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opencobra
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memote
memote – the genome-scale metabolic model test suite
https://memote.readthedocs.io/
Apache License 2.0
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Use find_bounds to apply the maximal bounds given by the model!
#567
ChristianLieven
opened
5 years ago
0
add logging statements to support functions
#566
ChristianLieven
opened
5 years ago
0
Use helpers.run_fba anywhere where model.optimize is currently used.
#565
ChristianLieven
opened
5 years ago
0
Front-end Improvements
#564
ChristianLieven
closed
5 years ago
4
Improve the Y axis labels for the tests in the history report
#563
ChristianLieven
closed
5 years ago
1
No display of growth test (substrate uptake screening) in report
#562
jenbartell
opened
5 years ago
0
Improve descriptions of the test calculations
#561
ChristianLieven
closed
5 years ago
3
Test duplicated reactions does not take into account directionality
#560
ChristianLieven
closed
5 years ago
0
Write up some guidelines that contribute to being able to share custom tests!
#559
ChristianLieven
closed
5 years ago
0
Include check for Smiles and Inchi annotation
#558
ChristianLieven
closed
5 years ago
0
Fix deprecation of the pytest_namespace hook which now errors in pytest 4.1
#557
Midnighter
closed
5 years ago
1
Include messages from erroring tests in result output
#556
kvikshaug
opened
5 years ago
0
Make a guide on how to read the various memote reports
#555
ChristianLieven
closed
5 years ago
0
Flag if model is outdated SBML version
#554
ChristianLieven
closed
5 years ago
0
Memote API docs are broken
#553
ChristianLieven
closed
5 years ago
0
Memote: Write responses for the memote reviewers
#552
ChristianLieven
closed
5 years ago
0
Obtain comparison of Yali Models
#551
ChristianLieven
closed
5 years ago
0
Obtain testimonial from Hyun Uk's students
#550
ChristianLieven
closed
5 years ago
0
Touch base with co-authors about memote use-cases
#549
ChristianLieven
closed
5 years ago
0
Point to M. capsulatus paper and model repo demonstrating iterative improvement there
#548
ChristianLieven
closed
5 years ago
0
Show improvement on Vibrio model
#547
ChristianLieven
closed
5 years ago
0
Fix GPR complex discovery
#546
Midnighter
closed
5 years ago
2
Ignore pyenv dotfile
#545
kvikshaug
closed
5 years ago
1
Set up code capsule on Code Ocean
#544
phantomas1234
closed
5 years ago
0
Translate medium exchange reaction identifiers
#543
Midnighter
opened
5 years ago
1
refactor: enable compression of results
#542
Midnighter
closed
5 years ago
1
Fix boundary
#541
Midnighter
closed
5 years ago
1
Refactor thermo
#540
Midnighter
closed
5 years ago
1
misleading commit name for history report updates of CI
#539
BenjaSanchez
closed
5 years ago
1
Correct format for annotations?
#538
hvdinh16
closed
5 years ago
4
Additional SBO reaction annotations that could skip mass balance tests
#537
BenjaSanchez
opened
5 years ago
1
fix: rely on cobrapy's find_blocked_reactions
#536
Midnighter
closed
5 years ago
2
Compress the json report output
#535
kvikshaug
closed
5 years ago
0
chore: correct mistake in history.rst about the skip-unchanged flag
#534
ChristianLieven
closed
5 years ago
1
'useless' genes in GPR rules
#533
tpfau
opened
5 years ago
5
Release0.8.7
#532
ChristianLieven
closed
5 years ago
1
fix: require that finding of transp rxns relies on compartments.
#531
ChristianLieven
closed
5 years ago
1
Test for thermodynamicly irreversible reactions which are written in the wrong direction.
#530
ChristianLieven
opened
5 years ago
0
fix: require Python 3.5+ for thermo tests
#529
Midnighter
closed
5 years ago
0
False identification of transport reaction
#528
hvdinh16
closed
5 years ago
9
Test thermodynamics
#527
ChristianLieven
closed
5 years ago
2
Reduce prominence of single overall score on the memote reports.
#526
ChristianLieven
closed
5 years ago
1
Improved documentation of custom tests
#525
sulheim
opened
5 years ago
0
Test for presence of git in the relevant commands
#524
Midnighter
closed
5 years ago
0
Add git requirement to memote install instructions
#523
Midnighter
closed
5 years ago
0
Use SBO to identify NGAM
#522
sulheim
opened
5 years ago
0
Add tests for `memote new` etc. to test git integration on all platforms
#521
phantomas1234
closed
5 years ago
1
Check naming of nullspace result in snapshot report.
#520
Midnighter
closed
5 years ago
0
Double check orphan metabolites and production in complete medium, as well as dead-end metabolites and consumption in complete medium.
#519
Midnighter
closed
5 years ago
0
Change the logic of the test for blocked reactions.
#518
Midnighter
closed
5 years ago
0
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