Hi everyone,
I am very new using fmriprep and the different kind of errors that are generated seems very obscure to me…
So, maybe someone can help me on this one. After processing one subject for few hours (without recon-all and multislicing), here are the lines generated. I understand that something goes wrong with a file name or a path?? I don’t know…
Thank you very much,
Mathieu
[Node] Finished “fmriprep_wf.single_subject_02_wf.func_preproc_task_actobs_run_03_wf.bold_mni_trans_wf.mask_mni_tfm”.180915-20:15:06,536 nipype.workflow INFO:
[Node] Setting-up “fmriprep_wf.single_subject_02_wf.func_preproc_task_actobs_run_03_wf.bold_mni_trans_wf.bold_to_mni_transform” in “/tmp/work/fmriprep_wf/single_subject_02_wf/func_preproc_task_actobs_run_03_wf/bold_mni_trans_wf/bold_to_mni_transform”.
180915-20:15:06,546 nipype.workflow INFO:
[Node] Running “bold_to_mni_transform” (“fmriprep.interfaces.itk.MultiApplyTransforms”)
180916-16:19:59,986 nipype.workflow INFO:
[Node] Finished “fmriprep_wf.single_subject_02_wf.func_preproc_task_actobs_run_04_wf.bold_mni_trans_wf.bold_to_mni_transform”.
Process Process-4:
Traceback (most recent call last):
File “/usr/local/miniconda/lib/python3.6/multiprocessing/process.py”, line 258, in _bootstrap
self.run()
File “/usr/local/miniconda/lib/python3.6/multiprocessing/process.py”, line 93, in run
self._target(*self._args, **self._kwargs)
File “/usr/local/miniconda/lib/python3.6/concurrent/futures/process.py”, line 169, in _process_worker
call_item = call_queue.get(block=True)
File “/usr/local/miniconda/lib/python3.6/multiprocessing/queues.py”, line 113, in get
return _ForkingPickler.loads(res)
File “/usr/local/miniconda/lib/python3.6/site-packages/traits/has_traits.py”, line 1440, in setstate
self.trait_set( trait_change_notify = trait_change_notify, **state )
File “/usr/local/miniconda/lib/python3.6/site-packages/traits/has_traits.py”, line 1543, in trait_set
setattr( self, name, value )
File “/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/traits_extension.py”, line 112, in validate
self.info_text, value))
traits.trait_errors.TraitError: The trait ‘header_source’ of a MergeInputSpec instance is an existing file name, but the path ‘’ does not exist.
exception calling callback for <Future at 0x7fdb88b81ef0 state=finished raised BrokenProcessPool>
Traceback (most recent call last):
File “/usr/local/miniconda/lib/python3.6/concurrent/futures/_base.py”, line 324, in _invoke_callbacks
callback(self)
File “/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/multiproc.py”, line 143, in _async_callback
result = args.result()
File “/usr/local/miniconda/lib/python3.6/concurrent/futures/_base.py”, line 425, in result
return self.__get_result()
File “/usr/local/miniconda/lib/python3.6/concurrent/futures/_base.py”, line 384, in __get_result
raise self._exception
concurrent.futures.process.BrokenProcessPool: A process in the process pool was terminated abruptly while the future was running or pending.
exception calling callback for <Future at 0x7fdb88ca7da0 state=finished raised BrokenProcessPool>
Traceback (most recent call last):
File “/usr/local/miniconda/lib/python3.6/concurrent/futures/_base.py”, line 324, in _invoke_callbacks
callback(self)
File “/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/multiproc.py”, line 143, in _async_callback
result = args.result()
File “/usr/local/miniconda/lib/python3.6/concurrent/futures/_base.py”, line 425, in result
return self.__get_result()
File “/usr/local/miniconda/lib/python3.6/concurrent/futures/_base.py”, line 384, in __get_result
raise self._exception
concurrent.futures.process.BrokenProcessPool: A process in the process pool was terminated abruptly while the future was running or pending.