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
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.
