RES: R:Re: Re: problem display tksurfer in vmware - Freesurfer

1 Oct 2009


      The sudo password is brain2009
with this information you can succesfully install FSL using that procedure.
Cheers
PPJ
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Enviado do meu celular Nokia E71
-----Msg original-----
De: giacomo.mandru@gmail.com
Enviado:  01/10/2009 07:00:09
Assunto:  R:Re: Re: [Freesurfer] problem display tksurfer in vmware
Hi,
I have another question: Can I install FSL on the Ubuntu of VirtualBox to  
work FS and FSL together? How?
I follow the istruction of this site: http://neuro.debian.net/pkgs/fsl.html
I add web site on source.list but I ottenied an error when I type: sudo  
apt-get update.
thank you for your patience!
best wishes
Giacomo Mandruzzato
Il giorno 28/set/2009 14.52, Giacomo Mandruzzato giacomo.mandru@gmail.com  
ha scritto:
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ok.thank for interest. I resolved my problem:
-I installed Virtual Box
-tksurfer: I need to DISABILITATED 3D accelerator graphic in  
configuration video of virtual box
-qdec:reboot in kernel configuration, overwrite password for  
user 'freesurfer', and so I can create link for libtiff.so.4 named  
libtiff.so.3
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Now run correctly, I have to wait about 1 second every rotation for  
tksurfer with subject bert , but I think it so good.
thank you very much for your answer
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2009/9/28 Pedro Paulo de Magalhães Oliveira Junior ppj@netfilter.com.br>
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Have you installed the VirtualBox that comes from the FreeSurfer Wiki?  
VirtualBox 3.x?
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Pedro Paulo de M. Oliveira Junior
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Diretor de Operações
Netfilter & SpeedComm Telecom
--- Novo Netfilter 3.2 www.Netfilter.com.br
--- Novo Netfilter Small Business
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2009/9/28 Giacomo Mandruzzato giacomo.mandru@gmail.com>
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Hi,
now I have installed Virtual Box with freesurfer, but I have same problem  
with tksurfer and a library problem with qdec (it can't find libtiff.so.3  
file, and in the folder I see only libtiff.so.3 file!)
Giacomo
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2009/9/26 Giacomo Mandruzzato giacomo.mandru@gmail.com>
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thankyou for your help and your rapid answer.
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I use bash and i set doublebufferflag=1 but the problem persists!
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2009/9/26 Pedro Paulo de Magalhaes Oliveira Jr ppj@netfilter.com.br>
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In csh use setenv doublebufferflag 1
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In bash export doublebufferflag=1
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--
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Enviado do meu celular Nokia E71
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-----Msg original-----
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De: Giacomo Mandruzzato
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Enviado: 26/09/2009 09:33:26
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Para: ppj@netfilter.com.br
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Assunto: Re: [Freesurfer] problem display tksurfer in vmware
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Yes, I know but I have problem with VirtualBox in the first boot that I  
do!
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Can I use freesurfer (and so tksurfer) with vmware? Or Is there any  
solution
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for my problem?
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thank you
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2009/9/26 Pedro Paulo de Magalhaes Oliveira Jr ppj@netfilter.com.br>
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Use the official FreeSurfer distribution for Virtualbox
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--
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Enviado do meu celular Nokia E71
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-----Msg original-----
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De: Giacomo Mandruzzato
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Enviado: 26/09/2009 08:22:55
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Para: freesurfer@nmr.mgh.harvard.edu
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Assunto: [Freesurfer] problem display tksurfer in vmware
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Hi,
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I'm Giacomo Mandruzzato, a student of Bioengineering at Padova (DIE) and
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I'm
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working on my Thesis with Freesurfer (last version). I am using a
virtual
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machine Vmware 2.5.3 with Cent0S 5.1 running FSL virtual disk in Windows
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Vista Home premium,
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I installed freesurfer and tkmedit e qdec run correctly but when run
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tksurfer (ie tksurfer bert rh pial, like website suggests) display an
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error :
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[root@localhost ~]# tksurfer bert rh pial
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surfer: current subjects dir: /usr/local/freesurfer/subjects
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surfer: not in "scripts" dir ==> using cwd for session root
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surfer: session root data dir ($session) set to:
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surfer: /root
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surfer: all rgb files written to /root
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surfer: Reading header info from /usr/local/freesurfer/
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subjects/bert/mri/T1.mgz
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surfer: vertices=131860, faces=263716
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WARNING: No colortable found!
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surfer: single buffered window
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surfer: tkoInitWindow(bert)
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surfer: using interface /usr/local/freesurfer/lib/tcl/tksurfer.tcl
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Reading /usr/local/freesurfer/lib/tcl/tkm_common.tcl
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Reading /usr/local/freesurfer/lib/tcl/tkm_wrappers.tcl
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Reading /usr/local/freesurfer/lib/tcl/fsgdfPlot.tcl
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Reading /usr/local/freesurfer/lib/tcl/tkUtils.tcl
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Successfully parsed tksurfer.tcl
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reading white matter vertex locations...
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%
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Tksurfer open and I can see only a little piece of brain.
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I have update the video card's driver and I tried to use another vm,
like
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VirtualBox but I left the idea because I found some problem with boot of
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it.
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I have found a similar problem in internet, but without solution:
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http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg07389.html(I
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am not using a Nvidia video card).
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characteristic of my notebook:
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Olidata , Intel core duo T2450 @ 2 x 2.00 Ghz,
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Ram 2 GB, Windows Vista Home Premium 32bit SP2 updated.
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Video card: Mobile Intel 945 Express Chipset Family
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I apologize for bad English and little knowledge of Unix OS.
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Please, if somebody can help I am grateful.
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Best Regards,
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Giacomo Mandruzzato
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giacomo.mandru@gmail.com
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