Hi, I am new to Neurodebian (running version 6.0.6 on a virtual machine on Windows 8). I am using fslvbm, but having trouble with the second stage (fslvbm_2_template).
I have my original T1 images (nii.gz) and template_list file in the parent folder (which is called "LH_Controls"), and have performed BET successfully (which gives *struc.nii.gz and *struc_brain.nii.gz files in the "struc" directory). When I performed the fslvbm_2_template -n command, I initially got a qsub error, so installed condor (latest version on Neurodebian website) for parallel processing. Now I get a new error message: "ERROR: No such directory: /media/sf_MRI/LH_Controls/struc Running segmentation: ID=failed JOBSTATUS: COMPLETED Running initial registration: ID=dependency JOBSTATUS: COMPLETED Creating first-pass template: ID=dependency JOBSTATUS: COMPLETED Running registration to first-pass template: ID=dependency JOBSTATUS: COMPLETED Creating second-pass template: ID=dependency Study-specific template will be created, when complete, check results with: fslview struc/template_4D_GM and turn on the movie loop to check all subjects, then run: fslview /usr/share/fsl/5.0/data/standard/tissuepriors/avg152T1_gray struc/template_GM to check general alignment of mean GM template vs. original standard space template." Has anyone else experienced this problem? Thanks heaps Matt
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