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 > > > > > > > > > _______________________________________________ > > > Freesurfer mailing list > > > 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/ > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > 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 > > http://www.partners.org/complianceline . If the e-mail was sent to > you in error > > but does not contain patient information, please contact the sender > and properly > > dispose of the e-mail. > > > > > _______________________________________________ > Freesurfer mailing list > 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/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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 http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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 http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.