yes, particularly since 5.2 was deprecated. Thanks for pointing this out Sebastian
Bruce On Tue, 4 Feb 2014, Sebastian Moeller wrote: > Hi again, > > On Feb 4, 2014, at 14:44 , Saurabh Thakur <srbht...@gmail.com> wrote: > >> >> On Tue, Feb 4, 2014 at 6:56 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> >> wrote: >> ls -l /usr/local/freesurfer/tktools >> >> Hi Bruce, >> >> I m sending you some result : >> >> //==========================================================/// >> freesurfer-Linux-centos4-stable-pub-v5.2.0 -------- > > It might make sense to switch to freesurfer 5.3 since you have not yet > produced any surfaces yet, so switching will have no legacy costs. > > >> 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 /home/saurabh/Desktop/saurabh_freesurfer >> MNI_DIR /usr/local/freesurfer/mni >> >> saurabh@saurabh-Dell-System-XPS-L502X:~$ ls -l /usr/local/freesurfer >> total 376 >> -rw-r--r-- 1 root root 3302 Mar 1 2013 ASegStatsLUT.txt >> -rw-r--r-- 1 root root 728 Mar 1 2013 AUTHORS >> drwxr-xr-x 7 root root 4096 Mar 1 2013 average >> drwxr-xr-x 2 root root 36864 Mar 1 2013 bin >> -rw-r--r-- 1 root root 43 Mar 1 2013 build-stamp.txt >> drwxr-xr-x 3 root root 4096 Mar 1 2013 data >> -rw-r--r-- 1 root root 47514 Mar 1 2013 DefectLUT.txt >> drwxr-xr-x 3 root root 4096 Mar 1 2013 diffusion >> drwxr-xr-x 3 root root 4096 Mar 1 2013 docs >> -rw-r--r-- 1 root root 84833 Mar 1 2013 FreeSurferColorLUT.txt >> -rwxr-xr-x 1 root root 16760 Mar 1 2013 FreeSurferEnv.csh >> -rwxr-xr-x 1 root root 16846 Mar 1 2013 FreeSurferEnv.sh >> drwxr-xr-x 2 root root 4096 Mar 1 2013 fsafd >> drwxr-xr-x 5 root root 4096 Mar 1 2013 fsfast >> drwxr-xr-x 12 root root 4096 Mar 1 2013 lib >> -rw-r--r-- 1 root root 10297 Mar 1 2013 LICENSE >> drwxr-xr-x 3 root root 4096 Mar 1 2013 matlab >> drwxr-xr-x 8 root root 4096 Feb 21 2010 mni >> -rw-r--r-- 1 root root 4793 Mar 1 2013 NOTICE >> -rw-r--r-- 1 root root 635 Mar 1 2013 README >> -rw-r--r-- 1 root root 28445 Mar 1 2013 SegmentNoLUT.txt >> drwxr-xr-x 2 root root 4096 Mar 1 2013 sessions >> -rwxr-xr-x 1 root root 1303 Mar 1 2013 SetUpFreeSurfer.csh >> -rwxr-xr-x 1 root root 1293 Mar 1 2013 SetUpFreeSurfer.sh >> -rw-r--r-- 1 root root 4104 Mar 1 2013 Simple_surface_labels2009.txt >> drwxr-xr-x 14 root root 4096 Mar 1 2013 subjects >> -rw-r--r-- 1 root root 1681 Mar 1 2013 tkmeditParcColorsCMA >> drwxr-xr-x 2 root root 4096 Mar 1 2013 tktools >> drwxr-xr-x 35 root root 4096 Mar 1 2013 trctrain >> -rw-r--r-- 1 root root 50 Mar 1 2013 VERSION >> -rw-r--r-- 1 root root 25944 Mar 1 2013 WMParcStatsLUT.txt >> >> Result no.1 >> >> saurabh@saurabh-Dell-System-XPS-L502X:~$ ls -l /usr/local/freesurfer/tktools >> total 71772 >> -rwxr-xr-x 1 root root 46572 Mar 1 2013 fsgdfPlot.tcl >> -rw-r--r-- 1 root root 6180 Mar 1 2013 license.cortechs.txt >> -rwxr-xr-x 1 root root 17992 Mar 1 2013 tkanalyse.tcl >> -rwxr-xr-x 1 root root 722 Mar 1 2013 tkm_common.tcl >> -rwxr-xr-x 1 root root 1591 Mar 1 2013 tkm_dialog.tcl >> -rwxr-xr-x 1 root root 102 Mar 1 2013 tkmedit >> -rwxr-xr-x 1 root root 19541885 Feb 4 18:52 tkmedit.bin >> -rwxr-xr-x 1 root root 154763 Mar 1 2013 tkmedit.tcl >> -rwxr-xr-x 1 root root 40941 Mar 1 2013 tkm_functional.tcl >> -rwxr-xr-x 1 root root 2805 Mar 1 2013 tkm_graph.tcl >> -rwxr-xr-x 1 root root 47324 Mar 1 2013 tkm_wrappers.tcl >> -rwxr-xr-x 1 root root 106 Mar 1 2013 tkregister >> -rwxr-xr-x 1 root root 106 Mar 1 2013 tkregister2 >> -rwxr-xr-x 1 root root 16911243 Mar 1 2013 tkregister2.bin >> -rwxr-xr-x 1 root root 16792599 Mar 1 2013 tkregister2_cmdl >> -rwxr-xr-x 1 root root 27967 Mar 1 2013 tkregister2.tcl >> -rwxr-xr-x 1 root root 27967 Mar 1 2013 tkregister.tcl >> -rwxr-xr-x 1 root root 103 Mar 1 2013 tksurfer >> -rwxr-xr-x 1 root root 19578559 Feb 4 18:52 tksurfer.bin >> -rwxr-xr-x 1 root root 200280 Mar 1 2013 tksurfer.tcl >> -rwxr-xr-x 1 root root 56875 Mar 1 2013 tkUtils.tcl >> saurabh@saurabh-Dell-System-XPS-L502X:~$ >> >> >> Result 2: >> tcsh is working >> >> and updated >> saurabh@saurabh-Dell-System-XPS-L502X:~$ tcsh >> saurabh-Dell-System-XPS-L502X:~> >> >> saurabh-Dell-System-XPS-L502X:~> echo $version >> tcsh 6.17.06 (Astron) 2011-04-15 (x86_64-unknown-linux) options >> wide,nls,dl,al,kan,rh,nd,color,filed >> >> >> Result 3: >> >> I want to start tkmedit asap. >> >> how can i start gui .....? >> >> >> Solution for error i m looking for is: >> >> saurabh@saurabh-Dell-System-XPS-L502X:~$ tkedit subject1 orig.mgz >> tkedit: command not found > > Mmmh, if I may offer a guess: >> tkmedit subject1 orig.mgz > > might actually work (but I doubt that, as you had shown errors about > tkmedit.bin earlier, and tkmedit calls tkmedit.bin in the end) > > > best regards > Sebastian > >> //======================================================================// >> >> >> cheers >> Saurabh Thakur, >> >> >> _______________________________________________ >> Freesurfer mailing list >> 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. > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
