memote
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opencobra
memote – the genome-scale metabolic model test suite
#### Problem description As discussed in https://github.com/SysBioChalmers/yeast-GEM/issues/137, there are certain SBO terms that could be an indicator for memote to skip assessing the corresponding reactions in terms of mass-balance /...
#### Problem description This is nothing directly to do with memote directly, but since memote aims at improving model quality, I think it will reach the right people here. When...
#### Problem description It is not obvious from the current documentation what the keys "data" and "metric" are used for and what the difference is in the current documentation. I...
#### Problem description Looking at the yeast-GEM [history report](http://sysbiochalmers.github.io/yeast-GEM/history_report.html), even though there are no memote results for most of the old commits, they still appear (with a score of 1)...
When memote is used to assess the quality of a simulation (model+data), one will submit the uptake and secretion associated to this condition. If multiple uploads of data are performed...
Missing GPRs
**memote** gives an error for all intracellular reactions without GPRs. However, it is not clear to me why a GPR should be mandatory. Maybe there could be evidence for the...
#### Problem description @AlbaLopez take a look at the gh-pages branch of this mock-repo to get access to an example history report `index.html` and the corresponding json result files we'd...
#### Problem description We have recently started the implementation of memote as CI for [yeast-GEM](https://github.com/SysBioChalmers/yeast-GEM/pull/162), a repo currently consisting of ~400 commits. However, ~5000 commits were included in the report,...
For users that have existing tokens and for those using 2FA, we should add an option to `memote online` to directly provide said token without generating a new one. (We...
