When you look in je001_018_4_1-001/mri/orig is there a file called 001.mgz? It can't be an analyze file

Andrew Ellison wrote:

Hi all,

Library issues are all set, I now am having a problem getting freesurfer to recognize .img and .hdr files,

[root@ebrcb-dhcp-240-47 freesurfer]# /usr/local/freesurfer/bin/recon-all -autorecon1 -subjid je001_018_4_1-001 INFO: SUBJECTS_DIR is /usr/local/freesurfer/subjects/je001_018_4_1-001/freesurfer Actual FREESURFER_HOME /usr/local/freesurfer -rw-rw-r-- 1 root root 16873 Jul 27 10:16 /usr/local/freesurfer/subjects/je001_018_4_1-001/freesurfer/je001_018_4_1-001/scripts/recon- all.log Linux ebrcb-dhcp-240-47.bumc.bu.edu http://ebrcb-dhcp-240-47.bumc.bu.edu 2.6.18-8.1.8.el5 #1 SMP Tue Jul 10 06:50:22 EDT 2007 i686 i686 i386 GNU/Linux #-------------------------------------------- #@# MotionCor Fri Jul 27 10:17:12 EDT 2007 ERROR: no run data found in /usr/local/freesurfer/subjects/je001_018_4_1-001/freesurfer/je001_018_4_1-001/mri. Make sure to have a volume called 001.mgz in /usr/local/freesurfer/subjects/je001_018_4_1-001/freesurfer/je001_018_4_1-001/mri/orig.

If you have a second run of data call it 002.mgz, etc. See also: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Conversion Linux ebrcb-dhcp-240-47.bumc.bu.edu http://ebrcb-dhcp-240-47.bumc.bu.edu 2.6.18-8.1.8.el5 #1 SMP Tue Jul 10 06:50:22 EDT 2007 i686 i686 i386 GNU/Linux

recon-all exited with ERRORS at Fri Jul 27 10:17:12 EDT 2007

files are located where freesurfer is looking but isnt finding them, any help would be great, thanks!

Andy

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