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From email:
> For which of the 15 folders here will you and your team be providing new
> versions?
https://data.openphacts.org/free/2.1/ims/linksets/wikipathways/
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egonw updated
6 years ago
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```
( ! ) Warning: rename(/tmp/WP339_42897.svg,..../svg/d/dc/WP339_42897.svg): Operation not permitted in ..../w/wpi/extensions/Pathways/Pathway.php on line 1275
```
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What is the OPS approach for this?
egonw updated
8 years ago
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Just to keep track of the remaining "problem children" from the recent sync of all approved pathways, here's a list pathways that can't be converted to pvjson, svg and png using our main script. I de…
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The "Curator of the week" feed is not updating based on the xml its supposed to be using:
https://www.wikipathways.org/index.php/WikiPathways
Its still displaying Alex, even though Alex's name w…
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but might be for all genesets
Panther genesets are mix of all species identifiers
Wikipathways are losing identifiers with the new ensembl id annotator, need to figure out why.
[comparing_geneset…
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@ozgunbabur , I see lots of warnings in PC logs (cpath2, PC9, which uses Paxtools) like:
`WARN o.b.p.q.w.GraphL3Undirected - Invalid BioPAX object to wrap as node. Ignoring: http://identifiers.org/w…
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1. import disease pathway subset of PW
2. merge in KEGG IDs as xrefs
3. add xrefs to Reactome
4. anything else, wikipathways?
5. add linkages e.g. X disease realizes some X pathway
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Currently showing up as syntax in the description, e.g.,
"WikiPathways\GPML\Content::renderQualityTags"
Perhaps the plan is to move these to the future Pathway Info box instead of as a page sectio…
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For a process (WikiPathways pathway, GO term, or pathway ontology term) find all proteins involved and see how many are expressed in a specific tissue or cell type (using NextPot as the source for exp…