Hi Tim,

the .hdr/.img format is called Analyze, and it doesn't come with orientation informaton. This means that it is easy for example to get a left/right swap that you will never know was in your data. Can you get it in any other format, like dicom, or whatever format it came off the scanner in?

If not, you can send us one of the pairs of files that gives the segfault and we'll take a look

cheers Bruce

On Sat, 19 Feb 2011, xiaotian yin wrote:

Hi,

Thank you for reading this email !

I am a newbie to Medical Imaging, and am learning to use FreeSurfer for surface construction.

Already installed FreeSurfer in Ubuntu, and the installation has been verified to be 100% successful.

I got a bunch of data (coming in pairs of *.hdr and *.img), and I am trying to convert them to *.mgz files, so that I can use recon-all then.

but when I call mri_convert as follows:

      mri_convert   Rcing.img    Rcing.mgz

I got the following error :

mri_convert Rcing.img Rcing.mgz $Id: mri_convert.c,v 1.166.2.2 2010/08/10 19:11:50 greve Exp $ reading from Rcing.img...

---

INFO: could not find /mnt/Data/Rcing.mat file for direction cosine info. INFO: use Analyze 7.5 hdr->hist.orient value: -40, . INFO: if not valid, please provide the information in /mnt/Data/Rcing.mat file

---

Segmentation fault

I have searched the freesurfer website ... no luck .... Would you mind to give me some advice or hints ? Thank you so much !

Best Tim _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer