Hi,<div>After update the FS version to 5.1, I follow the Tracula tutorial and run the command</div><div>trac-all -prep -c $TUTORIAL_DATA/diffusion_tutorial/scripts/dmrirc_single_subject</div>It starts to run but finish with errors:<div>
<br></div><div><div>writing to /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig.nii.gz...</div><div>Saving bvals and bvecs</div><div>mri_probedicom --i /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial//Diff001/orig/6-1.dcm &gt; /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dcminfo.dat</div>
<div>flip4fsl /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig.nii.gz /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig_flip.nii.gz</div>
<div>INFO: input image orientation is LPS</div><div>INFO: input image determinant is 8</div><div>fslswapdim /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig.nii.gz x -y z /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig_flip.nii.gz</div>
<div>fslorient -forceradiological /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig_flip.nii.gz</div><div>fslorient: error while loading shared libraries: libnewimage.so: cannot open shared object file: No such file or directory</div>
<div>INFO: found /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig.mghdti.bvals, converting to FSL format</div><div>INFO: found /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig.mghdti.bvecs, converting to FSL format</div>
<div>mv -f /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig_flip.mghdti.bvecs /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/bvecs</div>
<div>mv -f /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig_flip.mghdti.bvals /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/bvals</div>
<div>eddy_correct /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_orig_flip.nii.gz /home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi.nii.gz 0</div>
<div>fslroi: error while loading shared libraries: libnewimage.so: cannot open shared object file: No such file or directory</div><div>fslsplit: error while loading shared libraries: libnewimage.so: cannot open shared object file: No such file or directory</div>
<div>fslmerge: error while loading shared libraries: libnewimage.so: cannot open shared object file: No such file or directory</div><div>/bin/rm: no se puede borrar «/home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_tmp????.*»: No existe el fichero o el directorio</div>
<div>/bin/rm: no se puede borrar «/home/cvalencia/freesurfer/subjects/Tracula_Tutorial_Public//diffusion_tutorial/Diff001/dmri/dwi_ref*»: No existe el fichero o el directorio</div><div>Linux cvalencia-Precision-WorkStation-T3400 2.6.35-30-generic-pae #56-Ubuntu SMP Mon Jul 11 21:51:12 UTC 2011 i686 GNU/Linux</div>
<div><br></div><div>trac-preproc exited with ERRORS at jue ago 18 10:54:43 COT 2011</div><div><br></div><div><br></div><div>any suggestions??</div><div><br></div><div>Thanks,</div><div><br></div><div>Carolina</div><div><br>
</div><div class="gmail_quote">2011/8/16 Anastasia Yendiki <span dir="ltr">&lt;<a href="mailto:ayendiki@nmr.mgh.harvard.edu">ayendiki@nmr.mgh.harvard.edu</a>&gt;</span><br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
<br>
Hi Carolina - There&#39;s info on the new release and how to install it here:<br>
<a href="https://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes" target="_blank">https://surfer.nmr.mgh.<u></u>harvard.edu/fswiki/<u></u>ReleaseNotes</a><br><font color="#888888">
<br>
a.y</font><div><div></div><div class="h5"><br>
<br>
On Tue, 16 Aug 2011, Carolina Valencia wrote:<br>
<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
Hi FS&#39;users,<br>
I&#39;m trying to do the Tracula tutorial but after set the configuration file I<br>
run the command trac-all <br>
cvalencia-Precision-<u></u>WorkStation-T3400:~/<u></u>freesurfer/subjects/Tracula_<u></u>Tutorial<br>
_Public/diffusion_tutorial&gt; trac-all -help<br>
trac-all: Command not found.<br>
I have the version: freesurfer-Linux-centos4-<u></u>stable-pub-v5.0.0. <br>
How I update the to version 5.1? What I have to fix to run trac-all command?<br>
<br>
Thanks,<br>
<br>
Best regards<br>
<br>
Carolina<br>
<br>
<br>
<br>
<br>
<br>
</blockquote>
<br>
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