akaviaLab

would SBML allow spaces if they are escaped like "\ " or not that either? On Thu, Apr 7, 2022 at 2:04 PM Christian Diener ***@***.***> wrote: > No it...

I'm a bit confused. I wasn't planning to use _associate_gene, just make an equivalent for _associate_group, which I guess will be private as well. Are entities other than reaction associated...

Can you please post the text and not a screenshot next time? First question - does the file C:\Users\12027\src\cobra\data\mini_cobra.xml exist? You can try that by opening windows Explorer and navigating...

Fixed almost everything. If I remove context from species/remove_reaction, species/add_reaction almost everything works, which is simpler. However, test_remove_genes_with_context() breaks. Can you help me fix that? I'm not good with contexts....

@cdiener - can you help me fix test_remove_genes_with_context() please

@cdiener I think this is the reference http://co.mbine.org/specifications/sbml.level-3.version-2.core.release-2.pdf http://co.mbine.org/specifications/sbml.level-3.version-1.fbc.version-2.release-1.pdf

@cdiener Why do you think it has to be in a new version? I think the title might be wrong (and it is sbml3, not fbc3), but the annotation feature...

Cvterms are accesed via structured as requested. Did I misunderstand you? On Mon., Jun. 20, 2022, 1:51 p.m. Christian Diener, < ***@***.***> wrote: > Just based on previous discussions where...

Hmm We can remove the keypairvalues while we discuss the format. Or just remove the code. I have no strong feelings about this. On Thu., Jun. 23, 2022, 2:33 p.m....

@matthiaskoenig can you help review this?