/data_objects/study/{study_id} endpoint does not return all of the data objects it used to

[bmeluch]

Describe the bug

The "Find data objects for study" endpoint is not returning the same results as it was two weeks ago for study nmdc:sty-11-aygzgv51. It appears to only be returning raw data dobj records and no processed data records.

Tested using:

• Swagger UI: https://api.microbiomedata.org/docs#/find/find_data_objects_for_study_data_objects_study__study_id__get
• Going to the URL directly: https://api.microbiomedata.org/data_objects/study/nmdc%3Asty-11-aygzgv51
• Querying the URL in R: jsonlite::fromJSON('https://api.microbiomedata.org/data_objects/study/nmdc%3Asty-11-aygzgv51')

Last time I ran this query I was able to identify 33 biosamples with processed data dobj records with data_object_type = GC-MS Metabolomics Results, Annotation Enzyme Commission, or Annotation KEGG Orthology. Now there are none, and it doesn't look like other processed data types are present either.

To Reproduce

Steps to reproduce the behavior:

1. Retrieve JSON from https://api.microbiomedata.org/data_objects/study/nmdc%3Asty-11-aygzgv51
2. Search for records with data_object_type = GC-MS Metabolomics Results, Annotation Enzyme Commission, or Annotation KEGG Orthology
3. They are not there :(

Expected behavior

I expected to see processed data records for this study as well as raw data records.

Acceptance Criteria

• The "Find data objects for study" endpoint returns processed data records
• Specifically, it returns 33 biosamples with processed data records with the types listed above for nmdc:sty-11-aygzgv51

See also

#723
@aclum @sujaypatil96