Hi Cristian,

The below error message indicates that your morph cannot be read. How much memeory do you have on the machine where you are running this operation?

Lilla

On Fri, 10 Feb 2017, Donos, Cristian wrote:

Hi,

I have registered a patient’s MRI over the ColinN27 with mri_cvs_register and now i need convert an electrode (or voxel) coordinate from the subject’s space to the N27 space. I found an old post in the mailing list, but it did not work for me. The coords.txt file is just one line containing 10 10 10.  What am i doing wrong?

http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg39971.html

Here are the commands i used and the results :

...

createMorph --out fullCSVmorph.tm3d --template /Volumes/Sector2/surfaces/TandonLang/TT_N27/mri/orig.mgz --subject /Volumes/Sector2/surfaces/TandonLang/TS076CD/mri/orig.mgz --in gcam /Volumes/Sector2/surfaces/TandonLang/TS076CD/TS076CD/csv/combined_toColin27_elreg_aseg.m3z

atlas geometry = 256 , 256 , 256  image geometry = 256 , 256 , 256  vox 2 ras atlas =  -1.000   0.000   0.000   127.000;  0.000   0.000   1.000  -111.000;  0.000  -1.000   0.000   147.000;  0.000   0.000   0.000   1.000;  ras 2 vox image =  -1.000   0.000   0.000   128.000; -0.000  -0.000  -1.000   138.000; -0.000   1.000  -0.000   143.000;  0.000   0.000   0.000   1.000;  product =   1.000   0.000   0.000   1.000;  0.000   1.000   0.000  -9.000;  0.000   0.000   1.000   32.000;  0.000   0.000   0.000   1.000;

transform at origin  1.000; -9.000;  32.000;  1.000;  invalid voxel count = 9071323  saveTransform code  writing transform size = 49918625  writing morph to file fullCSVmorph.tm3d

...

applyMorph --template /Volumes/Sector2/surfaces/TandonLang/TT_N27/mri/orig.mgz --transform fullCVSmorph.tm3d point_list coords.txt transformed_coords.txt linear

Template name:/Volumes/Sector2/surfaces/TandonLang/TT_N27/mri/orig.mgz After loading template Template name:/Volumes/Sector2/surfaces/TandonLang/TT_N27/mri/orig.mgz After loading template  extension = tm3d  Exception caught while loading transform VolumeMorph load - failed to open input stream

Thank you,

Cristian Donos, PhD  Postdoctoral Research Fellow, Department of Neurosurgery                6431 Fannin Street | Suite G.550D | Houston, Texas 77030 Phone: 979-633-9208 Email:  cristian.donos@uth.tmc.edu