External Email - Use Caution
Hi, I'm also having a problem with the snapshots coming out black on CentOS 7 (but not CentOS 6). I'm using a slightly modified version of the first tcl script located on this page: http://surfer.nmr.mgh.harvard.edu/fswiki/QaImageScripts, and the following command:
tkmedit $subject brainmask.mgz -tcl tkmedit_snapshots.tcl
Using the script on two different CentOS7 systems results in black snapshots when running with either Freesurfer 5.3 on a Freesurfer 5.3 result, or with Freesurfer 6 on a Freesurfer 6 result. I've tried using SaveRGB and SaveTIFF in the tcl script but get blank black snapshots both ways. Snapshots come out normally on a CentOS 6 system, for Freesurfer 5.3 and 6. Does anyone know what might be causing this, or any potential workarounds?
Thanks,
Sarah
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Ehsan Adeli eadeli@gmail.com Sent: Thursday, July 26, 2018 7:38 PM To: freesurfer@nmr.mgh.harvard.edu Cc: Kilian Pohl Subject: [Freesurfer] QAtools tkmedit snapshots are black
External Email - Use Caution
Hello,
I tried to create snapshots with tkmedit, but the output snapshot files are all black. This is the command:
export SUBJECTS_DIR=./ tkmedit blubber norm.mgz
tkmedit shows the image correctly, but when taking a snapshot it is all black. No error messages are displayed. I was wondering if anybody else had a similar issue and if there is any solutions to that.
Thank you very much, in advance.
Sincerely, Ehsan Adeli, Ph.D., Stanford University
________________________________ 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.