Re: [Freesurfer] recon-all -s -localGI

2016-12-14 Thread dgw
ftrag von "Douglas Greve > [gr...@nmr.mgh.harvard.edu] > Gesendet: Mittwoch, 14. Dezember 2016 17:03 > > An: freesurfer@nmr.mgh.harvard.edu > Betreff: Re: [Freesurfer] recon-all -s -localGI > > What happens if you run getmatlab ? > > > On 12/14/16 7:14 AM, André Sc

Re: [Freesurfer] recon-all -s -localGI

2016-12-14 Thread André Schmidt
sfully! Von: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu]" im Auftrag von "André Schmidt [andre.schm...@unibas.ch] Gesendet: Mittwoch, 14. Dezember 2016 17:40 An: Freesurfer support list Betreff: Re: [Freesurfer] recon-all -s -loc

Re: [Freesurfer] recon-all -s -localGI

2016-12-14 Thread André Schmidt
Greve [gr...@nmr.mgh.harvard.edu] Gesendet: Mittwoch, 14. Dezember 2016 17:03 An: freesurfer@nmr.mgh.harvard.edu Betreff: Re: [Freesurfer] recon-all -s -localGI What happens if you run getmatlab ? On 12/14/16 7:14 AM, André Schmidt wrote: Dear Doug Thanks again for your help. I think I have added the path t

Re: [Freesurfer] recon-all -s -localGI

2016-12-14 Thread André Schmidt
[freesurfer-boun...@nmr.mgh.harvard.edu]" im Auftrag von "Douglas Greve [gr...@nmr.mgh.harvard.edu] Gesendet: Mittwoch, 14. Dezember 2016 17:03 An: freesurfer@nmr.mgh.harvard.edu Betreff: Re: [Freesurfer] recon-all -s -localGI What happens if you run getmatlab ? On 12/14/16 7:14 AM, And

Re: [Freesurfer] recon-all -s -localGI

2016-12-14 Thread Douglas Greve
freesurfer@nmr.mgh.harvard.edu *Betreff:* Re: [Freesurfer] recon-all -s -localGI Is matlab in your linux path? On my mac, I had to add this path to my linux path: /Applications/MATLAB_R2011b.app/bin/matlab On 12/13/16 11:16 AM, André Schmidt wrote: Many thanks for your help. According to your suggestion,

Re: [Freesurfer] recon-all -s -localGI

2016-12-14 Thread André Schmidt
...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu]" im Auftrag von "Douglas Greve [gr...@nmr.mgh.harvard.edu] Gesendet: Dienstag, 13. Dezember 2016 22:53 An: freesurfer@nmr.mgh.harvard.edu Betreff: Re: [Freesurfer] recon-all -s -localGI Is matlab in your linux path? On my

Re: [Freesurfer] recon-all -s -localGI

2016-12-13 Thread Douglas Greve
Greve [gr...@nmr.mgh.harvard.edu] *Gesendet:* Dienstag, 13. Dezember 2016 16:26 *An:* freesurfer@nmr.mgh.harvard.edu *Betreff:* Re: [Freesurfer] recon-all -s -localGI The LGI routines run matlab (even though you never actually run any matlab commands yourself). But you have to make sure that matlab kn

Re: [Freesurfer] recon-all -s -localGI

2016-12-13 Thread André Schmidt
-boun...@nmr.mgh.harvard.edu]" im Auftrag von "Douglas Greve [gr...@nmr.mgh.harvard.edu] Gesendet: Dienstag, 13. Dezember 2016 16:26 An: freesurfer@nmr.mgh.harvard.edu Betreff: Re: [Freesurfer] recon-all -s -localGI The LGI routines run matlab (even though you never actually run

Re: [Freesurfer] recon-all -s -localGI

2016-12-13 Thread Douglas Greve
The LGI routines run matlab (even though you never actually run any matlab commands yourself). But you have to make sure that matlab knows where the LGI matlab routines are. To do this you must modify your matlab ~/matlab/startup.m file to add the path to the LGI routines to your path. To do

[Freesurfer] recon-all -s -localGI

2016-12-13 Thread André Schmidt
Dear experts I am trying to compute the local gyrification index but I am not sure how I have to do the following: "You will also need $FREESURFER_HOME/matlab in your matlab path set up in your ~/matlab/starup.m script." Can you please quickly help me what I need to type in the terminal to do