`berkeley`: update generate_functional_agg.py

microbiomedata / nmdc-aggregator

Scripts that periodically aggregate data related to KEGG search

0 stars 0 forks source link

`berkeley`: update generate_functional_agg.py #9

Closed aclum closed 1 month ago

aclum commented 3 months ago

[x] Update act_col variable for the WorkflowExeuction results to workflow_execution_set with a type of either MetagenomeAnnotation or MetatranscriptomeAnnotation
[x] test on Berkeley SPIN

aclum commented 1 month ago

Testing with nmdc:wfmgan-11-4fb12h41.2 and nmdc:wfmtan-13-hemh0a82.1

aclum commented 1 month ago

The aggregation worked properly for nmdc:wfmgan-11-4fb12h41.2, records not showing up for nmdc:wfmtan-13-hemh0a82.1

aclum commented 1 month ago

There was a typo in the class name for metatranscriptome, this was fixed in the 10-* branch and Eric is redeploying.

aclum commented 1 month ago

This is working as expected now in the berkeley instance of SPIN.

aclum commented 1 month ago

metatranscriptome records verified with

curl -X 'GET' \
  'https://api-berkeley.microbiomedata.org/nmdcschema/functional_annotation_agg?filter=%7B%22metagenome_annotation_id%22%3A%22nmdc%3Awfmtan-13-hemh0a82.1%22%7D&max_page_size=20' \
  -H 'accept: application/json'