Re: [HCP-Users] probtrackx2 surface tracking in matrix2 mode

[Glasser, Matthew]

That error suggests that that particular flag is not ready for surfaces yet and is looking for a NIFTI volume.  Do you have the latest version of FSL?  Perhaps Stam can comment on whether --target2 will be able to handle surfaces in the future. Peace, Matt. From: <hcp-users-boun...@humanconnectome.org> on behalf of Maarten Vaessen <m.vaes...@gmail.com> Date: Thursday, July 9, 2015 at 9:43 AM To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: [HCP-Users] probtrackx2 surface tracking in matrix2 mode Hello experts, I am trying track from a seed surface roi to all WM surface vertices using matrix2 mode in probtackx2 using data from the HCP. I have followed the guide on how to convert surfaces using the surf2surf command where necessary. However I get this error when running probtrackx2 Done loading samples. Image Exception : #22 :: ERROR: Could not open image ../fsaverage_LR32k/102816.L.white.32k_fs_LR.surf.gii terminate called after throwing an instance of 'RBD_COMMON::BaseException' Aborted I am not sure what is wrong, the file is definitely there. Moreover when I take this file as the seed (-x ../fsaverage_LR32k/102816.L.white.32k_fs_LR.surf.gii), there is no error when loading the seeds: Running in seedmask mode load seeds read gifti done. Here is the full command: probtrackx2 -x L.STS.fsl.gii --onewaycondition --omatrix2 --target2=../fsaverage_LR32k/102816.L.white.32k_fs_LR.surf.gii -P 50 --forcedir --dir=./test_surf_track_STS_Lwhite -s ../Diffusion.bedpostX/merged -m nodif_brain_mask.nii.gz  --seedref=nodif_brain_mask.nii.gz Thanks for the help! -Maarten _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users   The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users