External Email - Use Caution Dear Anastasia I am running tracula on FreeSurfer 7.2. It worked fine on a linux computer now I am changing to a Cloud workstation. Attached is my Configuration file. For this person the pipeline worked without errors until path reconstruction but exists saying the following I have checked my bvecs and bvals in the subjects directory and also in dmri Any suggestion for me to try would be great-thanks so much! I tried to attach the trac-all log file but then the email is too big to be posted. Oshadi
Loading DWIs from /gs/gsfs0/users/helena_blumen_lab/TRACULA//30018/dmri/data.nii.gz Loading mask from /gs/gsfs0/users/helena_blumen_lab/TRACULA//30018/dlabel/diff/aparc+aseg_mask.bbr.nii.gz Loading BEDPOST parameter samples from /gs/gsfs0/users/helena_blumen_lab/TRACULA//30018/dmri.bedpostX Killed Linux sjayakody 4.18.0-348.el8.x86_64 #1 SMP Mon Oct 4 12:17:22 EDT 2021 x86_64 x86_64 x86_64 GNU/Linux
setenv SUBJECTS_DIR /gs/gsfs0/users/helena_blumen_lab/TRACULA/ set dtroot = /gs/gsfs0/users/helena_blumen_lab/TRACULA/ set subjlist = 30018 set runlist = 1 set dcmroot = /gs/gsfs0/users/helena_blumen_lab/TRACULA/ set dcmlist = 30018/30018_WIP_110_DTI66d_2mm_SF3_SENSE_20190520152420_1201.nii set bvecfile = 30018/bvecs.txt set bvalfile = 30018/bvals.txt set dob0 = 0 set doeddy = 0 set intrareg = 3 set intradof = 9 set intrarot = 90 set interreg = 5 set intertrg = /public/apps/freesurfer/7.2.0/trctrain/hcp/MGH35_HCP_FA_template.nii.gz set segname = aparc+aseg set usethalnuc = 0 set usemaskanat = 1 set thrbet = 0.3 set trainfile = /public/apps/freesurfer/7.2.0/trctrain/hcp/trainlist.txt set nstick = 2 set nburnin = 200 set nsample = 7500 set nkeep = 5 set reinit = 0
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