$ datalad containers-run -n bids-bibsnet --input sourcedata --output derivatives/bibsnet-3.3.2/ '{inputs}' '{outputs}' participant -w workdir
[INFO ] Making sure inputs are available (this may take some time)
[INFO ] == Command start (output follows) =====
"uname": executable file not found in $PATH
Traceback (most recent call last):
File "/home/bibsnet//bibsnet", line 48, in <module>
main()
File "/home/bibsnet//bibsnet", line 33, in main
json_args, sub_ses_IDs = get_params([get_stage_name(stg) for stg in STAGES])
File "/home/bibsnet/src/get_args.py", line 177, in get_params
return validate_cli_args(vars(parser.parse_args()), stage_names,
File "/home/bibsnet/src/get_args.py", line 270, in validate_cli_args
) if cli_args["brain_z_size"] else get_brain_z_size(
File "/home/bibsnet/src/get_args.py", line 399, in get_brain_z_size
age2headradius = pd.read_csv(AGE_TO_HEAD_RADIUS_TABLE)
File "/opt/conda/lib/python3.8/site-packages/pandas/util/_decorators.py", line 311, in wrapper
return func(*args, **kwargs)
File "/opt/conda/lib/python3.8/site-packages/pandas/io/parsers/readers.py", line 586, in read_csv
return _read(filepath_or_buffer, kwds)
File "/opt/conda/lib/python3.8/site-packages/pandas/io/parsers/readers.py", line 482, in _read
parser = TextFileReader(filepath_or_buffer, **kwds)
File "/opt/conda/lib/python3.8/site-packages/pandas/io/parsers/readers.py", line 811, in __init__
self._engine = self._make_engine(self.engine)
File "/opt/conda/lib/python3.8/site-packages/pandas/io/parsers/readers.py", line 1040, in _make_engine
return mapping[engine](self.f, **self.options) # type: ignore[call-arg]
File "/opt/conda/lib/python3.8/site-packages/pandas/io/parsers/c_parser_wrapper.py", line 51, in __init__
self._open_handles(src, kwds)
File "/opt/conda/lib/python3.8/site-packages/pandas/io/parsers/base_parser.py", line 222, in _open_handles
self.handles = get_handle(
File "/opt/conda/lib/python3.8/site-packages/pandas/io/common.py", line 702, in get_handle
handle = open(
PermissionError: [Errno 13] Permission denied: '/home/bibsnet/data/age_to_avg_head_radius_BCP.csv'
[INFO ] == Command exit (modification check follows) =====
run(error): /mnt/DATA/data/dnkennedy/my_experiments/ds000003-qcsing24 (dataset) [./code/containers/scripts/singularity_cm...]
action summary:
get (notneeded: 3)
run (error: 1)
