Annotation Conf. Call 2018-09-11
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Meeting URL
Agenda
Pipeline
http://wiki.geneontology.org/index.php/Release_Pipeline
Annotations
- Groups should no longer be submitting files to SVN
- Directionality of file transfer should now be GO -> Annotation group ftp (or something similar)
- Source URL should be indicated in the datasets.yaml files
- Report request - any groups still have SVN as a source for GO data?
- Example for UniProt: https://github.com/geneontology/go-site/blob/master/metadata/datasets/goa.yaml
- Tony S: We still submit several external2go (and gp2protein) files to SVN - see also #688 Generate external2go as part of main ontology pipeline
- MGI still submits gp2protein, gp2rna, and gp_unlocalized via SVN;
Ontology
- The links to download the ontology will change. Right not what is in the geneontology.org website points to the daily snapshot release; it will be modified to point to the Official Monthly Release (date TBD).
- If groups want to have the most up-to-date version of the ontology. they should get in from the snapshot PURL.
Maintaining Slim Subsets
- Pascale has been trying to update information about GO slim subsets
- Specifically, which subsets are still used and who is responsible for maintaining them
- The information is present in yaml files in geneontology/go-ontology
- When GO terms are obsoleted, part of the obsoletion notice indicates in which subsets the term is used
- The editors will work with groups to make sure that, when necessary, the biological concept represented by the term is still present in the slim
- Going forward, terms will consistently be removed from subsets when they are made obsolete
Montreal Meeting, October Wednesday, 17th - Friday, 19th
GO Conference Calls
Tuesdays
- Still will be Tuesdays at 8am PDT
- Proposed meeting schedule:
- 1st Tuesday: Alliance Biological Function
- 2nd Tuesday: GO Consortium
- 3rd Tuesday: Alliance Biological Function/GO-CAM Working Group
- 4th Tuesday: GO-CAM Working Group
- 5th Tuesday: ad hoc, as needed
- One Zoom URL for all - https://stanford.zoom.us/j/976175422
Minutes
- On call: Chris, David, Dmitry, Dustin, Edith, George, Giulia, Harold, Helen, Karen, Kimberly, Liz, Marie-Claire, Michele, Pascale, Petra, Sabrina, Seth, Shur-Jen, Tanya, Val