Hi, 
I got this error while running recon:  'imgreg_4dfp 
/opt/freesurfer-530/average/711-2C_as_mni_average_305 
/opt/freesurfer-530/average/711-2B_as_mni_average_305_mask talsrcimg_g11 none 
talsrcimg_to_711-2C_as_mni_average_305_t4 1283' failed! status=254ERROR: 
mpr2mni305 execution aborted
Xiaomin
From: yu...@hotmail.com
To: freesurfer@nmr.mgh.harvard.edu
Subject: RE: [Freesurfer] fsfast question
Date: Wed, 26 Mar 2014 17:03:48 -0400





Thanks very much,  i will try it.
Xiaomin
From: cschwie...@mail.rockefeller.edu
Date: Wed, 26 Mar 2014 14:56:26 -0400
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] fsfast question

you could try to run mkanalysis-sess with -notask and your nuisance regressors 
specified as -nuisreg, then run selxavg3-sess with -no-con-ok and -svres to 
save the residuals. 
maybe that solves your problem? 


caspar


2014-03-26 14:38 GMT-04:00 Douglas N Greve <gr...@nmr.mgh.harvard.edu>:


No, sorry

On 03/26/2014 01:54 PM, Xiaomin Yue wrote:

> I like to regress out the linear drift, mean, and head motion

> generated by the motion correction step of fsfast from the raw time

> course only.  Is it possible using fsfast?

>

> Xiaomin

>

> > Date: Wed, 26 Mar 2014 11:28:57 -0400

> > From: gr...@nmr.mgh.harvard.edu

> > To: freesurfer@nmr.mgh.harvard.edu

> > Subject: Re: [Freesurfer] fsfast question

> >

> >

> > Sorry, I don't follow what you are asking. FSFAST does not do any drift

> > removal from the raw data, all of that is in the design matrix

> > doug

> >

> > On 03/26/2014 10:45 AM, Xiaomin Yue wrote:

> > > Hi,

> > >

> > > The analysis necessary to my study is to run some analysis on the raw

> > > time course data. Before working on the raw time course data, it is

> > > necessary to remove linear drifting, mean, and head motion. Can I

> > > just specify those parameters without having conditions in the steps

> > > of generating design matrix? If so, what command should be used?

> > >

> > > Thanks,

> > > Xiaomin Yue

> > >

> > >

> > > _______________________________________________

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> > > Freesurfer@nmr.mgh.harvard.edu

> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

> >

> > --

> > Douglas N. Greve, Ph.D.

> > MGH-NMR Center

> > gr...@nmr.mgh.harvard.edu

> > Phone Number: 617-724-2358

> > Fax: 617-726-7422

> >

> > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

> > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2

> > www.nmr.mgh.harvard.edu/facility/filedrop/index.html

> > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

> >

> > _______________________________________________

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> >

> >

> > 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

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>

>

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--

Douglas N. Greve, Ph.D.

MGH-NMR Center

gr...@nmr.mgh.harvard.edu

Phone Number: 617-724-2358

Fax: 617-726-7422



Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2

www.nmr.mgh.harvard.edu/facility/filedrop/index.html

Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/



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