freesurfer_home TraitError

[omerday]

What happened?

When trying to run fmriprep with the command attached below through my Mac, the following error is returned:

231224-20:01:59,748 nipype.workflow IMPORTANT:
	 Running fMRIPrep version 23.1.4

         License NOTICE ##################################################
         fMRIPrep 23.1.4
         Copyright 2023 The NiPreps Developers.
         
         This product includes software developed by
         the NiPreps Community (https://nipreps.org/).
         
         Portions of this software were developed at the Department of
         Psychology at Stanford University, Stanford, CA, US.
         
         This software is also distributed as a Docker container image.
         The bootstrapping file for the image ("Dockerfile") is licensed
         under the MIT License.
         
         This software may be distributed through an add-on package called
         "Docker Wrapper" that is under the BSD 3-clause License.
         #################################################################
231224-20:01:59,794 nipype.workflow IMPORTANT:
	 Building fMRIPrep's workflow:
           * BIDS dataset path: /Users/omerdayan/Downloads/fMRI.
           * Participant list: ['08'].
           * Run identifier: 20231224-200155_b496551e-dbcd-4e3f-9d9b-1a12dcfbe37b.
           * Output spaces: MNI152NLin2009cAsym:res-native.
           * Pre-run FreeSurfer's SUBJECTS_DIR: /Users/omerdayan/Downloads/fMRI-Output/sourcedata/freesurfer.
Process Process-2:
Traceback (most recent call last):
  File "/Users/omerdayan/anaconda3/lib/python3.11/site-packages/nipype/interfaces/base/traits_extension.py", line 129, in validate
    value = Path(value)  # Use pathlib's validation
            ^^^^^^^^^^^
  File "/Users/omerdayan/anaconda3/lib/python3.11/pathlib.py", line 871, in __new__
    self = cls._from_parts(args)
           ^^^^^^^^^^^^^^^^^^^^^
  File "/Users/omerdayan/anaconda3/lib/python3.11/pathlib.py", line 509, in _from_parts
    drv, root, parts = self._parse_args(args)
                       ^^^^^^^^^^^^^^^^^^^^^^
  File "/Users/omerdayan/anaconda3/lib/python3.11/pathlib.py", line 493, in _parse_args
    a = os.fspath(a)
        ^^^^^^^^^^^^
TypeError: expected str, bytes or os.PathLike object, not NoneType

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/omerdayan/anaconda3/lib/python3.11/multiprocessing/process.py", line 314, in _bootstrap
    self.run()
  File "/Users/omerdayan/anaconda3/lib/python3.11/multiprocessing/process.py", line 108, in run
    self._target(*self._args, **self._kwargs)
  File "/Users/omerdayan/anaconda3/lib/python3.11/site-packages/fmriprep/cli/workflow.py", line 115, in build_workflow
    retval["workflow"] = init_fmriprep_wf()
                         ^^^^^^^^^^^^^^^^^^
  File "/Users/omerdayan/anaconda3/lib/python3.11/site-packages/fmriprep/workflows/base.py", line 80, in init_fmriprep_wf
    BIDSFreeSurferDir(
  File "/Users/omerdayan/anaconda3/lib/python3.11/site-packages/nipype/interfaces/base/core.py", line 563, in __init__
    super(SimpleInterface, self).__init__(
  File "/Users/omerdayan/anaconda3/lib/python3.11/site-packages/nipype/interfaces/base/core.py", line 202, in __init__
    self.inputs.trait_set(**inputs)
  File "/Users/omerdayan/anaconda3/lib/python3.11/site-packages/traits/has_traits.py", line 1520, in trait_set
    setattr(self, name, value)
  File "/Users/omerdayan/anaconda3/lib/python3.11/site-packages/nipype/interfaces/base/traits_extension.py", line 131, in validate
    self.error(objekt, name, str(value))
  File "/Users/omerdayan/anaconda3/lib/python3.11/site-packages/traits/base_trait_handler.py", line 74, in error
    raise TraitError(
traits.trait_errors.TraitError: The 'freesurfer_home' trait of a _BIDSFreeSurferDirInputSpec instance must be a pathlike object or string representing an existing directory, but a value of 'None' <class 'str'> was specified.

What command did you use?

fmriprep /Users/omerdayan/Downloads/fMRI /Users/omerdayan/Downloads/fMRI-Output participant --participant-label 08 --skip_bids_validation --fs-license-file ./Downloads/license.txt

What version of fMRIPrep are you running?

23.1.4

How are you running fMRIPrep?

Local installation ("bare-metal")

Is your data BIDS valid?

Yes

Are you reusing any previously computed results?

No

Please copy and paste any relevant log output.

No response

Additional information / screenshots

No response

[effigies]

Do you have FreeSurfer installed? Is FREESURFER_HOME defined in your environment?