Nico Matentzoglu
Nico Matentzoglu
The reason they are removed is that they are intermediate files according to `make`, and not targets. This is very much expected. The solution of using `.PRECIOUS` is generally correct,...
It seems that we further need to coordinate with a resource called LIPID MAPS which seems to cover some relevant lipids that are not covered by swisslipids.. https://www.lipidmaps.org/resources/sparql Unfortunately, their...
full command trail, but not relevant for you probably. I used the pypi version of cogs. ``` matentzn@mbp:~/ws/mondo-analysis (master) $ cogs add mondo_translate/mondo-omim-analysis.csv matentzn@mbp:~/ws/mondo-analysis (master) $ cogs add mondo_translate/mondo-doid-axiom-analysis.csv matentzn@mbp:~/ws/mondo-analysis...
Workaround in the meantime: 1. check whether file is in .cogs directory 2. check (grep) cogs ls 3. Use `pipeline || ` ``` cogs: $(foreach csv, $(ALL_AXIOM_ANALYSIS_TABLES), cogs add $(csv)...
Pattern library: https://github.com/obophenotype/upheno/tree/master/src/patterns/dosdp-patterns Some matches: https://github.com/obophenotype/upheno-dev/tree/master/src/curation/pattern-matches which contains https://github.com/obophenotype/upheno-dev/blob/master/src/curation/pattern-matches/hp/abnormalMorphologyOfAnatomicalEntity.tsv The goal would be to: 1. Use Phenio KG, patterns and known matches (potentially) as background knowledge 2. generate tables like...
I would hope so! But I didnt think that far. SInce the input are the existing phenotype terms, we dont need to worry that we feed terms that do not...
No I did not! I put it on our Agenda.
Whatever the outcome of this discussion, CLIs depending on pystow MUST provide a way to change the location. I have had now cases where using, say, OAK with ODK, where...
Thank you for your answer @ktk, I thought this was the case! Probably a better solution would be to have a web service that can expose an adhoc sparql endpoint...