External Email - Use Caution Hi Eugenio,
I have downloaded the most recent dev version ( freesurfer-darwin-OSX-ElCapitan-dev.tar.gz <ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev/freesurfer-darwin-OSX-ElCapitan-dev.tar.gz> ) from here ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/dev and I get the same error. My version of Mac is Mac OS High Sierra Version 10.13.3 *Fitting mesh to image data mask took 683.6633 secondsTransforming pointsTransforming pointsWrote image to file image.mgzINFO: dst volume info differs from the one stored in lta. gets modified now.volume geometry:extent : (691, 691, 473)voxel : ( 0.3333, 0.3333, 0.3333)x_(ras) : ( 0.0000, -1.0000, 0.0000)y_(ras) : (-0.0047, 0.0000, 1.0000)z_(ras) : ( 1.0000, 0.0000, 0.0047)c_(ras) : ( 4.2397, 13.6233, 12.2196)file : T2isotropic.mgzvolume geometry:extent : (640, 640, 225)voxel : ( 0.3594, 0.3594, 0.7000)x_(ras) : ( 0.0000, -1.0000, 0.0000)y_(ras) : (-0.0047, 0.0000, 1.0000)z_(ras) : ( 1.0000, 0.0000, 0.0047)c_(ras) : ( 4.2397, 13.6234, 12.2196)file : /Applications/freesurfer/subjects/5095/mri/orig/T2.niiConstructing image-to-world transform from header information (asmr1.mgz)Constructing image-to-world transform from header information (/Applications/freesurfer/subjects/5095/tmp/hippoSF_T2_v21_HIPO-AMI_left/imageDump.mgz)Wrote image to file asmr2.mgzThis file does not contain MRI parametersThis file does not contain MRI parametersIn an assignment A(:) = B, the number of elements in A and B must be the same.Error in segmentSubjectT2_autoEstimateAlveusML (line 2147)MATLAB:subsassignnumelmismatchDarwin rmnlab1.inv.usc.es <http://rmnlab1.inv.usc.es> 17.4.0 Darwin Kernel Version 17.4.0: Sun Dec 17 09:19:54 PST 2017; root:xnu-4570.41.2~1/RELEASE_X86_64 x86_64T2 hippocampal subfields exited with ERRORS at domingo, 16 de septiembre de 2018, 15:35:35 CESTFor more details, see the log file /Applications/freesurfer/subjects/5095/scripts/hippocampal-subfields-T2.HIPO-AMI.log* *What could be the problem?* *Thanks in advance, * *Best wishes, * El vie., 14 sept. 2018 a las 0:40, Iglesias Gonzalez, Eugenio (< e.igles...@ucl.ac.uk>) escribió: > External Email - Use Caution > > Hi Miguel Angel, > > This bug was recently fixed in the dev version. If you download the most > recent one, you won’t have this problem. > > 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 Miguel > Ángel Rivas Fernández <miguelrivasf...@gmail.com> > *Reply-To: *Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Date: *Thursday, 13 September 2018 at 21:12 > *To: *Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Subject: *[Freesurfer] Hippocampal-Amygdala subfields error > > > > * External Email - Use Caution * > > > > Hello Freesurfer devs, > > > > I ran the hippocampal and amygdala subfields command in my sample and I > get the following error in several subjects: > > > > > > > > > > > > > > > > > > *Constructing image-to-world transform from header information (asmr1.mgz) > Constructing image-to-world transform from header information > (/Applications/freesurfer/subjects/5232/tmp/hippoSF_T2_v21_HIPO-AMI_left/imageDump.mgz) > Wrote image to file asmr2.mgz This file does not contain MRI parameters > This file does not contain MRI parameters In an assignment A(:) = B, the > number of elements in A and B must be the same. Error in > segmentSubjectT2_autoEstimateAlveusML (line 2147)Constructing > image-to-world transform from header information (asmr1.mgz) Constructing > image-to-world transform from header information > (/Applications/freesurfer/subjects/5232/tmp/hippoSF_T2_v21_HIPO-AMI_left/imageDump.mgz) > Wrote image to file asmr2.mgz This file does not contain MRI parameters > This file does not contain MRI parameters In an assignment A(:) = B, the > number of elements in A and B must be the same. Error in > segmentSubjectT2_autoEstimateAlveusML (line 2147)* > > > > > > > *MATLAB:subsassignnumelmismatch Darwin rmnlab1.inv.usc.es > <http://rmnlab1.inv.usc.es> 17.4.0 Darwin Kernel Version 17.4.0: Sun Dec 17 > 09:19:54 PST 2017; root:xnu-4570.41.2~1/RELEASE_X86_64 x86_64 T2 > hippocampal subfields exited with ERRORS at jueves, 13 de septiembre de > 2018, 21:37:33 CEST* > > > > > > > > What would be the reason? > > > > > > Thanks in advance, > > > > > > Best wishes, > > > -- > > *Miguel Ángel Rivas Fernández* > _______________________________________________ > 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. > -- *Miguel Ángel Rivas Fernández*
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