We get the following error on one subject when running mris_anatomical_stats. The same command workson other subjects who were generated the same way. Using freesurfer-Darwin-tiger-i686-stable-pub-v3.0.5, also tried freesurfer-Linux-rh9-stable-pub-v3.0.5. No heavy processes were running on the machine that would prevent memory allocation.
thanks, Rutvik
---------------------
% mris_anatomical_stats -a ep.1071/label/lh.aparc.annot -b -i 0.5 8 -f ep.1071.lh.stats ep.1071 lh
computing statistics for each annotation in ep.1071/label/lh.aparc.annot.
only considering thicknesses in the range [0.5,8.0].
reading volume /usr/home/possing/pub/Epilepsy/ep.1071/mri/wm.mgz...
Talairach transform /home/mgolovin/fs_subjects/ep.1071/mri/transforms/talairach.xfm does not exist ...
Loading tal xfm file /usr/home/possing/pub/Epilepsy/ep.1071/mri/transforms/talairach.xfm
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.white...
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.pial...
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.white...
done.
computing second fundamental form...reading colortable from annotation file...
CTABreadFrom: could not allocate -2 bin table
Cannot allocate memory
Segmentation fault (core dumped)
sounds like the annotation file is corrupted. Can you load it in tksurfer? On Fri, 14 Aug 2009, Rutvik Desai wrote:
We get the following error on one subject when running mris_anatomical_stats. The same command workson other subjects who were generated the same way. Using freesurfer-Darwin-tiger-i686-stable-pub-v3.0.5, also tried freesurfer-Linux-rh9-stable-pub-v3.0.5. No heavy processes were running on the machine that would prevent memory allocation.
thanks, Rutvik
% mris_anatomical_stats -a ep.1071/label/lh.aparc.annot -b -i 0.5 8 -f ep.1071.lh.stats ep.1071 lh
computing statistics for each annotation in ep.1071/label/lh.aparc.annot.
only considering thicknesses in the range [0.5,8.0].
reading volume /usr/home/possing/pub/Epilepsy/ep.1071/mri/wm.mgz...
Talairach transform /home/mgolovin/fs_subjects/ep.1071/mri/transforms/talairach.xfm does not exist ...
Loading tal xfm file /usr/home/possing/pub/Epilepsy/ep.1071/mri/transforms/talairach.xfm
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.white...
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.pial...
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.white...
done.
computing second fundamental form...reading colortable from annotation file...
CTABreadFrom: could not allocate -2 bin table
Cannot allocate memory
Segmentation fault (core dumped)
I get the same error when trying to load it in tksurfer.
----- reading colortable from annotation file... CTABreadFrom: could not allocate -2 bin table Cannot allocate memory Bus error -----
On Aug 14, 2009, at 4:31 PM, Bruce Fischl wrote:
sounds like the annotation file is corrupted. Can you load it in tksurfer? On Fri, 14 Aug 2009, Rutvik Desai wrote:
We get the following error on one subject when running mris_anatomical_stats. The same command workson other subjects who were generated the same way. Using freesurfer-Darwin-tiger-i686-stable-pub-v3.0.5, also tried freesurfer-Linux-rh9-stable-pub-v3.0.5. No heavy processes were running on the machine that would prevent memory allocation.
thanks, Rutvik
% mris_anatomical_stats -a ep.1071/label/lh.aparc.annot -b -i 0.5 8 -f ep.1071.lh.stats ep.1071 lh
computing statistics for each annotation in ep.1071/label/ lh.aparc.annot.
only considering thicknesses in the range [0.5,8.0].
reading volume /usr/home/possing/pub/Epilepsy/ep.1071/mri/wm.mgz...
Talairach transform /home/mgolovin/fs_subjects/ep.1071/mri/transforms/talairach.xfm does not exist ...
Loading tal xfm file /usr/home/possing/pub/Epilepsy/ep.1071/mri/transforms/talairach.xfm
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.white...
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/ lh.pial...
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.white...
done.
computing second fundamental form...reading colortable from annotation file...
CTABreadFrom: could not allocate -2 bin table
Cannot allocate memory
Segmentation fault (core dumped)
try recreating it (maybe you ran out of disk space?) On Fri, 14 Aug 2009, Rutvik Desai wrote:
I get the same error when trying to load it in tksurfer.
reading colortable from annotation file... CTABreadFrom: could not allocate -2 bin table Cannot allocate memory Bus error
On Aug 14, 2009, at 4:31 PM, Bruce Fischl wrote:
sounds like the annotation file is corrupted. Can you load it in tksurfer? On Fri, 14 Aug 2009, Rutvik Desai wrote:
We get the following error on one subject when running mris_anatomical_stats. The same command workson other subjects who were generated the same way. Using freesurfer-Darwin-tiger-i686-stable-pub-v3.0.5, also tried freesurfer-Linux-rh9-stable-pub-v3.0.5. No heavy processes were running on the machine that would prevent memory allocation.
thanks, Rutvik
% mris_anatomical_stats -a ep.1071/label/lh.aparc.annot -b -i 0.5 8 -f ep.1071.lh.stats ep.1071 lh
computing statistics for each annotation in ep.1071/label/lh.aparc.annot.
only considering thicknesses in the range [0.5,8.0].
reading volume /usr/home/possing/pub/Epilepsy/ep.1071/mri/wm.mgz...
Talairach transform /home/mgolovin/fs_subjects/ep.1071/mri/transforms/talairach.xfm does not exist ...
Loading tal xfm file /usr/home/possing/pub/Epilepsy/ep.1071/mri/transforms/talairach.xfm
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.white...
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/ lh.pial...
reading input surface /usr/home/possing/pub/Epilepsy/ep.1071/surf/lh.white...
done.
computing second fundamental form...reading colortable from annotation file...
CTABreadFrom: could not allocate -2 bin table
Cannot allocate memory
Segmentation fault (core dumped)
freesurfer@nmr.mgh.harvard.edu