INCATools / INCATools/dosdp-tools
Need QC to determine whether TSV filler conforms to pattern var range
- Dominant language
- Scala
- Stars
- 33
- Forks
- 5
- PR merge metrics
- No merged PRs in 30d
Description
For example, XPO is compiled using only[ DOSDP patterns](https://github.com/obophenotype/xenopus-phenotype-ontology/tree/master/src/patterns/dosdp-patterns) (no manual curation), which adds up to 3112 phenotypes. If I run dosdp-query against this, I get 2969 patterns generated (covering all five uPheno patterns). Does any one have an idea what could cause this? @balhoff
Contributor guide
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Research direction
Start by reproducing the dosdp-query run against the XPO DOSDP patterns linked in the issue and compare the 3112 compiled phenotypes with the 2969 generated patterns. Inspect the pattern variable ranges and TSV filler handling to identify which cases are omitted; done means the discrepancy is explained and covered by a regression check.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- scala
- Domain
- tooling
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100