Sanity check using description

1. Gather required variables.

   export ODM_URL=https://odm.localhost
   export ODM_TOKEN=yourTokenFromRootUser
   

2. Run check over ODM instance before the upgrade.

   docker run \
     --env ODM_URL=${ODM_URL} \
     --env ODM_TOKEN=${ODM_TOKEN} \
     091468197733.dkr.ecr.us-east-1.amazonaws.com/genestack/clickhouse-helper \
     odm sanity > sanity-result-before.jsonl
   

3. Proceed with upgrading ODM instance

4. Run check over ODM instance after the upgrade

   docker run \
     --env ODM_URL=${ODM_URL} \
     --env ODM_TOKEN=${ODM_TOKEN} \
     091468197733.dkr.ecr.us-east-1.amazonaws.com/genestack/clickhouse-helper \
     odm sanity > sanity-result-after.jsonl
   

5. Run a diff:

   diff sanity-result-before.jsonl sanity-result-after.jsonl
   

Basically there should be no changes, except studies with already uploaded VCF files, they should be started to reimport.