python from 4.7.1 to 5.0.0
Pull Request -
State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies
#146 - Make highs work in the CI
Pull Request -
State: closed - Opened by cdiener 11 months ago
#145 - allow unifying ranks
Pull Request -
State: closed - Opened by cdiener 11 months ago
- 1 comment
#144 - Enable the hybrid solver as the new default
Pull Request -
State: closed - Opened by cdiener 11 months ago
- 1 comment
#143 - Be less strict about medium setting
Pull Request -
State: closed - Opened by cdiener 11 months ago
- 1 comment
Labels: hacktoberfest-accepted
#142 - Fix the `grow` docstring to mention the correct default strategy.
Pull Request -
State: closed - Opened by cdiener 11 months ago
- 1 comment
Labels: hacktoberfest-accepted
#139 - Bump actions/setup-python from 4.7.0 to 4.7.1
Pull Request -
State: closed - Opened by dependabot[bot] 12 months ago
- 1 comment
Labels: dependencies
#137 - Indicate tested comparison or covariate in test output
Pull Request -
State: closed - Opened by cdiener about 1 year ago
- 1 comment
#136 - Update README.rst
Pull Request -
State: closed - Opened by cdiener about 1 year ago
#134 - Bump actions/checkout from 3 to 4
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
- 1 comment
Labels: dependencies
#131 - Support the `.sbml` extensions for SBML files
Issue -
State: open - Opened by cdiener about 1 year ago
#127 - Bump actions/setup-python from 4.6.1 to 4.7.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
- 1 comment
Labels: dependencies
#124 - Bump actions/setup-python from 4.6.0 to 4.6.1
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
- 1 comment
Labels: dependencies
#123 - Bump codecov/codecov-action from 3.1.3 to 3.1.4
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
- 1 comment
Labels: dependencies
#121 - keyerror: '_gpr' when using 'load_pickle'
Issue -
State: closed - Opened by Rotembartuv over 1 year ago
- 2 comments
#120 - Documentation and default parameters do not match for micom.workflows.grow.grow
Issue -
State: closed - Opened by cdiener over 1 year ago
- 1 comment
#118 - Bump codecov/codecov-action from 3.1.2 to 3.1.3
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
- 2 comments
Labels: dependencies
#117 - Bump actions/setup-python from 4.5.0 to 4.6.0
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
- 2 comments
Labels: dependencies
#116 - Bump codecov/codecov-action from 3.1.1 to 3.1.2
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
- 1 comment
Labels: dependencies
#111 - Bump actions/setup-python from 4.4.0 to 4.5.0
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
- 1 comment
Labels: dependencies
#109 - Bump actions/setup-python from 4.3.1 to 4.4.0
Pull Request -
State: closed - Opened by dependabot[bot] almost 2 years ago
- 2 comments
Labels: dependencies
#108 - Bump actions/setup-python from 4.3.0 to 4.3.1
Pull Request -
State: closed - Opened by dependabot[bot] almost 2 years ago
- 1 comment
Labels: dependencies
#103 - Bump actions/setup-python from 4.2.0 to 4.3.0
Pull Request -
State: closed - Opened by dependabot[bot] almost 2 years ago
- 1 comment
Labels: dependencies
#102 - Bump codecov/codecov-action from 3.1.0 to 3.1.1
Pull Request -
State: closed - Opened by dependabot[bot] about 2 years ago
- 1 comment
Labels: dependencies
#101 - Add a more permissible media completion
Pull Request -
State: closed - Opened by cdiener about 2 years ago
- 1 comment
#95 - Bump actions/setup-python from 4.1.0 to 4.2.0
Pull Request -
State: closed - Opened by dependabot[bot] about 2 years ago
- 2 comments
Labels: dependencies
#91 - Adding coupling constraint to a coupling model
Issue -
State: closed - Opened by Ilhem36 about 2 years ago
#89 - Bump actions/setup-python from 4.0.0 to 4.1.0
Pull Request -
State: closed - Opened by dependabot[bot] about 2 years ago
- 1 comment
Labels: dependencies
#85 - Bump actions/setup-python from 3.1.2 to 4.0.0
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies
#84 - Bump codecov/codecov-action from 3.0.0 to 3.1.0
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies
#82 - Bump actions/setup-python from 3.1.1 to 3.1.2
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
- 1 comment
Labels: dependencies
#81 - Improve the Gurobi support in MICOM
Pull Request -
State: closed - Opened by cdiener over 2 years ago
- 2 comments
Labels: numeric
#79 - Bump actions/upload-artifact from 2 to 3
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies
#78 - Bump codecov/codecov-action from 2.1.0 to 3.0.0
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies
#77 - Bump actions/setup-python from 3.1.0 to 3.1.1
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies
#76 - Bump actions/setup-python from 2 to 3.1.0
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
Labels: dependencies
#72 - Error while copying model using model.copy()
Issue -
State: open - Opened by cdiener over 2 years ago
- 2 comments
#67 - Bump actions/checkout from 2 to 3
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
- 1 comment
Labels: dependencies
#66 - Bump actions/setup-python from 2 to 3
Pull Request -
State: closed - Opened by dependabot[bot] over 2 years ago
- 2 comments
Labels: dependencies
#64 - Improve the warning for media metabolites with a missing transport reaction
Issue -
State: closed - Opened by cdiener almost 3 years ago
- 1 comment
#59 - Bump codecov/codecov-action from 2.0.3 to 2.1.0
Pull Request -
State: closed - Opened by dependabot[bot] about 3 years ago
- 1 comment
Labels: dependencies
#56 - Adjust active demands when loading models
Issue -
State: closed - Opened by cdiener about 3 years ago
- 3 comments
#54 - Bump codecov/codecov-action from 2.0.2 to 2.0.3
Pull Request -
State: closed - Opened by dependabot[bot] about 3 years ago
- 1 comment
Labels: dependencies
#51 - Bump codecov/codecov-action from 1 to 2.0.2
Pull Request -
State: closed - Opened by dependabot[bot] about 3 years ago
- 1 comment
Labels: dependencies
#43 - Update and fix the docs
Issue -
State: open - Opened by cdiener over 3 years ago
#39 - Fix #37 by allowing the user to define the compression...
Pull Request -
State: closed - Opened by nigiord over 3 years ago
- 5 comments
#38 - interpretation of plot_exchanges_per_sample default behavior
Issue -
State: closed - Opened by mmp3 over 3 years ago
- 6 comments
#37 - Give the option to increase the compresslvl of model databases
Issue -
State: closed - Opened by nigiord over 3 years ago
- 1 comment
#36 - Support for GTDB taxonomy?
Issue -
State: open - Opened by nick-youngblut over 3 years ago
- 8 comments
#35 - Enable OSQP support
Pull Request -
State: closed - Opened by cdiener over 3 years ago
- 1 comment
#34 - [MICOM 1.0 API] Proposed new format for fluxes
Issue -
State: open - Opened by cdiener over 3 years ago
- 2 comments
Labels: feature
#33 - optimize_all(fluxes=True) and optimize_single(fluxes=True) do not return fluxes
Issue -
State: closed - Opened by michaelsilverstein over 3 years ago
- 6 comments
#32 - build.py:177: FutureWarning: The default value of regex will change from True to False in a future version.
Issue -
State: closed - Opened by mmp3 over 3 years ago
- 3 comments
#31 - "Metrics are only available for models build using a model database" when using custom SBML files
Issue -
State: closed - Opened by mmp3 over 3 years ago
- 3 comments
Labels: bug
#30 - Different cooperative tradeoff solutions between first and second run
Issue -
State: closed - Opened by gzampieri over 3 years ago
- 1 comment
#29 - Fraction variation influences "status"
Issue -
State: closed - Opened by arianccbasile over 3 years ago
- 5 comments
#26 - Implement more checks and help for model tables
Issue -
State: open - Opened by cdiener over 3 years ago
#24 - Workflows are broken with Gurobi
Issue -
State: closed - Opened by cdiener over 3 years ago
- 1 comment
#15 - minimal_medium() returns more reactions than initially present
Issue -
State: closed - Opened by nigiord about 4 years ago
- 2 comments
Labels: question, numeric
#14 - Mention and link where to ask questions
Issue -
State: closed - Opened by cdiener about 4 years ago
- 1 comment
Labels: feature
#13 - Add basic installation instructions for QP solvers to the docs
Issue -
State: closed - Opened by jfoldi81 about 4 years ago
- 4 comments
#12 - Error occurs when joining two models after changing their metabolite IDs
Issue -
State: closed - Opened by wintermute221 about 4 years ago
- 4 comments
#11 - Why is cooperative_tradeoff with "fluxes=True" not feasible sometimes?
Issue -
State: closed - Opened by cymee95 about 4 years ago
- 3 comments
Labels: numeric, done
#10 - Export optcom results
Issue -
State: closed - Opened by arianccbasile over 4 years ago
- 2 comments
#9 - exchanges not identified correctly in CarveME models
Issue -
State: closed - Opened by arianccbasile about 5 years ago
- 14 comments
#8 - ValueError is raised with custom reaction identifiers
Issue -
State: closed - Opened by mostueve about 5 years ago
- 2 comments
#7 - Should warn about mismatched IDs
Issue -
State: open - Opened by cdiener about 5 years ago
#6 - Question on setting import flux upper bounds
Issue -
State: closed - Opened by krcurtis about 5 years ago
- 1 comment
Labels: question
#5 - Question on units for media fluxes
Issue -
State: closed - Opened by krcurtis over 5 years ago
- 1 comment
#4 - Issue importing
Issue -
State: closed - Opened by arianccbasile over 5 years ago
- 3 comments
#3 - Optimize community growth to match known relative abundance
Issue -
State: closed - Opened by krcurtis over 5 years ago
- 5 comments
#2 - Verbose messages from gurobi when loading community model
Issue -
State: closed - Opened by mmundy42 almost 7 years ago
- 3 comments