You're trying to run commands that don't exist on standalone systems, or loading modules which don't exist on HPCs under the same name:
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%%bias field correction |
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unix('module load ants/1.9.v4; N4BiasFieldCorrection -i mag1_sos.nii -o mag1_sos_n4.nii'); |
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%%mask |
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%(1) brain mask |
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unix('module load fsl/5.0.9; bet2 mag1_sos_n4.nii BET -f 0.2 -m'); |
Please assume that the user has managed to setup their environment properly.
You're trying to run commands that don't exist on standalone systems, or loading modules which don't exist on HPCs under the same name:
QSMART/QSMART_toolbox_v1.0/brainmask.m
Lines 10 to 14 in e51526d
Please assume that the user has managed to setup their environment properly.