Yes. When I convert to BRIK and open with AFNI, the images show up fine in all three planes.
There is some noise towards the very end but it only shows up after the slices with no brain tissue (or any that I can see). Anil. On 2/8/07, Bruce Fischl <[EMAIL PROTECTED]> wrote:
if you convert it to BRIK and visualize it does it look correct? On Thu, 8 Feb 2007, Anil Roy wrote: > Hello all, > > I have some raw data and I'm not sure of the format. Its definitely not > dicom. I ran recon-all on these files but I get an error saying it can't > read the files. I have posted the output below. I tried to convert the files > to afni format (BRIK + HEAD), and tried recon-all again. It ran for a while > but gave an error that I've attached to a text file. > > Can someone please tell me how I can get Freesurfer to read these files. I > can also upload the raw files if you'd like to take a look at them. > > Thanks a lot - Anil. > > [EMAIL PROTECTED] freesurfer]# recon-all -force -i > /root/U_Chicago/Tone_Acquisition/Nl-TA1-001/I.001 -subjid Nl-TA1-001 -sd > /root/Freesurfer/Tone_Acquisition -all > INFO: SUBJECTS_DIR is /root/Freesurfer/Tone_Acquisition > INFO: /root/Freesurfer/Tone_Acquisition/Nl-TA1-001 exists with -i, but > -force specified. > Deleting any previous source volumes > Actual FREESURFER_HOME /usr/local/freesurfer > -rw-rw-r-- 1 root root 76880 Feb 8 13:25 > /root/Freesurfer/Tone_Acquisition/Nl-TA1-001/scripts/recon-all.log > Linux dhcp-129-105-146-127.speech.northwestern.edu 2.6.17-1.2157_FC5smp#1 > SMP Tue Jul 11 23:24:16 EDT 2006 i686 i686 i386 GNU/Linux > strings: Command not found. > WM removal version > /root/Freesurfer/Tone_Acquisition/Nl-TA1-001 > > mri_convert /root/U_Chicago/Tone_Acquisition/Nl-TA1-001/I.001 > /root/Freesurfer/Tone_Acquisition/Nl-TA1-001/mri/orig/001.mgz > > mri_convert /root/U_Chicago/Tone_Acquisition/Nl-TA1-001/I.001 > /root/Freesurfer/Tone_Acquisition/Nl-TA1-001/mri/orig/001.mgz > reading from /root/U_Chicago/Tone_Acquisition/Nl-TA1-001/I.001... > genesisRead(): can't determine file name format for > /root/U_Chicago/Tone_Acquisition/Nl-TA1-001/I.001 > Linux dhcp-129-105-146-127.speech.northwestern.edu 2.6.17-1.2157_FC5smp#1 > SMP Tue Jul 11 23:24:16 EDT 2006 i686 i686 i386 GNU/Linux > > recon-all exited with ERRORS at Thu Feb 8 13:52:57 CST 200 >
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