Philippe Rocca-Serra

update: root cause => separated_molecules = Material( name = "separated_molecules_{0}".format(row["XOmicsmetaboID"]) ) dropping them on each of the MS assay clears the serialization problem: ``` ## Chromatography # separated_molecules = Material(...

I'll send a PR to your repo with the modified notebook when I have a moment. I have a couple of suggestions, for instance simplifying the 'sampling process' and dropping...

@rabuono thx for investigating! Much appreciated as we could not reproduce in our environments (which are unix/linux based)

ok thx for reporting @rabuono . Just to be sure, can you provide a release tags or commit numbers you've used when running those tests? much appreciated

Hi @maciej-jonczyk Thx for reaching out. A couple of things about the java tools. These should be run in a VM with Java 1.8 (the tool do not run with...

Hi @maciej-jonczyk thank your for reporting these issues. I was able to replicate 3 but not 2. Regarding 1, accessing Crop Ontology, as ISAcreator performs lookups on NCBO Bioportal and...

Hi @maciej-jonczyk , that's correct, expected behavior, this was discussed and the miappe configuration developers felt it was a way to draw the attention to those values and provide. The...

@maciej-jonczyk as per the crop ontology site. agro would indeed be legit.  option 1: use Agro available from NCBO Bioportal (very little extra work) option 2: use AgroPortal (essentially...

further testing indicates retrofit is needed for the following objects too - [ ] investigation - [ ] study - [ ] assay

not sure, as the config allows to set the protocol type only, not the name but will double check, thx