Hi James, Freeview has a "Write Movie Frames" option which will grab multiple screenshots throughout a volume. I recently requested a commandline option for this. I've run into the "no X11 on cluster" limitation as well, and I don't have a work-around at this point.
The snapshot-to-html script is roughly implemented in the set of QATools scripts using tkmedit. I have an alternate version which gets snaps with freeview, but it runs faster with tkmedit at this point. https://surfer.nmr.mgh.harvard.edu/fswiki/QATools -Louis
On Mon, 23 Jun 2014, Bruce Fischl wrote:
Hi James
Ruopeng is traveling and may not answer quickly, although Louis might be able to help Bruce On Mon, 23 Jun 2014, james pardon wrote:
Sorry if you are receiving this for the second time , not really sure if this went through the first time I sent the email:
Dear all, I'm looking for a way to automate surface on volume visualization, to check if the surface reconstruction have been successful on a very large number of subjects. Normally, I would use freeview with -f and -v flags to check and see if it is necessary to edit controls points, etc.
As an example, one option to automate this process is to use freeview snapshot option and write a script that runs on several hundred subjects and then show all the resulting images in html format. Running freeview with snapshot option works really good, however, since every freeview run needs X11 there is an overhead here, especially when I'm running on a remote cluster with no X11, which makes running X11 almost impossible.
I'm wondering whether any one has a better idea for this?
Thanks James