Hi Costanza - can you please attach your configuration file?
Best, a.y ________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Costanza Gianni' costanza.gianni@uniroma1.it Sent: Wednesday, June 5, 2019 6:49:02 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] running recon -all and trac -all from different FreeSurfer home
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Hello, FreeSurfer Developers,
I'm trying to run trac -all (I prepared the configuration file following the instructions from v. 5.3) on a set of subjects already processed with recon -all in another computer with a different FREESURFER HOME, and I'm getting this error:
Too many ('s. INFO: SUBJECTS_DIR is /home/costanza/extra/PET/PET INFO: Diffusion root is /home/costanza/extra/PET/PET Actual FREESURFER_HOME /home/costanza/freesurfer INFO: FreeSurfer build stamps do not match Subject Stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 Current Stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0 /home/costanza/freesurfer/bin/dmri_motion: Command not found. /home/costanza/freesurfer/bin/dmri_group: error while loading shared libraries: libnetcdf.so.6: cannot open shared object file: No such file or directory INFO: current FREESURFER_HOME does not match that of previous processing. Current: /home/costanza/freesurfer Previous: /autofs/cluster/mscat/users/caterina/3T/freesurfer-stable5_3_0-05152013 dcmlist: Subscript out of range.
I've searched the list and I couldn't find any similar error. Do you think the main problem is running commands from different FREESURFER HOME?
1) FreeSurfer version: freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0 2) Ubuntu 14.04.5 LTS 3) umane -a Linux wks4 3.13.0-166-generic #216-Ubuntu SMP Thu Feb 7 14:07:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux
Thanks a lot for your help,
Costanza
-- Costanza Giannì, MD Radiologist PhD student Sapienza University, Rome +39 348 711 8987
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