Automatically add allele metadata to subject metadata

AllenNeuralDynamics / aind-data-transfer-service

FastAPI service to run data compression and transfer jobs on the hpc

MIT License

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Automatically add allele metadata to subject metadata #181

Open dyf opened 2 weeks ago

dyf commented 2 weeks ago

In the metadata gathering step, use http://aind-metadata-service/mgi_allele to add allele metadata to subject metatdata.

[ ] from ~either a supplied or~ generated subject.json file, extract subject genotype
[ ] break subject genotype into individual alleles
- [allele_name]/[allele_name];[allele_name]/[allele_name]
- ignore "wt" on either side of the semicolon
[ ] query http://aind-metadata-service/mgi_allele/[allele_name] for each discovered allele
[ ] add to subject.alleles

jtyoung84 commented 2 weeks ago

@dyf ~The behavior has been to build the subject.json file if not supplied, otherwise, take the user provided file as it is. Can we keep that behavior?~