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Hi John, I thought so too, but after manually reorienting the T1 to the MNI template I get the same error and I have no clue what the problem is. Do you or others maybe have any other ideas how to find the cause of the problem? I attached a link to download the data (original, not reoriented by me). The subject is from the Bangor dataset of the 100 fcp, see: https://www.nitrc.org/frs/shownotes.php?release_id=820. here is the link: https://www.dropbox.com/s/mxsnh0fvj971f9r/sub87568_copy.zip?dl=0 greetings David 2017-03-23 11:01 GMT+01:00 John Ashburner <[log in to unmask]>: > As usual, my best guess is that the positioning information in the image > header is corrupt. I'd suggest trying a CheckReg between your image and > the MNI-space templates released with SPM. If the images are not within > about 4cm and 15 degrees of each other, you should adjust the positioning > information in the image header. > > Best regards, > -John > > > On 22 March 2017 at 16:57, David Hofmann <[log in to unmask]> wrote: > >> Hi, >> >> I get the following error during segmentation and I'm not sure what the >> problem is. It seems the input to the SVD consists only of NaNs: >> >> >>> >>> SPM12: spm_preproc_run (v6365) 23:42:13 - 21/03/2017 >>> ======================================================================== >>> Segment X:\sub87568\mprage_skullstripped.nii >>> Warning: Matrix is singular to working precision. >>> > In spm_get_closest_affine at 61 >>> In spm_preproc_write8 at 337 >>> In spm_preproc_run>run_job at 146 >>> In spm_preproc_run at 41 >>> In spm_cfg_preproc8>spm_local_preproc_run at 418 >>> In matlabbatch\private\cfg_run_cm at 29 >>> In cfg_util>local_runcj at 1688 >>> In cfg_util at 959 >>> In spm_jobman>fill_run_job at 458 >>> In spm_jobman at 247 >>> >> >> >>> Failed 'Segment' >>> Error using svd >>> Input to SVD must not contain NaN or Inf. >>> In file "..\spm12\spm_get_closest_affine.m" (v6137), function >>> "spm_get_closest_affine" at line 68. >>> In file "\spm12\spm_preproc_write8.m" (v6881), function >>> "spm_preproc_write8" at line 337. >>> In file "\spm12\spm_preproc_run.m" (v6365), function "run_job" at line >>> 146. >>> In file "\spm12\spm_preproc_run.m" (v6365), function "spm_preproc_run" >>> at line 41. >>> In file "\spm12\spm12\config\spm_cfg_preproc8.m" (v6798), function >>> "spm_local_preproc_run" at line 418. >>> >> >> Additionally, there is a warning during coregistration which might be >> related to this: >> >> >>> SPM12: spm_coreg (v6435) 23:29:07 - 21/03/2017 >>> ======================================================================== >>> Warning: Too many optimisation iterations >>> > In spm_powell at 46 >>> In spm_coreg at 149 >>> In spm_run_coreg at 22 >>> In matlabbatch\private\cfg_run_cm at 29 >>> In cfg_util>local_runcj at 1688 >>> In cfg_util at 959 >>> In spm_jobman>fill_run_job at 458 >>> In spm_jobman at 247 >> >> >> Does anybody have an idea what went wrong and how to fix it? >> >> greetings >> >> David >> >> >