opencobra memote issues

opencobra / memote

memote – the genome-scale metabolic model test suite

https://memote.readthedocs.io/

Apache License 2.0

128 stars 28 forks source link

issues

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PATRIC gene IDS

#669 mjenior closed 5 years ago
4
chore: upgrade structure and configuration

#668 Midnighter closed 5 years ago
2
chore: use only x64 and conda

#667 Midnighter closed 5 years ago
3
Appveyor builds are failing

#666 ChristianLieven closed 5 years ago
0
Support latest cobrapy

#665 matthiaskoenig closed 5 years ago
2
Test if all objective (biomass) reaction products can be removed

#664 Midnighter opened 5 years ago
0
#AttributeError: 'Config' object has no attribute 'warn' while running memote report

#663 prashantbajpai opened 5 years ago
5
Have memote.utils.is_modified() return False if file was deleted.

#662 jonovik closed 5 years ago
14
Add tests for model encoding (and corresponding section in report)

#661 matthiaskoenig opened 5 years ago
4
Contributing guidelines pip install not working

#660 matthiaskoenig closed 5 years ago
2
Catch and log potential git errors

#659 ChristianLieven opened 5 years ago
0
Running the tox suite locally generates a `diff.html` file in the working directory

#658 Midnighter closed 4 years ago
1
Enable appveyor and ensure windows compatibility

#657 ChristianLieven closed 5 years ago
2
Win compat

#656 ChristianLieven closed 5 years ago
0
Win compat

#655 ChristianLieven closed 5 years ago
0
Enable appveyor

#654 ChristianLieven closed 5 years ago
0
Reports are very large (~3.7MB)

#653 matthiaskoenig opened 5 years ago
3
Error in Non-Growth Associated Maintenance Reaction

#652 matthiaskoenig opened 5 years ago
4
Remove weights from the total score until we've determined the best course of action.

#651 ChristianLieven opened 5 years ago
0
fix: ignore any falsy genes attribute

#650 Midnighter closed 5 years ago
0
Errors in test cases

#649 Midnighter opened 5 years ago
8
Filter out reactions without genes from results

#648 Midnighter closed 5 years ago
0
Add annotation tests for compartments

#647 matthiaskoenig opened 5 years ago
0
Normalisation of test_gene_protein_reaction_rule_presence doesn't take into account pseudoreactions (boundary and biomass)

#646 ChristianLieven opened 5 years ago
0
Git requirements

#645 ChristianLieven closed 5 years ago
1
Replace vega-lib with taucharts

#644 ChristianLieven closed 5 years ago
1
Investigate influence of tolerance threshold

#643 Midnighter opened 5 years ago
0
Number of medium components is normalized incorrectly

#642 Midnighter opened 5 years ago
0
Gene namespace consistency test

#641 Midnighter opened 5 years ago
0
refactor: stay on deployment branch after generating the history report

#640 ChristianLieven closed 5 years ago
1
Inconsistency in finding blocked reactions

#639 hvdinh16 opened 5 years ago
8
Post-release hotfix!

#638 ChristianLieven closed 5 years ago
3
memote online command error

#637 hvdinh16 opened 5 years ago
3
"Biomass Production In Default Medium" test can produce NaN results, causing report rendering to error

#636 kvikshaug opened 5 years ago
0
Revert changes made in #634

#635 ChristianLieven opened 5 years ago
0
test: temporarily do not expect warnings

#634 Midnighter closed 5 years ago
2
Create a 'slow' pytest mark and only run slow tests on Travis rather than locally in development.

#633 ChristianLieven opened 5 years ago
0
Simplify and document the CLI test fixtures

#632 Midnighter opened 5 years ago
0
Multiprocessing

#631 Midnighter opened 5 years ago
0
Calculation of Metabolic Coverage should ignore pseudo-reactions

#630 ChristianLieven opened 5 years ago
0
Report guide

#629 ChristianLieven closed 5 years ago
1
Allow latest pandas version in setup.cfg

#628 matthiaskoenig opened 5 years ago
2
Total statistics graph unreadable (score per category, rotate axes labels)

#627 matthiaskoenig closed 5 years ago
3
SBO statistics calculated incorrectly

#626 matthiaskoenig opened 5 years ago
4
Reaction annotations to biological database should not be counted on exchange and biomass reactions

#625 matthiaskoenig opened 5 years ago
3
If no genes are in model the gene annotation tests should be skipped

#624 matthiaskoenig opened 5 years ago
1
docs: draft guidlines for authors of custom tests

#623 ChristianLieven closed 5 years ago
3
Fix experiments

#622 Midnighter closed 5 years ago
1
On linking fundamental information like taxonomy, genome sequence and phenotypical data in SBML

#621 ChristianLieven opened 5 years ago
3
docs: update docstring and test description to reflect implementation

#620 ChristianLieven closed 5 years ago
1

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