Thank you! Best Idil ________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas Greve [dgr...@mgh.harvard.edu] Sent: Monday, March 19, 2018 6:25 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] isxconcat-sess error: trgsubject
isxconcat-sess assumes that you sampled all your subjects to the common surface (fsaverage). You will have to re-run selxavg3-sess using data on fsaverage. On 3/19/18 12:15 PM, Yagmur Ozdemir 19 wrote: Thank you for the help! root@ubuntu:~/local/freesurfer/Project_bold# mri_info --dim Sess01/bold/rtopyTR2.lh//mask.nii.gz 128461 1 1 1 root@ubuntu:~/local/freesurfer/Project_bold# mri_info --dim Sess02/bold/rtopyTR2.lh//mask.nii.gz 143033 1 1 1 root@ubuntu:~/local/freesurfer/Project_bold# mri_info --dim Sess03/bold/rtopyTR2.lh//mask.nii.gz 163154 1 1 1 root@ubuntu:~/local/freesurfer/Project_bold# mri_info --dim Sess04/bold/rtopyTR2.lh//mask.nii.gz 124330 1 1 1 root@ubuntu:~/local/freesurfer/Project_bold# mri_info --dim Sess07/bold/rtopyTR2.lh//mask.nii.gz 120332 1 1 1 root@ubuntu:~/local/freesurfer/Project_bold# mri_info --dim Sess08/bold/rtopyTR2.lh//mask.nii.gz 102780 1 1 1 root@ubuntu:~/local/freesurfer/Project_bold# mri_info --dim Sess09/bold/rtopyTR2.lh//mask.nii.gz 130063 1 1 1 root@ubuntu:~/local/freesurfer/Project_bold# mri_info --dim Sess10/bold/rtopyTR2.lh//mask.nii.gz 129873 1 1 1 ________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> [freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>] on behalf of Douglas Greve [dgr...@mgh.harvard.edu<mailto:dgr...@mgh.harvard.edu>] Sent: Monday, March 19, 2018 5:40 PM To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] isxconcat-sess error: trgsubject Can you run mri_info --dim Sess01/bold/rtopyTR2.lh//mask.nii.gz for each of your subjects and send us the result? On 3/19/18 7:52 AM, Yagmur Ozdemir 19 wrote: Hello Freesurfer developers, I am trying to concatenate session files of different subjects using isxconcat-sess. I am not really sure why " INFO:trgsubject is self, this will fail unless all sessions are the same subject" pops up as I understand this is what isxconcat-sess is meant to do, and I used --subject fsaverage in some tries. I am not sure if there is something I am doing wrong, or the problem is coming from the "//" in the output lines. When I took out either Sess01 and Sess02 from the list to be sure it wasn't a problem specific to it, I got the same error. Below is the error output. Best Idil INFO: trgsubject is self, this will fail unless all sessions are the same subject group/rtopyTR2.lh/log/isxconcat.log cd /home/vm01/local/freesurfer/Project_bold isxconcat0-sess -f sessid -m mask -o group/rtopyTR2.lh/masks.nii.gz -a rtopyTR2.lh ------------------------------------ /home/vm01/local/freesurfer/Project_bold mri_concat /home/vm01/local/freesurfer/Project_bold/Sess01/bold/rtopyTR2.lh//mask.nii.gz /home/vm01/local/freesurfer/Project_bold/Sess02/bold/rtopyTR2.lh//mask.nii.gz /home/vm01/local/freesurfer/Project_bold/Sess03/bold/rtopyTR2.lh//mask.nii.gz /home/vm01/local/freesurfer/Project_bold/Sess04/bold/rtopyTR2.lh//mask.nii.gz /home/vm01/local/freesurfer/Project_bold/Sess07/bold/rtopyTR2.lh//mask.nii.gz /home/vm01/local/freesurfer/Project_bold/Sess08/bold/rtopyTR2.lh//mask.nii.gz /home/vm01/local/freesurfer/Project_bold/Sess09/bold/rtopyTR2.lh//mask.nii.gz /home/vm01/local/freesurfer/Project_bold/Sess10/bold/rtopyTR2.lh//mask.nii.gz --o group/rtopyTR2.lh/masks.nii.gz ninputs = 8 Checking inputs ERROR: dimension mismatch between /home/vm01/local/freesurfer/Project_bold/Sess01/bold/rtopyTR2.lh//mask.nii.gz and /home/vm01/local/freesurfer/Project_bold/Sess02/bold/rtopyTR2.lh//mask.nii.gz _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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