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FSL  October 2007

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Subject:

RE : Re: [FSL] RE : Re: [FSL] RE : [FSL] hi and for VBM problem.

From:

Gwenaëlle DOUAUD <[log in to unmask]>

Reply-To:

FSL - FMRIB's Software Library <[log in to unmask]>

Date:

Thu, 11 Oct 2007 16:55:01 +0200

Content-Type:

text/plain

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text/plain (169 lines)

Hi,

as far as I know, yes, absolutely...

Cheers,
Gwenaelle

--- Matt Glasser <[log in to unmask]> a crit :

> Gwenaelle,
> 
> Will this non-linear registration algorithm replace
> ITK in TBSS?  
> 
> Thanks,
> 
> Matt.
> 
> -----Original Message-----
> From: FSL - FMRIB's Software Library
> [mailto:[log in to unmask]] On Behalf Of Gwenaëlle
> DOUAUD
> Sent: Thursday, October 11, 2007 10:36 AM
> To: [log in to unmask]
> Subject: [FSL] RE : Re: [FSL] RE : [FSL] hi and for
> VBM problem.
> 
> Hi,
> 
> sorry, I should have been more specific... It can be
> run in parallel if your lab has got a SGE system or
> something like that (sorry I'm not very good at
> these
> things) and then you send your job to a bunch of
> computers involved in the cluster. It should not
> take
> much longer anyway. 
> Hopefully, we should get a better and much quicker
> non-linear registration (FNIRT) soonish and that
> will
> be included in the next FSL4.1 patch.
> 
> Cheers,
> Gwenaelle
> 
>  
> --- "Zhang, Xiaochu (NIH/NIDA) [F]"
> <[log in to unmask]> a écrit :
> 
> > Thank you very much for speedy response!
> > I think the first question has been resolved. For
> 2
> > hours per subject, it will take about 100 hours
> > (about 4 days) to finish the whole 48 subjects. I
> > need wait two days more.
> > For you said it can be run in parallel and the
> > computer in our lab have multiple CPUs. So, can I
> > open multiple terminals and run the script in each
> > one to shorten the whole time?
> > Thanks again!
> > 
> > -----Original Message-----
> > From: Gwenaëlle DOUAUD
> > [mailto:[log in to unmask]] 
> > Sent: 2007年10月11日 9:39
> > To: [log in to unmask]
> > Subject: [FSL] RE : [FSL] hi and for VBM problem.
> > 
> > Hi,
> > 
> > I'm not sure about your first question. The
> > non-linear
> > registration can take a while, let's say at least
> 2
> > hours per subject. 
> > We have done the things so that you can run the
> jobs
> > in parallel if your lab has got a cluster to do
> so.
> > If
> > this is not the case, yes, it can be long, and
> much
> > longer than fslvbm2 for which you have hopefully
> > chosen the recommended affine option with -a.
> > Just check that your 4D image GM_mod_merg.nii.gz
> in
> > your stats directory has been created by the most
> > recent fslvbm3 you ran, and if so, just abort the
> > first  fslvbm3 command. 
> > 
> > Hope this helps,
> > Gwenaelle
> > 
> > 
> > --- "Zhang, Xiaochu (NIH/NIDA) [F]"
> > <[log in to unmask]> a écrit :
> > 
> > > Hi,
> > > 
> > > I'm working on the VBM data. My sample included
> 48
> > > subjects (24 patients
> > > and 24 controls). I have two questions about the
> > > "fslvbm_3_proc".
> > > 
> > > The first one, I ran it 2 days ago. However, up
> to
> > > now, it have NOT
> > > finished. I checked the program is not died.
> > > However, when I run
> > > "fslvbm_1" and "fslvbm_2", it took no more than
> 4
> > > hours. Is it normal
> > > phenomenon?
> > > 
> > > The second one, about 1 day ago, my computer was
> > > rebooted by power
> > > problem. After reboot, I re-run the "fslvbm_3".
> It
> > > looks like OK. Need I
> > > to deleted all files and restart from
> "fslvbm_1"? 
> > 
> > > 
> > > Thank you very much!
> > > 
> > > Xiaochu Zhang Ph.D
> > > 
> > > Visiting Research Fellow
> > > 
> > > NIH/NIDA-IRP
> > > 
> > > 5500 Nathan Shock Drive
> > > 
> > > Baltimore MD 21224
> > > 
> > >  
> > > 
> > > Tel: (410) - 550 - 1440 ext. 434
> > > 
> > >  
> > > 
> > > 
> > 
> > 
> > 
> >      
> >
>
_____________________________________________________________________________
> > 
> > Ne gardez plus qu'une seule adresse mail ! Copiez
> > vos mails vers Yahoo! Mail 
> > 
> 
> 
> 
>      
>
_____________________________________________________________________________
> 
> Ne gardez plus qu'une seule adresse mail ! Copiez
> vos mails vers Yahoo! Mail 
> 



      _____________________________________________________________________________ 
Ne gardez plus qu'une seule adresse mail ! Copiez vos mails vers Yahoo! Mail 

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