Hi FreeSurfers,

I am very new to FreeSurfer and I'm having some issues uploading my first subject. I have a subject folder with 160 .dcm files and FreeSurfer cannot find the files.

Here is the script I used:

recon-all -s 0000142 \ -i $SUBJECTS_DIR/0000142/000001.dcm

I even tried to type out the full path instead of using $SUBJECTS_DIR variable and cd to where the files are stored and it still didn't work.

Here is my output:

ERROR: cannot find /home/mclem/freesurfer/testsubjects/0000142/000001.dcm
Linux ubuntu 3.13.0-24-generic #46-Ubuntu SMP Thu Apr 10 19:11:08 UTC 2014 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s 0000142 exited with ERRORS at Fri Jul 11 15:27:34 CDT 2014

Any thoughts on what I'm doing wrong?


Thanks,