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fix: low_memory=False on mimic-iv sqlite read_csv #2085

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fix: low_memory=False on mimic-iv sqlite read_csv #2085

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4 changes: 2 additions & 2 deletions mimic-iv/buildmimic/sqlite/import.py
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Original file line number Diff line number Diff line change
Expand Up @@ -110,7 +110,7 @@ def main():
if args.limit > 0:
for f in data_files:
if 'patients' in f.name:
pt = pd.read_csv(f)
pt = pd.read_csv(f, low_memory=False)
break
if pt is None:
raise FileNotFoundError('Unable to find a patients file in current folder.')
Expand Down Expand Up @@ -158,7 +158,7 @@ def main():
tablename = tablenames[i]
print("Starting processing {}".format(tablename), end='.. ')
if os.path.getsize(f) < THRESHOLD_SIZE:
df = pd.read_csv(f, dtype=mimic_dtypes)
df = pd.read_csv(f, dtype=mimic_dtypes, low_memory=False)
df = process_dataframe(df, subjects=subjects)
df.to_sql(tablename, connection, index=False)
row_counts[tablename] += len(df)
Expand Down
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