Hello Bruce: My apologies for the incomplete way to raise the question. Anyway, we have solved it. Thank you very much.
On Fri, Mar 17, 2017 at 3:30 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Manuel > > how do you know it is binary? Have you tried changing the window levels in > freeview when you view it? And in general when you report errors please > include the full screen output of what you ran, and in cases like this, and > image to illustrate the issue. > > cheers > Bruce > > > On Fri, 17 Mar 2017, Manuel Delgado wrote: > > After recon-all (recon-all -all -s 479_001), which finished without >> errors, >> the T1.mgz appears as a binary mask. I am using Freesurfer v 6.0 and >> Ubuntu >> 16.04. Please let me know if you need further files. >> Thank you, >> >> >> Manuel >> >> On Thu, Mar 16, 2017 at 4:09 PM, Douglas N Greve < >> gr...@nmr.mgh.harvard.edu> >> wrote: >> what is the error exactly? Please provide the recon-all.log file >> and a >> description of the problem >> >> >> On 03/16/2017 06:28 AM, Manuel Delgado wrote: >> > Dear list, >> > After recon-all the T1 seems to have an error. Has anybody had >> this >> > problem before? Please find attached the image. I guess I have >> to >> > recon-all again. I am using v 6.0 with Ubuntu 16.04. >> > Thank you. >> > >> > -- >> > *Manuel Delgado Alvarado, MD* >> > Neurology Department >> > Neuroimaging Unit >> > Valdecilla Biomedical Research Institute, IDIVAL >> > Santander, SPAIN >> > >> > >> > _______________________________________________ >> > 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. >> >> >> >> >> -- >> Manuel Delgado Alvarado, MD >> Neurology Department >> Neuroimaging Unit >> Valdecilla Biomedical Research Institute, IDIVAL >> Santander, SPAIN >> >> > _______________________________________________ > 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. > > -- *Manuel Delgado Alvarado, MD* Neurology Department Neuroimaging Unit Valdecilla Biomedical Research Institute, IDIVAL Santander, SPAIN
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