Hello,
I have troubles to run hcp_pre_freesurfer for my SIEMENS VERIO sessions. It works perfectly with SIEMENS PRISMA acquisitions.
Path to 1 of these sessions:
/gpfs/project/fas/n3/Studies/STIMZO/sessions/05025GA_J00
Command:
qunex_container hcp_pre_freesurfer \
--sessionids="05015PB_J00,05018GA_J00,05025GA_J00,05049LA_J00" \
--sessionsfolder="/gpfs/project/fas/n3/Studies/STIMZO/sessions" \
--sessions="/gpfs/project/fas/n3/Studies/STIMZO/processing/batch_tours.txt" \
--overwrite="yes" \
--container="$qunex_container" \
--scheduler="SLURM,time=1-00:00:00,ntasks=1,cpus-per-task=2,mem-per-cpu=8000,partition=pi_anticevic"
container = qunex_suite-0.93.6.sif
I also tried the command with qunexdev
—> same result
Output:
Path to comlogs: /gpfs/project/fas/n3/Studies/STIMZO/processing/logs/comlogs
The comlog indicates an error in T2wToT1wDistortionCorrectAndReg.sh
—> I checked the outputs of T2wToT1wDistortionCorrectAndReg.sh
: T1w_acpc_dc_brain and T1w_acpc_dc_brain (these sessions don’t have any T2). They both seem fine.
error_hcp_pre_freesurfer_05025GA_J00.log (18.3 KB)
Thanks!
Layla