Description:
I encountered an error when trying to process multi-run ICA-FIX. The error seems connected to how the temporal highpass value is passed as a parameter to the command, see error log below. Please advise. Thank you.
Estephan
Logs:
# Generated by QuNex 0.97.0 on 2023-03-14_12.29.39.223891
#
------------------------------------------------------------
Running external command via QuNex:
/opt/HCP/HCPpipelines/ICAFIX/hcp_fix_multi_run --fmri-names="/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/BOLD_1/BOLD_1@/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/BOLD_2/BOLD_2@/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/BOLD_3/BOLD_3@/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/BOLD_4/BOLD_4" --high-pass=0 --concat-fmri-name="/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/fMRI_CONCAT_ALL/fMRI_CONCAT_ALL" --motion-regression="FALSE" --training-file="HCP_Style_Single_Multirun_Dedrift.RData" --fix-threshold="10" --delete-intermediates="FALSE"
Test file:
/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/fMRI_CONCAT_ALL/fMRI_CONCAT_ALL_hp0_clean.nii.gz
------------------------------------------------------------
Tue Mar 14 12:29:39 CDT 2023:hcp_fix_multi_run: HCPPIPEDIR: /opt/HCP/HCPpipelines
Tue Mar 14 12:29:39 CDT 2023:hcp_fix_multi_run: CARET7DIR: /opt/workbench/workbench/bin_rh_linux64
Tue Mar 14 12:29:39 CDT 2023:hcp_fix_multi_run: FSLDIR: /opt/fsl/fsl
Tue Mar 14 12:29:39 CDT 2023:hcp_fix_multi_run: FSL_FIXDIR: /opt/fsl/fix
Tue Mar 14 12:29:39 CDT 2023:hcp_fix_multi_run: HCPCIFTIRWDIR: /opt/HCP/HCPpipelines/global/matlab/cifti-matlab
Tue Mar 14 12:29:39 CDT 2023:hcp_fix_multi_run: Showing HCP Pipelines version
v4.7.0
Tue Mar 14 12:29:45 CDT 2023:hcp_fix_multi_run: Showing Connectome Workbench (wb_command) version
Connectome Workbench
Type: Command Line Application
Version: 1.5.0
Qt Compiled Version: 5.7.0
Qt Runtime Version: 5.7.0
Commit: 76441605d20536d81034a64c9d34ec393aa528b9
Commit Date: 2021-02-16 13:46:47 -0600
Compiled with OpenMP: YES
Compiler: g++ (/export/gcc-4.8.5/bin)
Compiler Version: 4.8.5
Compiled Debug: NO
Operating System: Linux
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: Showing FSL version
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: INFO: Determined that the FSL version in use is 6.0.6.2
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: FSL version: 6.0.6.2
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: FIX version: 1.06.15
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: FSL_FIX_MATLAB_MODE: 0
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: While running '/opt/HCP/HCPpipelines/ICAFIX/hcp_fix_multi_run --fmri-names=/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/BOLD_1/BOLD_1@/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/BOLD_2/BOLD_2@/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/BOLD_3/BOLD_3@/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/BOLD_4/BOLD_4 --high-pass=0 --concat-fmri-name=/home/moanae/shared/project_K99_ChrTMDHCP_qunex02/sessions/10001/hcp/10001/MNINonLinear/Results/fMRI_CONCAT_ALL/fMRI_CONCAT_ALL --motion-regression=FALSE --training-file=HCP_Style_Single_Multirun_Dedrift.RData --fix-threshold=10 --delete-intermediates=FALSE':
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: ERROR: highpass value of --high-pass=0 is not valid
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: ERROR: highpass value of --high-pass=0 is not valid
Tue Mar 14 12:29:46 CDT 2023:hcp_fix_multi_run: ABORTING