Comments (12)
...weird, we just did an update
in the GPI:
PR 000050230 mAKT2/iso:1/Phos:1 RAC-beta serine/threonine-protein kinase isoform 1 phosphorylated 1 (mouse) protein taxon:10090 MGI:MGI:104874
Change TEST_SRCS = mgi
~/local/src/git/neo[master]$:) PATH=/home/sjcarbon/local/src/git/owltools/OWLTools-Runner/bin:$PATH make test_obo
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Sorry; do you mean the two I list are not in the GPI used?
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@hdrabkin Could you check to see if these are available now?
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I just checked these two and they are both available in FORM and GRAPH.
Did this use the most recent MGI GPI? I can ask Li and Karen to try anything they have recently requested also.
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I confirmed that this ID, PR:Q3V365, which was created on 3/10/20, was available in both the Form and the Graph.
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I have confirmed PR:000050230 is now available (Jan 2020 request)
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Li just confirmed that a new request PR:000050231 is now also available in Noctua
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@hdrabkin Okay, great--we seem to have a building method that is more sensible now.
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Current problem list from @hdrabkin
PR:000050486
name: alanine--tRNA ligase, cytoplasmic isoform 1 methylated 1 (mouse)
PR:000050487
name: alanine--tRNA ligase, cytoplasmic isoform 1 unmethylated 1 (mouse)
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@hdrabkin These seem to be in the system, albeit under different names:
http://noctua-amigo.berkeleybop.org/amigo/term/PR:000050486
http://noctua-amigo.berkeleybop.org/amigo/term/PR:000050487
They both appear in the dropdown for me.
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I tried Monday but now they ARE there; Sorry. You can close this. Thanks Seth!
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@hdrabkin No worries. It is a little odd though. We rolled out (two separate) new release for NEO on Thursday and Friday last week, after a long hiatus due to a conflict upstream. If you were still having issues on Monday, I wonder if something might be getting cached somewhere along the way...
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Related Issues (20)
- RNAcentral IDs incorrectly use OBO PURL namespace HOT 5
- Isoform display in label (originally on the visual tool) HOT 4
- Some IDs we expect are not found in Noctua HOT 5
- Transient Xenbase issue dropped GPI file HOT 1
- unresolved IDs HOT 10
- Xenbase identifiers are not correct getting labels (in NEO?) HOT 5
- Some e.coli entries not found HOT 18
- In some cases bad identifiers are getting into the load HOT 5
- Ecoli data is gone from NEO as the upstream source changed HOT 13
- add additional species names to gene labels HOT 5
- Add FB Developmental and Anatomy Ontology HOT 14
- Unknown reduction in entities in NEO build HOT 15
- Add some minimal QC to the NEO pipeline HOT 14
- Some Reactome Identifiers are not resolving HOT 11
- NEO GOlr / Solr load does not use "modern" loader, so does not build all closures for "modern" AmiGO
- Xenbase entities do not seem to propagate to the NEO build from the Xenbase GPI HOT 6
- Would like phage proteins to be available HOT 2
- Request to load more phage proteins HOT 2
- Many ChEBI chemicals not available for metabolic models HOT 17
- Clarify and implement rules on inclusion of RNA gene products / RNA central HOT 4
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