Ali, First, are you ABSOLUTELY sure the PCs running freesurfer v5.0 are working properly? I am under the impression that versions of freesurfer pre-version 5.3 will not work on newer linux distributions?
In regards to your current permision denied issue... What happens if you try and run tkmedit as root user? Also, you not using virtual machine setup are you? -Zeke On 10/30/2014 06:27 AM, Ali Radaideh wrote: > It does not work. This is really strange > > On Thu, Oct 30, 2014 at 12:53 AM, Z K <zkauf...@nmr.mgh.harvard.edu > <mailto:zkauf...@nmr.mgh.harvard.edu>> wrote: > > I beleive it should have a lower case X, as in: > > chmod -R a+x freesurfer/bin > > -Zeke > > On 10/28/2014 01:19 AM, Ali Radaideh wrote: > > Dear Douglas > > > > Thanks for your reply. unfortunatey I still get the same error. > Here is > > the terminal output. Is there anything else I can do? > > > > -------- freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 -------- > > 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 > > FSL_DIR /usr/local/fsl > > imaging@imaging-ThinkCentre-23:~$ tcsh > > imaging-ThinkCentre-23:~> tkmedit > > /usr/local/freesurfer/bin/tkmedit: Permission denied. > > imaging-ThinkCentre-23:~> > > > > > > On Mon, Oct 27, 2014 at 5:21 AM, Douglas Greve > > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> > <mailto:gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu>>> wrote: > > > > > > Try chmod -R a+X freesurfer/bin > > > > > > On 10/26/14 1:57 PM, Ali Radaideh wrote: > >> Dear FreeSurfer users, > >> > >> I am using freesurfer on 16 PCs (Ubuntu 14.04 64 bit). One > of the > >> PCs has the latest version of freesurfer 5.3.0 while the others > >> have the version 5.0.0. The PC that is installed with the latest > >> version freesurfer 5.3.0 does not allow me to run any > command and > >> everytime I try a command such such as tkmedit i get the > following > >> error > >> /usr/local/freesurfer/bin/tkmedit: permission denied. > >> > >> I have tried to change the permission settings > >> sudo chown -R imaging:imaging freesurfer > >> > >> but did not work. > >> > >> Any ideas why is this happening although I have done the same > >> thing to other PCs and they are working fine. > >> > >> Thanks in advance, > >> Ali > >> > >> -- > >> /Ali M. Al-Radaideh. PhD > >> Assistant Professor > >> Head of Department of Medical Imaging > >> Vice Dean of the Faculty of Allied Health Sciences > >> The Hashemite University, > >> Zarqa, Jordan > >> W.phone +962 5 3903333 ext.5422, 5355, 5364 > >> Email: ali.radai...@hu.edu.jo > <mailto:ali.radai...@hu.edu.jo> <mailto:ali.radai...@hu.edu.jo > <mailto:ali.radai...@hu.edu.jo>> > >> / > >> /webpage: http://staff.hu.edu.jo/Default.aspx?id=ABZUPDzYeqM=/ > >> > >> > >> > >> _______________________________________________ > >> Freesurfer mailing list > >> Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu>> > >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu>> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > The information in this e-mail is intended only for the person to > > whom it is > > addressed. If you believe this e-mail was sent to you in > error and > > the e-mail > > contains patient information, please contact the Partners > Compliance > > HelpLine at > > http://www.partners.org/complianceline . If the e-mail was sent to > > you in error > > but does not contain patient information, please contact the > sender > > and properly > > dispose of the e-mail. > > > > > > > > > > -- > > /Ali M. Al-Radaideh. PhD > > Assistant Professor > > Head of Department of Medical Imaging > > Vice Dean of the Faculty of Allied Health Sciences > > The Hashemite University, > > Zarqa, Jordan > > W.phone +962 5 3903333 ext.5422, 5355, 5364 > > Email: ali.radai...@hu.edu.jo <mailto:ali.radai...@hu.edu.jo> > <mailto:ali.radai...@hu.edu.jo <mailto:ali.radai...@hu.edu.jo>> > > / > > /webpage: http://staff.hu.edu.jo/Default.aspx?id=ABZUPDzYeqM=/ > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > -- > /Ali M. Al-Radaideh. PhD > Assistant Professor > Head of Department of Medical Imaging > Vice Dean of the Faculty of Allied Health Sciences > The Hashemite University, > Zarqa, Jordan > W.phone +962 5 3903333 ext.5422, 5355, 5364 > Email: ali.radai...@hu.edu.jo <mailto:ali.radai...@hu.edu.jo> > / > /webpage: http://staff.hu.edu.jo/Default.aspx?id=ABZUPDzYeqM=/ > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
