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🔊 Print the dbgap manifest URL #38

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Merged
fiendish merged 1 commit into from
Sep 17, 2021
Merged

🔊 Print the dbgap manifest URL #38

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5 changes: 4 additions & 1 deletion kf_utils/dbgap/release.py
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Original file line number Diff line number Diff line change
Expand Up @@ -19,11 +19,14 @@ def get_latest_sample_status(phs_id, required_status="released"):
version = None
while True:
phs_string = f"{phs_id}.v{version}" if version is not None else phs_id
print(f"Querying dbGaP for study {phs_string}")
url = (
"https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/"
f"GetSampleStatus.cgi?study_id={phs_string}&rettype=xml"
)

print(f"Querying dbGaP for study {phs_string}")
print(f"Manifest URL -> {url}")

data = Session(status_forcelist=(502, 503, 504)).get(url)
if data.status_code != 200:
tried[phs_string] = f"status {data.status_code}"
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