External Email - Use Caution I have tried this for two subjects and got the same error.
Thanks, Pradeep On Thu, Oct 4, 2018 at 11:14 AM Iglesias Gonzalez, Eugenio < e.igles...@ucl.ac.uk> wrote: > External Email - Use Caution > > Dear Pradeep, > > Did you get this error on several subjects, or only one? > > Cheers, > > /Eugenio > > > > -- > > Juan Eugenio Iglesias > > ERC Senior Research Fellow > > Centre for Medical Image Computing (CMIC) > > University College London > > http://www.jeiglesias.com > > http://cmictig.cs.ucl.ac.uk/ > > > > > > *From: *<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Pradeep < > tprad...@gmail.com> > *Reply-To: *Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Date: *Thursday, 4 October 2018 at 19:12 > *To: *Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Subject: *[Freesurfer] Hippocampal segmentation with an additional scan > ERROR kvlGEMSMatlab > > > > * External Email - Use Caution * > > Hello, > > > > I am trying to run the hippocampal segmentation with an additional Hi-res > scan using the following command > > recon-all -s <subject_name> -hippocampal-subfields-T2 <file name of > additional scan> <analysisID> > > and got the following error > > > > > > Error using kvlGEMSMatlab > > > /autofs/cluster/koen/eugenio/InsightToolkit-4.9.1/Modules/Core/Common/include/itkImageConstIterator.h:211: > > itk::ERROR: Region ImageRegion (0x7f67011c5dd0) > > Dimension: 3 > > Index: [0, 845, 0] > > Size: [105, 18446744073709550952, 20] > > is outside of buffered region ImageRegion (0x7f6573ca8bb8) > > Dimension: 3 > > Index: [0, 0, 0] > > Size: [526, 181, 526] > > > > Error in kvlReadCroppedImage (line 11) > > Error in segmentSubjectT2_autoEstimateAlveusML (line 838) > > Started at Thu Oct 4 09:35:38 MST 2018 > > Ended at Thu Oct 4 09:57:35 MST 2018 > > #@#%# recon-all-run-time-hours 0.366 > > recon-all -s subject_id finished without error at Thu Oct 4 09:57:36 MST > 2018 > > done > > > > > > I came across a similar error in the forums and using the most recent > version seem to have worked for some, but it did not help in my case. > > > > Freesurfer version I am using > > Subject Stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.1-f53a55a > > Current Stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.1-f53a55a > > > > with matlab run time from 2012b as suggested > > I have also tried to use 2014b runtime which exited right away. > > > > Thank you for your help, > > Pradeep > > > > > > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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