kltm
@sierra-moxon Where should that conversation happen?
Looks good from over here: ``` sjcarbon@moiraine:/tmp$:) zcat wb.gpad.gz | grep -v "^!" | cut -f 2 | sort | uniq | wc 14078 14078 210682 sjcarbon@moiraine:/tmp$:) zcat wb.gaf.gz |...
Depending on what you are doing, I suspect the direct testing of flexdocs accomplishes little. I unfortunately have little memory of AllOntologyLoaderIntegrationRunner--I suspect that this is not my code originally--but...
Honest question here, but how useful is a utility metric without reference to some kind of annotation set?
Correct label and biological process issues for model annotation loader, possible other improvements
The used command line is: java -Xms1024M -DentityExpansionLimit=4086000 -Djava.awt.headless=true -Xmx192G -jar ./java/lib/owltools-runner-all.jar http://purl.obolibrary.org/obo/go/extensions/go-gaf.owl http://purl.obolibrary.org/obo/eco.owl http://purl.obolibrary.org/obo/ncbitaxon/subsets/taxslim.owl http://purl.obolibrary.org/obo/cl/cl-basic.owl http://purl.obolibrary.org/obo/go/extensions/gorel.owl http://purl.obolibrary.org/obo/pato.owl http://purl.obolibrary.org/obo/po.owl http://purl.obolibrary.org/obo/chebi.owl http://purl.obolibrary.org/obo/uberon/basic.owl http://purl.obolibrary.org/obo/wbbt.owl http://purl.obolibrary.org/obo/go/extensions/go-modules-annotations.owl http://purl.obolibrary.org/obo/go/extensions/go-taxon-subsets.owl --log-info --merge-support-ontologies --merge-imports-closure --remove-subset-entities upperlevel --remove-disjoints...
Correct label and biological process issues for model annotation loader, possible other improvements
Tagging @yy20716
What would also really help would be seriously reducing the log levels to get at the meat - the Jenkins logs are unusable where they stand.
@hdietze and I talked a little bit more about this, and kind of feel that most solutions to this problem don't really scale--checking globally for bad incoming data is expensive...
Discussed with @cmungall , will go with hackiest and easiest solution for now, and revisit later as needed: we'll load "trusted" sources after "untrusted" ones, so clobbering is at least...
Okay, the reorder, while not a fix, should at least give a more expected result for mods in most situations, right? Long-term as keeping this all in memory is probably...