When I run the Qsiprep application on the Apple M1 silicon processor, I get an error as follows. Is there any way to fix this?
This is the code I wrote:
sudo /Users/baris/.local/bin/qsiprep-docker /Users/baris/Documents/BIDSdeneme /Users/baris/Documents/BIDSdeneme/derivatives --output-resolution 1.2 --fs-license-file …/license.txt -w /Users/baris/Documents/BIDSdeneme/derivatives --use-syn-sdc --force-syn --denoise-method patch2self --unringing-method mrdegibbs --no-b0-harmonization --nthreads 60
211217-14:35:38,532 nipype.workflow INFO:
Running with omp_nthreads=8, nthreads=60
211217-14:35:38,537 nipype.workflow IMPORTANT:
Running qsiprep version 0.14.3:
* BIDS dataset path: /data.
* Participant list: ['01', '02'].
* Run identifier: 20211217-143535_a0035743-2b08-4128-a41c-eb531a7a3060.
211217-14:36:27,345 nipype.workflow INFO:
Combining all 1 dwis within the single available session
211217-14:36:27,402 nipype.workflow INFO:
[{‘dwi_series’: [’/data/sub-01/dwi/sub-01_dwi.nii.gz’], ‘fieldmap_info’: {‘suffix’: None}, ‘dwi_series_pedir’: ‘j’, ‘concatenated_bids_name’: ‘sub-01’}]
211217-14:36:34,951 nipype.workflow IMPORTANT:
Creating dwi processing workflow “dwi_preproc_wf” to produce output sub-01 (1.01 GB / 43 DWIs). Memory resampled/largemem=1.05/1.07 GB.
211217-14:37:12,983 nipype.workflow INFO:
Using 8 threads in eddy
211217-14:39:13,936 nipype.workflow INFO:
Combining all 1 dwis within the single available session
211217-14:39:13,984 nipype.workflow INFO:
[{‘dwi_series’: [’/data/sub-02/dwi/sub-02_dwi.nii.gz’], ‘fieldmap_info’: {‘suffix’: None}, ‘dwi_series_pedir’: ‘j’, ‘concatenated_bids_name’: ‘sub-02’}]
211217-14:39:21,591 nipype.workflow IMPORTANT:
Creating dwi processing workflow “dwi_preproc_wf” to produce output sub-02 (1.02 GB / 43 DWIs). Memory resampled/largemem=1.07/1.09 GB.
211217-14:39:59,418 nipype.workflow INFO:
Using 8 threads in eddy
qemu:handle_cpu_signal received signal outside vCPU context @ pc=0x451e76
Process Process-2:
Traceback (most recent call last):
File “/usr/local/miniconda/lib/python3.7/multiprocessing/process.py”, line 297, in _bootstrap
self.run()
File “/usr/local/miniconda/lib/python3.7/multiprocessing/process.py”, line 99, in run
self._target(*self._args, **self._kwargs)
File “/usr/local/miniconda/lib/python3.7/site-packages/qsiprep/cli/run.py”, line 972, in build_qsiprep_workflow
force_syn=opts.force_syn
File “”, line 2, in setitem
File “/usr/local/miniconda/lib/python3.7/multiprocessing/managers.py”, line 796, in _callmethod
kind, result = conn.recv()
File “/usr/local/miniconda/lib/python3.7/multiprocessing/connection.py”, line 250, in recv
buf = self._recv_bytes()
File “/usr/local/miniconda/lib/python3.7/multiprocessing/connection.py”, line 407, in _recv_bytes
buf = self._recv(4)
File “/usr/local/miniconda/lib/python3.7/multiprocessing/connection.py”, line 383, in _recv
raise EOFError
EOFError
qsiprep: Please report errors to https://github.com/pennbbl/qsiprep/issues
Thanks for your help.