pyontutils
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tgbugs
python utilities for working with ontologies
devconfig patch path needs to be set somewhere by default or it raises a TypeError, NoneType which is a very cryptic error, this may be true of other paths as...
Probably easiest to include a whitespace=True kwarg by default, and allow whitespace diffing to be turned off if people want it. Encountered this while trying to figure out why two...
See the output of the demo server at https://github.com/SciCrunch/sparc-curation/commit/f80c5d2350bcfaad52ac9468573b997dabe0fbbd. Extremely strange.
Both are used. Assuming that the nlx version should be deprecated: http://uri.neuinfo.org/nif/nifstd/nifext_5090
We have an old class from NIF called Nucleic acid > RNA > mRNA > Neurofilament 150kD mRNA = http://uri.neuinfo.org/nif/nifstd/nlx_mol_090801 It is assigned to a few neuron classes. As it...
http://uri.neuinfo.org/nif/nifstd/nifext_5068 and http://purl.obolibrary.org/obo/PR_000005110 Both are used. Assuming we should deprecate the nifext class and substitute PRO
Only the first of 3 phenotypes is from the logical phenotype on layers is listed. rdfs:label "Mammalia neocortex EGL (with-axon-in cortical layer I) Martinotti +GABA receptor role +Glutamate Receptor +SS...
self._session.close() is being called more than once in some cases, a rare bug, but an annoying one
Two olfactory cells have assertions that they are subclasses of gigantocellular reticular neurons: 'Olfactory bulb (main) granule cell' SubClassOf 'Gigantocellular reticular nucleus intrinsic neuron' 'Olfactory cortex large multipolar cell' SubClassOf...
Also, I think we should be consistent about putting any spatial qualifiers after the main nucleus. We have a bunch of "medial nucleus X" and I think it should be...