wb_command
Fardin Samadi
Hi, I'm encountering an error while running the PostFreeSurferPipeline.sh step:
While running '/usr/local/HCPworkbench/bin_rh_linux64/../exe_rh_linux64/wb_command -volume-math (!Brainmask)*CIFTIStandardSpace /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis/sub_1066_20191221/MNINonLinear/ROIs/MissingGrayordinates.2.nii.gz -var Brainmask /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis/sub_1066_20191221/MNINonLinear/brainmask_fs.2.nii.gz -var CIFTIStandardSpace /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis/sub_1066_20191221/MNINonLinear/ROIs/Atlas_ROIs.2.nii.gz':
ERROR: error parsing expression '!Brainmask'
Wed Jul 3 11:33:38 PDT 2024:FreeSurfer2CaretConvertAndRegisterNonlinear.sh: While running '/ifshome/fsamadi/scripts/HCP_Pip/HCPpipelines/PostFreeSurfer/scripts/FreeSurfer2CaretConvertAndRegisterNonlinear.sh /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis sub_1066_20191221 /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis/sub_1066_20191221/T1w /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis/sub_1066_20191221/MNINonLinear Native /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis/sub_1066_20191221/T1w/sub_1066_20191221 T1w_acpc_dc_restore_1mm T1w_acpc_dc_restore T2w_acpc_dc_restore /ifshome/fsamadi/scripts/HCP_Pip/HCPpipelines/global/templates/standard_mesh_atlases 164 32 /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis/sub_1066_20191221/MNINonLinear/xfms/acpc_dc2standard /ifs/loni/faculty/farshid/img/shared.data/DABNI/Analysis/sub_1066_20191221/MNINonLinear/xfms/standard2acpc_dc T1w_restore T2w_restore brainmask_fs /ifshome/fsamadi/scripts/HCP_Pip/HCPpipelines/global/config/FreeSurferAllLut.txt /ifshome/fsamadi/scripts/HCP_Pip/HCPpipelines/global/templates/91282_Greyordinates 2 /ifshome/fsamadi/scripts/HCP_Pip/HCPpipelines/global/config/FreeSurferSubcorticalLabelTableLut.txt MSMSulc 1':
Wed Jul 3 11:33:38 PDT 2024:FreeSurfer2CaretConvertAndRegisterNonlinear.sh: ERROR: '/usr/local/HCPworkbench/bin_rh_linux64/wb_command' command failed with return code: 255
Glasser, Matthew
What version of Connectome Workbench are you running?
Thanks,
Matt.
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Fardin Samadi
Connectome Workbench
Version: 1.0
Qt Compiled Version: 4.8.4
Qt Runtime Version: 4.8.4
commit: dfd2086d37612ccf2369b85b5f5f0f5987369339
commit date: 2014-09-09 13:23:57 -0500
Compiler: g++44 (/usr/bin)
Compiler Version: 4.4.7
Compiled Debug: NO
Operating System: Linux
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Tim Coalson
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