Hi Frédéric,
Do you have the matlab image processing toolbox installed?
Cheers,
Marie
On 17 déc. 09, at 12:03, Frédéric Andersson wrote:
> Hi,
>
> I've got some troubles computing the lGI.
> It seems to be a trouble related to the class.m and strel.m matlab
> functions.
>
> Does anyone meet such problem?
>
> Thanks
>
> Frederic
>
>
>
>
>
>
>
>
>
> gray.local:andersson 11:50am [12] recon-all -s MNI_SINGLESUBJ -localGI
> -no-isrunning
> INFO: FreeSurfer build stamps do not match
> Subject Stamp: freesurfer-Darwin-leopard-i686-stable-pub-v4.1.0
> Current Stamp: freesurfer-Darwin-leopard-i686-stable-pub-v4.5.0
> INFO: SUBJECTS_DIR is /usr/remote/Darwin/freesurfer/freesurfer450/
> subjects
> Actual FREESURFER_HOME /usr/remote/Darwin/freesurfer/freesurfer450
> -rw-rw-r-- 1 andersson flat 750913 Dec 17 09:29 /usr/remote/Darwin/
> freesurfer/freesurfer450/subjects/MNI_SINGLESUBJ/scripts/recon-all.log
> Darwin gray.local 9.8.0 Darwin Kernel Version 9.8.0: Wed Jul 15
> 16:55:01 PDT 2009; root:xnu-1228.15.4~1/RELEASE_I386 i386
> INFO: current FREESURFER_HOME does not match that of previous
> processing.
> Current: /usr/remote/Darwin/freesurfer/freesurfer450
> Previous: /usr/remote/Darwin/freesurfer/freesurfer410
> /usr/remote/Darwin/freesurfer/freesurfer450/subjects/MNI_SINGLESUBJ/
> surf
> #--------------------------------------------
> #...@# Local Gyrification Index lh Thu Dec 17 11:50:50 CET 2009
> \n mris_compute_lgi --i lh.pial \n
> =================
> rm -Rf /usr/remote/Darwin/freesurfer/freesurfer450/subjects/
> MNI_SINGLESUBJ/surf/tmp-mris_compute_lgi-lh.pial
> =================
> =================
> mkdir -p /usr/remote/Darwin/freesurfer/freesurfer450/subjects/
> MNI_SINGLESUBJ/surf/tmp-mris_compute_lgi-lh.pial
> =================
> =================
> mris_fill -c -r 1 lh.pial /usr/remote/Darwin/freesurfer/freesurfer450/
> subjects/MNI_SINGLESUBJ/surf/tmp-mris_compute_lgi-lh.pial/
> lh.pial.filled.mgz
> =================
> reading surface from lh.pial...
> writing filled volume to /usr/remote/Darwin/freesurfer/freesurfer450/
> subjects/MNI_SINGLESUBJ/surf/tmp-mris_compute_lgi-lh.pial/
> lh.pial.filled.mgz...
> conforming output volume
> setting resolution for intermediate calculations to 1.0000
> =================
> make_outer_surface('/usr/remote/Darwin/freesurfer/freesurfer450/
> subjects/MNI_SINGLESUBJ/surf/tmp-mris_compute_lgi-lh.pial/
> lh.pial.filled.mgz',15,'/usr/remote/Darwin/freesurfer/freesurfer450/
> subjects/MNI_SINGLESUBJ/surf/tmp-mris_compute_lgi-lh.pial/lh.pial-
> outer'); exit
> =================
> Warning: Unable to open display 'iconic'. You will not be able to
> display graphics on the screen.
>
> < M A T L A B >
> Copyright 1984-2007 The MathWorks, Inc.
> Version 7.5.0.338 (R2007b)
> August 9, 2007
>
>
> To get started, type one of these: helpwin, helpdesk, or demo.
> For product information, visit www.mathworks.com.
>
>
>
>
>
>>> reading filled volume...
>
>
>
>
> interactive shell
>
>
>
>
> interactive shell
> closing volume...
>
>
>
> ??? Error using ==> class
> The CLASS function must be called from a class constructor.
>
> Error in ==> strel>MakeArbitraryStrel at 188
> se = class(se, 'strel');
>
> Error in ==> strel at 122
> se = MakeArbitraryStrel(params{:});
>
> Error in ==> strel>MakeBallStrel at 530
> se.decomposition = strel(nhood,height);
>
> Error in ==> strel at 141
> se = MakeBallStrel(params{:});
>
> Error in ==> make_outer_surface at 41
> se=strel('ball',se_diameter,se_diameter);
>
>>>
>
>
>
>
>
>
>
>
> Frédéric ANDERSSON, PhD
> Ingénieur de Recherche INSERM / IFR 135 - Imagerie fonctionnelle
> Faculté de Médecine
> 10 Blvd Tonnellé Bat. Vialle - 2ème étage - Bureau 205
> BP 3223 - 37032 TOURS cedex - FRANCE
> Tél : +33 (0) 2 47 36 61 37 / Fax: +33 (0) 2 47 36 62 07
>
>
>
> _______________________________________________
> Freesurfer mailing list
> [email protected]
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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