Hello,
i'm trying to setup freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0.
I think i've done downloading properly but i'm having some trouble with installation. I can set up enviroment and when testing freesurfer with some of the scripts from the page, sometimes it works but sometimes i get an error.
Can you please help me?
Thank you! Alejandra
Ale:~> setenv FREESURFER_HOME /usr/local/freesurfer Ale:~> source $FREESURFER_HOME/SetUpFreeSurfer.csh -------- freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer FSFAST_HOME /usr/local/freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /usr/local/freesurfer/subjects MNI_DIR /usr/local/freesurfer/mni Ale:~> freeview -v $SUBJECTS_DIR/bert/mri/norm.mgz -v $SUBJECTS_DIR/bert/mri/aseg.mgz:colormap=lut:opacity=0.2 -f $SUBJECTS_DIR/bert/surf/lh.white:edgecolor=yellow -f $SUBJECTS_DIR/bert/surf/rh.white:edgecolor=yellow -f $SUBJECTS_DIR/bert/surf/lh.pial:annot=aparc:edgecolor=red -f $SUBJECTS_DIR/bert/surf/rh.pial:annot=aparc:edgecolor=red freeview.bin: error while loading shared libraries: libXss.so.1: cannot open shared object file: No such file or directory Ale:~> tkmedit bert orig.mgz Reading /usr/local/freesurfer/tktools/tkm_common.tcl Reading /usr/local/freesurfer/tktools/tkm_wrappers.tcl Reading /usr/local/freesurfer/lib/tcl/fsgdfPlot.tcl Reading /usr/local/freesurfer/tktools/tkUtils.tcl % Ale:~> freeview freeview.bin: error while loading shared libraries: libXss.so.1: cannot open shared object file: No such file or directory Ale:~> qdec qdec.bin: error while loading shared libraries: libXss.so.1: cannot open shared object file: No such file or directory Ale:~>
Hello Alejandra,
I've seen this error before when people have tried to run freesurfer on cluster machines. The error indicates that the necessary X-libs are not installed. Google tells me that if you or your sys admin can install libXScrnSaver onto your machine it *should* fix it.
Best, -Zeke
On 05/16/2014 10:26 AM, Alejandra Machado wrote:
Hello,
i'm trying to setup freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0.
I think i've done downloading properly but i'm having some trouble with installation. I can set up enviroment and when testing freesurfer with some of the scripts from the page, sometimes it works but sometimes i get an error.
Can you please help me?
Thank you! Alejandra
Ale:~> setenv FREESURFER_HOME /usr/local/freesurfer Ale:~> source $FREESURFER_HOME/SetUpFreeSurfer.csh -------- freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /usr/local/freesurfer FSFAST_HOME /usr/local/freesurfer/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /usr/local/freesurfer/subjects MNI_DIR /usr/local/freesurfer/mni Ale:~> freeview -v $SUBJECTS_DIR/bert/mri/norm.mgz -v $SUBJECTS_DIR/bert/mri/aseg.mgz:colormap=lut:opacity=0.2 -f $SUBJECTS_DIR/bert/surf/lh.white:edgecolor=yellow -f $SUBJECTS_DIR/bert/surf/rh.white:edgecolor=yellow -f $SUBJECTS_DIR/bert/surf/lh.pial:annot=aparc:edgecolor=red -f $SUBJECTS_DIR/bert/surf/rh.pial:annot=aparc:edgecolor=red freeview.bin: error while loading shared libraries: libXss.so.1: cannot open shared object file: No such file or directory Ale:~> tkmedit bert orig.mgz Reading /usr/local/freesurfer/tktools/tkm_common.tcl Reading /usr/local/freesurfer/tktools/tkm_wrappers.tcl Reading /usr/local/freesurfer/lib/tcl/fsgdfPlot.tcl Reading /usr/local/freesurfer/tktools/tkUtils.tcl % Ale:~> freeview freeview.bin: error while loading shared libraries: libXss.so.1: cannot open shared object file: No such file or directory Ale:~> qdec qdec.bin: error while loading shared libraries: libXss.so.1: cannot open shared object file: No such file or directory Ale:~>
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Alejandra Machado -
Z K