Dear Varun,
it's difficult to say something because the original error message is not displayed because you have no writing permissions to save the "err" folder. Try to remove the "err" folder and run it again.
Just a guess about the error: do you have a non-T1 image?
Best,
Christian
On Thu, 18 Jul 2019 14:13:58 +0100, Varun Arunachalam Chandran <[log in to unmask]> wrote:
>Hi everyone,
>
>I'm facing an issue in performing cortical thickness analysis using CAT12. In the first step when I tried running the segmentation using the default pipeline, it is throwing off an error which is shown below. Could anyone please suggest me some solution? Any help on this would be very much appreciated.
>
> thanks,
>
>
>Print 'Graphics' figure to:
> /storage/shared/research/cinn/2009/emprew/Varun_ExploreDTI/Cortical_thickness_analysis_CAT_91subjs/report/catreport_Con_P001_T1.pdf
>Failed 'CAT12: Segmentation'
>Error using cat_check_system_output (line 27)
>ln: failed to create symbolic link ''/storage/shared/research/cinn/2009/emprew/Varun_ExploreDTI/Cortical_thickness_analysis_CAT_91subjs/err/cat_check_system_output.line27.CAT.system_error/Con_P001_T1.nii'': File exists
>
>In file "/storage/shared/research/cinn/2009/emprew/Varun_ExploreDTI/Softwares/spm12/toolbox/cat12/cat_check_system_output.m" (v1022), function "cat_check_system_output" at line 27.
>In file "/storage/shared/research/cinn/2009/emprew/Varun_ExploreDTI/Softwares/spm12/toolbox/cat12/cat_run_newcatch.m" (???), function "cat_run_newcatch" at line 97.
>In file "/storage/shared/research/cinn/2009/emprew/Varun_ExploreDTI/Softwares/spm12/toolbox/cat12/cat_run.m" (v1439), function "run_job" at line 720.
>In file "/storage/shared/research/cinn/2009/emprew/Varun_ExploreDTI/Softwares/spm12/toolbox/cat12/cat_run.m" (v1439), function "cat_run" at line 434.
>
>The following modules did not run:
>Failed: CAT12: Segmentation
>
>
>best regards,
>Varun
>PhD scholar in Neurosciences
>School of Psychology and Clinical Language Sciences
>University of Reading, Whiteknights campus,
>United Kingdom
>
>
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