sorry, it's a little finicky, I think it is looking for a %03d format, meaning I.001 for slices numbers less than 1000, and I.1001 for greater
Chris Watson wrote: > I renamed them all to "I.1, I.2, ..., I.8000" (there are 8000 images > total), and I got the same error messages. (With the "-it ge" option, > it is still looking for the old filename, it seems) > > [matl...@occipital new_func]$ mri_convert I.1 -it lx -ot spm "image" > mri_convert I.1 -it lx -ot spm image > $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ > reading from I.1... > genesisRead(): can't determine file name format for > /raid2/fmri5/LDProj/BOSEN/functional/new_func/I.1 > > [matl...@occipital new_func]$ mri_convert I.1 -it ge -ot spm "image" > mri_convert I.1 -it ge -ot spm image > $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ > reading from I.1... > fname_format : /raid2/fmri5/LDProj/BOSEN/functional/new_func/I.%03d > genesisRead(): error opening file > /raid2/fmri5/LDProj/BOSEN/functional/new_func/I.001 > > [matl...@occipital new_func]$ mri_convert I.1 -it dicom -ot spm "image" > mri_convert I.1 -it dicom -ot spm image > $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ > reading from I.1... > Starting DICOMRead2() > dcmfile = /raid2/fmri5/LDProj/BOSEN/functional/new_func/I.1 > dcmdir = /raid2/fmri5/LDProj/BOSEN/functional/new_func > ERROR: /raid2/fmri5/LDProj/BOSEN/functional/new_func/I.1 is not a > dicom file > > > > Douglas N Greve wrote: >> can you rename your files to remove the .s01? >> >> Chris Watson wrote: >> >>> Hello, >>> I'm trying to use mri_convert to convert old (~1999) functional data >>> that was acquired on a GE LX scanner. However, nothing seems to >>> work. I'm running version 4.4.0 on RHEL4 x86_64. Here's my command >>> line: (results are similar if I omit the -in_type flag) >>> >>> [matl...@occipital functional]$ mri_convert I.001.s01 -it lx -ot spm >>> "image" >>> mri_convert I.001.s01 -it lx -ot spm image >>> $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ >>> reading from I.001.s01... >>> genesisRead(): can't determine file name format for >>> /raid2/fmri5/LDProj/BOSEN/functional/I.001.s01 >>> >>> [matl...@occipital functional]$ mri_convert I.001.s01 -it ge -ot spm >>> "image" >>> mri_convert I.001.s01 -it ge -ot spm image >>> $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ >>> reading from I.001.s01... >>> fname_format : /raid2/fmri5/LDProj/BOSEN/functional/I.%03d >>> genesisRead(): error opening file >>> /raid2/fmri5/LDProj/BOSEN/functional/I.001 >>> >>> [matl...@occipital functional]$ mri_convert I.001.s01 -it dicom -ot >>> spm "image" >>> mri_convert I.001.s01 -it dicom -ot spm image >>> $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ >>> reading from I.001.s01... >>> Starting DICOMRead2() >>> dcmfile = /raid2/fmri5/LDProj/BOSEN/functional/I.001.s01 >>> dcmdir = /raid2/fmri5/LDProj/BOSEN/functional >>> ERROR: /raid2/fmri5/LDProj/BOSEN/functional/I.001.s01 is not a dicom >>> file >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >>> >> >> > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
