Hi Jenni, Yes I have tried it. I guess I should have been clearer when I wrote "I have added the mgz extension", my mistake. Thanks, -Thang
-----Original Message----- From: Jenni Pacheco [mailto:[EMAIL PROTECTED] Sent: Wednesday, April 12, 2006 3:13 PM To: Nguyen, Thang Q Cc: [email protected] Subject: Re: [Freesurfer] FW: FW: Recon-all longitudinal script Hi Thang, I'm not sure if you've tried this, but try adding -mgz to the command line when running recon-all-nmr-long. Jenni On Wed, 12 Apr 2006, Nguyen, Thang Q wrote: > > -----Original Message----- > From: Bruce Fischl [mailto:[EMAIL PROTECTED] > Sent: Tuesday, April 11, 2006 5:42 PM > To: Nguyen, Thang Q > Subject: Re: FW: Recon-all longitudinal script > > Hi Thang, > > please post this to the list > > Bruce > On Tue, 11 Apr 2006, Nguyen, Thang Q wrote: > >> Hello Bruce Fischl, >> I was wondering if you could help me with this Freesurfer issue. I am >> trying to run the longituduinal script (recon-all-nmr-long) that Xiao >> sent me. We have installed the latest 2006 version of Freesurfer > which >> works in mgz format. I have tried running recon-all on one subject > and >> running the longitudinal script on the second subject. Unfortunately, >> it errors out saying that the script can't find the mgz format. I > have >> added the mgz extension and it also gives me the same problem. >> I have tried recon-all on the second subject as well and then running >> the longitudinal script but it gives me this error: >> >> ***************************************************** >> Sphere rh Mon Apr 10 18:04:19 PDT 2006 >> > /raid2/research/analysis/GE-SiemensCalibration/Freesurfer_longitudinal/S >> zetoR2/scripts >> cp >> > /raid2/research/analysis/GE-SiemensCalibration/Freesurfer_longitudinal/S >> zetoR/surf/rh.sphere >> > /raid2/research/analysis/GE-SiemensCalibration/Freesurfer_longitudinal/S >> zetoR2/surf/rh.sphere >> --------------------------------------------- >> Surf Reg rh Mon Apr 10 18:04:19 PDT 2006 >> > /raid2/research/analysis/GE-SiemensCalibration/Freesurfer_longitudinal/S >> zetoR2/scripts >> Too many )'s. >> >> ***************************************************** >> Since Xiao left, I no longer have a contact for this problem. I have >> contacted Karl Helmer and he hasn't responded. I was wondering if you >> could help me. Thank you, >> Thang Nguyen >> >> >> ________________________________ >> >> From: Doug Greve [mailto:[EMAIL PROTECTED] >> Sent: Friday, April 07, 2006 3:36 PM >> To: Nguyen, Thang Q >> Subject: Re: Recon-all longitudinal script >> >> >> I think you run recon-all on the first time point, then -long on the >> subsequent ones. But I've never actually run it myself :). >> >> doug >> >> >> >> >> Nguyen, Thang Q wrote: >> Hello Doug Greve, >> I am trying to run a longitudinal analysis using the > recon-all-nmr-long >> binary from Xiao. I was wondering if you could answer some questions > I >> have. Do I need to process each longitudinal scan using recon-all > first >> and then apply the longitudinal analysis to the first scan or can I >> simply run the recon-all-nmr-long for the subsequent subjects without >> running recon-all on those datasets? >> Thank you for your time, >> -Thang >> >> >> >> >> >> > > _______________________________________________ > Freesurfer mailing list > [email protected] > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ Freesurfer mailing list [email protected] https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
