Ecosyste.ms: Timeline

Browse the timeline of events for every public repo on GitHub. Data updated hourly from GH Archive.

cmungall

cmungall created a comment on an issue on biopragmatics/bioregistry
I think the guidelines are great but I am not sure these will help with these kinds of issues in the future. The root of the issue here is that bioregistry needs to recognize that not every author...

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cmungall opened a pull request on INCATools/semantic-sql
Adding new entries for kbase
Attempting to best resolve PURL muddle; see https://github.com/biopragmatics/obo-db-ingest/issues/15
cmungall created a branch on INCATools/semantic-sql

new-entries-and-uri-resolution - SQL and SQLite builds of OWL ontologies

cmungall opened an issue on biopragmatics/bioregistry
clingen vs clingene
Bioregistry has both 1. `clingene` (alleles) 2. `clingen.affiliation` (added in #1314) I think `clingene` is a mistake inherited from identifiers.org. I think `clingen` should be primary, `clinge...
cmungall opened a pull request on linkml/linkml-project-cookiecutter
Update .gitignore
Comments in .gitignore must be at start of line https://git-scm.com/book/id/v2/Git-Basics-Recording-Changes-to-the-Repository#_ignoring
cmungall created a branch on linkml/linkml-project-cookiecutter

cmungall-patch-6 - A cookiecutter for linkml projects. An equivalent of `linkml-ws new project-name`.

cmungall created a comment on an issue on linkml/linkml-project-cookiecutter
OK, so it sounds like the general recommendation is that everyone should upgrade to poetry 2 - would be great to get a note in the README about this. Tip from @pkalita-lbl: But you can still use ...

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cmungall opened an issue on linkml/linkml-project-cookiecutter
Document poetry2 requirement
Looks like we got rid of `[tool.poetry]` for poetry 2.0, but is it expected it fails for poetry 1 now? ``` The Poetry configuration is invalid: - The fields ['authors', 'description', 'name'] ar...
cmungall opened an issue on Knowledge-Graph-Hub/kg-registry
split multi-ingest resources
current the idea is that there is one entry for `hgnc` and multiple products for alternate transforms (biopragmatics, monarch, bio2rdf, etc x 100) after some discussion with @matentzn kevin and ot...
cmungall starred cokelaer/bioservices
cmungall opened an issue on biopragmatics/obo-db-ingest
Use consistent PURLs in the distributed OWL files
It looks like different URIs are being used for the same IDs in different ingests. In many cases the URIs are *anti-purls* or *non-PURLs* (NPURLs), i.e. URLs that are almost guaranteed to change w...
cmungall pushed 1 commit to master EnvironmentOntology/envo

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cmungall closed a pull request on EnvironmentOntology/envo
Added terms for mine pits
New terms: - mine pit - mine pit pond - adit Unrelated: - fixed typo in metalimnion
cmungall pushed 1 commit to patch-3 cmungall/py-horned-owl
  • Fix typing for add_axiom arguments in __init__.pyi, #36 Fixes #36 c08212d

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cmungall opened an issue on ontology-tools/py-horned-owl
Incorrect type declaration for add_axiom and add_component
https://ontology-tools.github.io/py-horned-owl/generated/pyhornedowl.PyIndexedOntology.html#pyhornedowl.PyIndexedOntology: `add_axiom(self, ax: model.Component, annotations: List[[model.Annotation...
cmungall created a comment on an issue on ontology-tools/py-horned-owl
Looks like this is still present in `1.1.0` From email thread, @b-gehrke: > For the naming of fields and arguments, we could of course go with workarounds like "from_" but I think names like "so...

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cmungall opened a pull request on ontology-tools/py-horned-owl
Fixing URI of object property in usage.rst
While the example code worked, an explicit prefix must be provided for saving to functional syntax
cmungall pushed 1 commit to patch-2 cmungall/py-horned-owl
  • Fixing URI of object property in usage.rst While the example code worked, an explicit prefix must be provided for sa... dc9bbf0

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cmungall published a release on linkml/linkml-store
cmungall created a tag on linkml/linkml-store

v0.2.4 - wrapper for multiple linkml storage engines

cmungall pushed 1 commit to main linkml/linkml-store
  • temporarily excluding chromadb d0e1f76

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cmungall created a tag on linkml/linkml-store

v0.2.3 - wrapper for multiple linkml storage engines

cmungall published a release on linkml/linkml-store
cmungall pushed 1 commit to main linkml/linkml-store
  • made dependencies optional 219336c

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cmungall pushed 2 commits to main INCATools/semantic-sql
  • Adding SIO. See https://github.com/biopragmatics/bioregistry/issues/1394 for comments on prefix abfe673
  • Merge pull request #93 from INCATools/adding-sio Adding SIO. af8e476

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cmungall closed a pull request on INCATools/semantic-sql
Adding SIO.
See https://github.com/biopragmatics/bioregistry/issues/1394 for comments on prefix
cmungall opened an issue on obophenotype/upheno-dev
Adding mappings into main upheno release
It would be good to have mappings incorporated into the owl release to faciliatate - sideways/ortholog traversal - up/down (e.g. ssPO to UPHENO taxon-equivs)
cmungall opened an issue on linkml/linkml
ifabsent_processor does not handle default_range
--- name: Bug report about: Create a report to help us improve title: 'ifabsent_processor does not handle default_range' labels: bug assignees: '' --- **Describe the bug** One of the permissible...
cmungall created a branch on linkml/linkml-model

linkml-model-1.9.0-release-candidate2 - Link Modeling Language (LinkML) model

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