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DIG-1833: Query returns all donors to the clinical data table when no donors match a genomic query #58

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merged 14 commits into from
Oct 24, 2024
Merged

DIG-1833: Query returns all donors to the clinical data table when no donors match a genomic query #58

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a1bec44
remove libressl-dev
daisieh Dec 19, 2023
262232e
Update query_operations.py
daisieh Feb 1, 2024
99edf8c
Add fixes for things that changed with the Katsu UUID fix
OrdiNeu Dec 13, 2023
f724417
Fix the usage of the candig user
OrdiNeu Dec 15, 2023
fd8fe83
update uwsgi
daisieh Dec 19, 2023
c2b7860
Fix for the search page on query
OrdiNeu Jan 26, 2024
5af656f
Merge pull request #16 from CanDIG/stable-candidate
daisieh Feb 2, 2024
4a3a779
Merge branch 'stable' into stable-candidate-v.2.1.0
OrdiNeu Mar 7, 2024
bc1c393
Merge pull request #23 from CanDIG/stable-candidate-v.2.1.0
OrdiNeu Mar 7, 2024
f11c1f8
Merge branch 'stable' into stable-candidate-v2.3.0
daisieh May 3, 2024
113d1f7
Merge pull request #34 from CanDIG/stable-candidate-v2.3.0
daisieh May 3, 2024
a976fb7
Merge pull request #53 from CanDIG/stable-candidate-v3.0.0
daisieh Oct 4, 2024
d3cccfe
Merge pull request #57 from CanDIG/develop
daisieh Oct 21, 2024
881bf90
Fix a bug that occurs when HTSGet responds successfully, but has no data
OrdiNeu Oct 24, 2024
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3 changes: 2 additions & 1 deletion query_server/query_operations.py
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Original file line number Diff line number Diff line change
Expand Up @@ -301,7 +301,8 @@ def query(treatment="", primary_site="", drug_name="", systemic_therapy_type="",
# sample_ids = genomic_query_info[cohort]

htsget_found_donors = {}
for response in htsget['response']:
responses = htsget['response'] if 'response' in htsget else []
for response in responses:
for case_data in response['caseLevelData']:
if 'biosampleId' not in case_data:
logger.error(f"Could not parse htsget response for {case_data}")
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