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fixed bug if no -json_map nor -csv_map was supplied, errored out wher… #405

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merged 1 commit into from
Aug 27, 2024
Merged

fixed bug if no -json_map nor -csv_map was supplied, errored out wher… #405

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11 changes: 4 additions & 7 deletions src/nidm/experiment/tools/csv2nidm.py
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Original file line number Diff line number Diff line change
Expand Up @@ -8,7 +8,6 @@

from argparse import ArgumentParser
from io import StringIO
import json
import logging
import os
from os.path import basename, dirname, join
Expand Down Expand Up @@ -306,18 +305,16 @@ def main():
json_map = redcap_datadictionary_to_json(args.redcap, basename(args.csv_file))
elif args.json_map:
json_map = args.json_map
else:
elif args.csv_map:
if ".csv" in args.csv_map:
# convert csv_map to a json version
json_map = csv_dd_to_json_dd(args.csv_map)

# load existing json file
with open("/Users/dbkeator/Downloads/test_json.json", "w") as f:
json.dump(json_map, f)
else:
print("ERROR: -csv_map parameter must be a CSV file with .csv extension...")
sys.exit(-1)

else:
json_map = None
# open CSV file and load into
# DBK added to accommodate TSV files with tab separator 3/15/21
if args.csv_file.endswith(".csv"):
Expand Down Expand Up @@ -485,7 +482,7 @@ def main():
# f.write(project.serializeTurtle())

id_field = detect_idfield(column_to_terms)

# if we couldn't find a subject ID field in column_to_terms, ask user
if id_field is None:
# ask user for id field
Expand Down
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