opencobra memote issues

opencobra / memote

memote – the genome-scale metabolic model test suite

https://memote.readthedocs.io/

Apache License 2.0

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issues

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Cli tests

#616 ChristianLieven closed 5 years ago
5
fix: add parametrized metric

#615 Midnighter closed 5 years ago
1
refactor: add metrics to all test cases

#614 Midnighter closed 5 years ago
1
docs: explain why C1 carriers are not considered for essential precursors

#613 ChristianLieven closed 5 years ago
1
Mass balance not calculated, charge balance not calculated, annotations not detected

#612 matthiaskoenig closed 5 years ago
7
fix: handle a case where demand reactions already exist in a given model

#611 ChristianLieven closed 5 years ago
2
Double check the essential biomass precursors list for redundancies

#610 Midnighter closed 5 years ago
0
fix: add packages needed by sphinx autodoc to rtd build environment

#609 ChristianLieven closed 5 years ago
1
Fix Autodoc Generation

#608 ChristianLieven closed 5 years ago
1
Fix external

#607 Midnighter closed 5 years ago
3
Fix memote unit tests that were broken by new boundary behavior in cobrapy

#606 Midnighter closed 5 years ago
0
Fix json output error reporting

#605 Midnighter closed 5 years ago
1
Fix unique metabolites finding

#604 Midnighter closed 5 years ago
1
Need better JSON serialization reporting when errors occur

#603 Midnighter closed 5 years ago
0
Test for unique metabolites can produce wrong results if there are no expected compartment suffixes

#602 Midnighter closed 5 years ago
0
fix: biomass SBO annotation test

#601 gregmedlock closed 5 years ago
1
Test for biomass SBO term checks for presence rather than presence

#600 gregmedlock closed 5 years ago
1
feat: add seed.reaction namespace for reaction annotations

#599 gregmedlock closed 5 years ago
3
Errored when skipped

#598 ChristianLieven closed 5 years ago
1
refactor: round to and display single a decimal place

#597 ChristianLieven closed 5 years ago
2
As an author of the memote paper I want clear figures showing an overview of model performance in tests

#596 Midnighter closed 5 years ago
0
Re-calculate memote results

#595 Midnighter closed 5 years ago
0
Extend the duplicated reactions function to account for gene annotation

#594 Midnighter opened 5 years ago
0
Change the experimental table layout

#593 Midnighter opened 5 years ago
0
Refactor: gam_in_biomass should return the GAM value

#592 ChristianLieven opened 5 years ago
0
Fix duplicate rxns

#591 ChristianLieven closed 5 years ago
2
fix: remove redundant test case

#590 Midnighter closed 5 years ago
2
Fix topology tests

#589 Midnighter closed 5 years ago
1
Round to and display a single decimal place

#588 Midnighter closed 5 years ago
0
switch order of list check to account for multiple SBO entries

#587 gregmedlock closed 5 years ago
8
added 's' to end of 'kegg.gene' to be compliant with identifiers.org namespace

#586 gregmedlock closed 5 years ago
1
fix: invert logic of test_fast_growth_default

#585 ChristianLieven closed 5 years ago
2
Test sbml version

#584 ChristianLieven closed 5 years ago
3
refactor: change behavior of `find_bounds`

#583 Midnighter closed 5 years ago
1
refactor: use a model context for every test case

#582 Midnighter closed 5 years ago
1
upgrade memote to be pytest 4.x compatible

#581 Midnighter closed 5 years ago
2
feat: extend annotation tests with a check for inchi strings

#580 ChristianLieven closed 5 years ago
1
Config reorg

#579 ChristianLieven closed 5 years ago
3
Unpin pytest

#578 Midnighter closed 5 years ago
0
chore: fix display of integers by using 'raw' type

#577 Midnighter closed 5 years ago
2
Implementation Details

#576 ChristianLieven closed 5 years ago
4
WIP: Fix differences

#575 Midnighter closed 5 years ago
3
Fix disappearing

#574 ChristianLieven closed 5 years ago
2
Fix disappearing

#573 ChristianLieven closed 5 years ago
0
introduce a threshold for consistent test outcomes

#572 Midnighter closed 5 years ago
1
Prettify the test descriptions with HTML tags

#571 ChristianLieven opened 5 years ago
1
Improve consistency.detect_energy_generating_cycles

#570 ChristianLieven opened 5 years ago
0
Include or improve error messages

#569 ChristianLieven opened 5 years ago
1
Merge biomass.find_direct_metabolites with biomass.detect_false_positive_direct_metabolites

#568 ChristianLieven opened 5 years ago
0
Use find_bounds to apply the maximal bounds given by the model!

#567 ChristianLieven opened 5 years ago
0

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