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INFO:root:Accessing accession GSE24417 in SOFT format
Traceback (most recent call last):
File "process_geo.py", line 36, in <module>
inserts('GSE')
File "process_geo.py", line 27, in inserts
rows = list(process(end_date, etyp))
File "process_geo.py", line 12, in process
for z in gp.geo_entity_iterator(accession, targ='self'):
File "/private/tmp/.venv/lib/python3.7/site-packages/omicidx/geo/parser.py", line 567, in geo_entity_iterator
yield (_parse_single_entity_soft(entity))
File "/private/tmp/.venv/lib/python3.7/site-packages/omicidx/geo/parser.py", line 387, in _parse_single_entity_soft
return (_parse_single_gse_soft(d2))
File "/private/tmp/.venv/lib/python3.7/site-packages/omicidx/geo/parser.py", line 422, in _parse_single_gse_soft
return pydantic_models.GEOSeries(**d2)
File "/private/tmp/.venv/lib/python3.7/site-packages/pydantic/main.py", line 283, in __init__
raise validation_error
pydantic.error_wrappers.ValidationError: 2 validation errors for GEOSeries
sample_id
field required (type=value_error.missing)
platform_id
field required (type=value_error.missing)
The text was updated successfully, but these errors were encountered:
The text was updated successfully, but these errors were encountered: