AlexsLemonade / AlexsLemonade/refinebio
Could not discover organism type for run.
- Dominant language
- Python
- Stars
- 135
- Forks
- 21
- PR merge metrics
- No merged PRs in 30d
Description
This pertains to this accession: https://www.ebi.ac.uk/ena/data/view/SRA059568
There are a couple things that strike me as atypical about it:
* Multiple runs map to the same _sample_ accession
* The [sample metadata](https://www.ebi.ac.uk/ena/data/view/SRS369361&display=xml) contains a taxonomy id `` but no ``
In any case, I don't think this is high priority due to the low frequency but is probably worth examining eventually.
https://sentry.io/greenelab/staging-refinebio/issues/647990148/
```
Could not discover organism type for run.
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Contributor guide
No contributing guide indexed for this repository
Research direction
Start by reviewing the Sentry report and the ENA accession SRA059568, including sample SRS369361 and its metadata. Determine why organism discovery fails when TAXON_ID is present without SCIENTIFIC_NAME, then verify the behavior for this run and related runs before considering the issue resolved.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- data-engineering
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 35/100