Logging from nb2workflow

[burnout87]

Nb2workflow is installed within a renku session when any of the two plugins are installed.

While using them within a session, and in particular, running any renku command, I noticed the following in the log:

It looks like it has to do with:

• some missing dependencies (I tried to install owlready2, after having initially seen that dependency missing, but it didnt help much, I have a different error now)
• sentry, which I don't really need within the context of the two renku plugins, within a renku session, would it be possible to "deactivate" it?

[volodymyrss]

• different error is the one you show? since it's clearly installed
• we can keep sentry, it's meant to be used like that as well, at this time we are not concerned with event flooding so I just pushed a nb2workflow version which includes the DSN.

Could you check what does it run with each git command? Is it hooks? So it imports nb2workflow or also calls something?

[burnout87]

• different error is the one you show? since it's clearly installed

perhaps it's a versioning issue since both are installed

Could you check what does it run with each git command? Is it hooks? So it imports nb2workflow or also calls something?

it imports renku-aqs-annotation, which triggers the adding of some items to gitignore

while importing renku-aqs-annotation, imports of nb2workflow.ontology happens, and the warnings are from:

nb2workflow/nb2workflow/ontology.py

Lines 13 to 16 in 305c3cc

	try:
	import odakb.sparql
	except Exception as e:
	logger.warning("unable to import odakb.sparql (%s) but proceeding anyway", e)

and

nb2workflow/nb2workflow/ontology.py

Lines 19 to 34 in 305c3cc

	try:
	import owlready2
	xsd = owlready2.get_ontology("https://www.w3.org/2001/XMLSchema#").load()
	kees = owlready2.get_ontology("http://linkeddata.center/kees/v1#").load()
	G = rdflib.Graph()
	open("function.xml", "w").write(G.load(io.StringIO(requests.get("https://raw.githubusercontent.com/FnOio/fnoio.github.io/master/ontology/0.4.1/function.ttl").text), format="turtle").serialize(format="xml"))
	fno = owlready2.get_ontology("function.xml").load()
	# fno.base_iri="https://w3id.org/function/ontology#"
	odaworkflow = owlready2.get_ontology("http://odahub.io/ontology/workflow#")
	except Exception as e:
	logger.warning('unable to import owlready2: %s', e)
	owlready2=None