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Add handling of renaming files after dcm2niix conversion #693

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Add handling of renaming files after dcm2niix conversion #693

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11 changes: 10 additions & 1 deletion heudiconv/convert.py
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Original file line number Diff line number Diff line change
Expand Up @@ -627,6 +627,11 @@ def convert(
overwrite=overwrite,
)

# TODO: add heuristic call to possibly adjust filenames
# renames = rename_after_dcm2niix(item, bids_outfiles)
# for file_from, file_to in renames.items():
# safe_movefile(...)

# save acquisition time information if it's BIDS
# at this point we still have acquisition date
if bids_options is not None:
Expand All @@ -635,6 +640,10 @@ def convert(
tuneup_bids_json_files(bids_outfiles)

if prov_file:
# TODO: check if it remains sensible since save_converted_files
# would do all kinds of renames etc
# if above bids_outfiles become dict -- it could add
# additional prov fields for renaming or just adjust the records
prov_files.append(prov_file)

tempdirs.rmtree(tmpdir)
Expand Down Expand Up @@ -1031,7 +1040,7 @@ def save_converted_files(
bids_outfiles.append(outname_bids)
except TypeError: ##catch lists
raise TypeError("Multiple BIDS sidecars detected.")
return bids_outfiles
return bids_outfiles # TODO: make this to be a dict which would point to original filenames


def add_taskname_to_infofile(infofiles: str | list[str]) -> None:
Expand Down