Hi all,
When running create_study I’m getting a Python OSError and I’m not sure where to go from here. I’ll paste the error below. Thanks for any help!
qunex_container create_study --studyfolder=/autofs/cluster/bang/TAW_New/fMRI_processing/qunex --container=/autofs/space/nihilus_001/users/john/bin/qunex/qunex_suite-0.91.11.sif
→ QuNex will utilize:
Scheduled jobs: 1
qunex :–> unsetting all environment variables: PATH MATLABPATH PYTHONPATH QUNEXVer TOOLS QUNEXREPO QUNEXPATH QUNEXLIBRARY QUNEXLIBRARYETC TemplateFolder FSL_FIXDIR FREESURFERDIR FREESURFER_HOME FREESURFER_SCHEDULER FreeSurferSchedulerDIR WORKBENCHDIR DCMNIIDIR DICMNIIDIR MATLABDIR MATLABBINDIR OCTAVEDIR OCTAVEPKGDIR OCTAVEBINDIR RDIR HCPWBDIR AFNIDIR PYLIBDIR FSLDIR FSLGPUDIR PALMDIR QUNEXMCOMMAND HCPPIPEDIR CARET7DIR GRADUNWARPDIR HCPPIPEDIR_Templates HCPPIPEDIR_Bin HCPPIPEDIR_Config HCPPIPEDIR_PreFS HCPPIPEDIR_FS HCPPIPEDIR_PostFS HCPPIPEDIR_fMRISurf HCPPIPEDIR_fMRIVol HCPPIPEDIR_tfMRI HCPPIPEDIR_dMRI HCPPIPEDIR_dMRITract HCPPIPEDIR_Global HCPPIPEDIR_tfMRIAnalysis MSMBin HCPPIPEDIR_dMRITractFull HCPPIPEDIR_dMRILegacy AutoPtxFolder FSLGPUScripts FSLGPUBinary EDDYCUDADIR USEOCTAVE QUNEXENV CONDADIR MSMBINDIR MSMCONFIGDIR R_LIBS FSL_FIX_CIFTIRW
Generated by QuNex
Version: 0.91.11
User: jj1006
System: erso.nmr.mgh.harvard.edu
OS: RedHat Linux #1 SMP Tue Jun 8 00:24:50 UTC 2021
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DEVELOPED & MAINTAINED BY:
Anticevic Lab, Yale University
Mind & Brain Lab, University of Ljubljana
Murray Lab, Yale University
COPYRIGHT & LICENSE NOTICE:
Use of this software is subject to the terms and conditions defined in
‘LICENSE.md’ which is a part of the QuNex Suite source code package:
https://bitbucket.org/oriadev/qunex/src/master/LICENSE.md
—> Setting up Octave
… Running QuNex v0.91.11 …
==> Note: is part of the QuNex MATLAB.
— Full QuNex call for command: create_study
gmri create_study --studyfolder="/autofs/cluster/bang/TAW_New/fMRI_processing/qunex"
--------------------==== QuNex failed! ====--------------------
ERROR: Execution of command create_study
failed!
Please check documentation for the command (qunex ?create_study
)!
The call received was:
(please note that when run through scheduler, all possible parameters,
even non relevant ones are passed)
qunex create_study
–studyfolder=/autofs/cluster/bang/TAW_New/fMRI_processing/qunex
Here’s the error as caught by python:
Traceback (most recent call last):
File “/opt/qunex/python/qx_utilities/gmri”, line 502, in
main()
File “/opt/qunex/python/qx_utilities/gmri”, line 470, in main
runCommand(comm, opts)
File “/opt/qunex/python/qx_utilities/gmri”, line 314, in runCommand
_, result, _, _ = gc.runWithLog(gcom.commands[command][‘com’], args=args, logfile=logfile)
File “/opt/qunex/python/qx_utilities/general/core.py”, line 504, in runWithLog
os.makedirs(logfolder)
File “/opt/env/qunex/lib/python3.7/os.py”, line 213, in makedirs
makedirs(head, exist_ok=exist_ok)
File “/opt/env/qunex/lib/python3.7/os.py”, line 213, in makedirs
makedirs(head, exist_ok=exist_ok)
File “/opt/env/qunex/lib/python3.7/os.py”, line 213, in makedirs
makedirs(head, exist_ok=exist_ok)
[Previous line repeated 5 more times]
File “/opt/env/qunex/lib/python3.7/os.py”, line 223, in makedirs
mkdir(name, mode)
OSError: [Errno 30] Read-only file system: ‘/autofs’