Yes, I made sure I had permission to write into /tmp. 

On Wed, Feb 28, 2018 at 12:23 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:

do you have write permission to /tmp ?

On 02/27/2018 03:25 PM, Yash Patel wrote:
> Hello FreeSurfer experts,
>
> I am attempting to run "mri_segstats --annot [subjectid] lh aparc
> --sum [outputpath] --i [inputfile] --id 1001 --id 1002 ... --id 1035"
>
> Whenever I try, I receive the following error (in error.log file);
>
> CTABwriteFileASCII(/tmp/mri_segstats.tmp.brno/661A.long.024ns.lh.15.ctab):
> could not open for writing
> CTABreadASCII(/tmp/mri_segstats.tmp.brno/661A.long.024ns.lh.15.ctab):
> could not open file
>
>
> The output in the command prompt is below:
> cmdline mri_segstats --annot brno/661A.long.024ns lh aparc --i
> vol2surf/661A.v2s.0.5pf.mgh --sum stats/661A.05pf.sum --id 1001 --id
> 1002 --id 1003 --id 1005 --id 1006 --id 1007 --id 1008 --id 1009 --id
> 1010 --id 1011 --id 1012 --id 1013 --id 1014 --id 1015 --id 1016 --id
> 1017 --id 1018 --id 1019 --id 1020 --id 1021 --id 1022 --id 1023 --id
> 1024 --id 1025 --id 1026 --id 1027 --id 1028 --id 1029 --id 1030 --id
> 1031 --id 1032 --id 1033 --id 1034 --id 1035 --ctab-default
>
> sysname  Darwin
> hostname ypatel-BYOD.local
> machine  x86_64
> user     ypatel
> UseRobust  0
> Constructing seg from annotation
> Reading annotation
> /Users/ypatel/Documents/brno/661A.long.024ns/label/lh.aparc.annot
> reading colortable from annotation file...
> colortable with 36 entries read (originally
> /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
> Seg base 1000
> CTABwriteFileASCII(/tmp/mri_segstats.tmp.brno/661A.long.024ns.lh.15.ctab):
> could not open for writing
> No such file or directory
> CTABreadASCII(/tmp/mri_segstats.tmp.brno/661A.long.024ns.lh.15.ctab):
> could not open file
> No such file or directory
> ERROR: reading /tmp/mri_segstats.tmp.brno/661A.long.024ns.lh.15.ctab
>
>
> Interestingly, I ran the SAME code a few weeks ago, and everything
> worked fine. Somehow something has changed. I also made sure I have
> permission to /tmp
>
> Please let me know if you guys have a suggestion,
>
> Thank you
>
> Yash
>
>

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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

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