Hi, I’m trying to get started running fMRI Prep and I downloaded dcm2bids using pip install.
While trying to get started turning the dicom files into nifti, I’ve run into the following error:
dcm2bids_helper -d /mnt/storage/Jessica_Lab/analyses/Rachel_Pract ice/dcm2bids-tutorial/sourcedata/wsu-con-0004-02
Traceback (most recent call last):
File “/home/RScott/.local/bin/dcm2bids_helper”, line 8, in
sys.exit(main())
File “/home/RScott/.local/lib/python3.8/site-packages/dcm2bids/helper.py”, lin e 42, in main
rsl = app.run()
File “/home/RScott/.local/lib/python3.8/site-packages/dcm2bids/dcm2niix.py”, l ine 90, in run
self.execute()
File “/home/RScott/.local/lib/python3.8/site-packages/dcm2bids/dcm2niix.py”, l ine 100, in execute
output = run_shell_command(cmd)
File “/home/RScott/.local/lib/python3.8/site-packages/dcm2bids/utils.py”, line 113, in run_shell_command
return check_output(shlex.split(commandLine))
File “/usr/lib/python3.8/subprocess.py”, line 415, in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
File “/usr/lib/python3.8/subprocess.py”, line 493, in run
with Popen(*popenargs, **kwargs) as process:
File “/usr/lib/python3.8/subprocess.py”, line 858, in init
self._execute_child(args, executable, preexec_fn, close_fds,
File “/usr/lib/python3.8/subprocess.py”, line 1704, in _execute_child
raise child_exception_type(errno_num, err_msg, err_filename)
FileNotFoundError: [Errno 2] No such file or directory: ‘dcm2niix’
Any help would be greatly appreciated!