Thats odd. Does that file exist? What are the permissions of it? ls -l /home/iplneurosurgery/Documents/freesurfer/subjects/bert/mri/brainmask.mgz
> IPL Neurosurgery has shared aâ¯OneDriveâ¯file with you. To view it, > click the link below. > > > <https://1drv.ms/u/s!AiMzXSfGawBBdqVKAa4rOGRiPGw> > [https://r1.res.office365.com/owa/prem/images/dc-generic_20.png]<https://1drv.ms/u/s!AiMzXSfGawBBdqVKAa4rOGRiPGw> > > recon-all 1.log<https://1drv.ms/u/s!AiMzXSfGawBBdqVKAa4rOGRiPGw> > > > > > Hi, > > > We have encountered a error in skull stripping process in bert sample. We > are a novice. We attached the log. > > > Command : recon-all -s bert -all > > > #@# Skull Stripping Sat Mar 18 14:58:05 IST 2017 > /home/iplneurosurgery/Documents/freesurfer/subjects/bert/mri > > mri_watershed -rusage > /home/iplneurosurgery/Documents/freesurfer/subjects/bert/touch/rusage.mri_watershed.dat > -keep brainmask.auto.mgz brainmask.mgz brainmask.mgz -T1 -brain_atlas > /home/iplneurosurgery/Documents/freesurfer/average/RB_all_withskull_2016-05-10.vc700.gca > transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz > > > Keeping brain edits brainmask.auto.mgz brainmask.mgz > Mode: T1 normalized volume > Mode: Use the information of atlas (default parms, --help for > details) > mghRead(/home/iplneurosurgery/Documents/freesurfer/subjects/bert/mri/brainmask.mgz, > -1): read error > > ********************************************************* > The input file is T1.mgz > The output file is brainmask.auto.mgz > No such file or directory > Linux localhost.localdomain 3.10.0-514.6.1.el7.x86_64 #1 SMP Wed Jan 18 > 13:06:36 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux > > recon-all -s bert exited with ERRORS at Sat Mar 18 14:58:06 IST 2017 > > freesurfer version: > freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c > > > Platform: Cent OS 7 > > > uname -a : 3.10.0-514.6.1.el7.x86_64 #1 SMP Wed Jan 18 13:06:36 UTC 2017 > x86_64 x86_64 x86_64 GNU/Linux > > Any Suggestion will be appreciated. > > > Thanking you, > > > IPL Neurosurgery. > > > > Sent from Outlook<http://aka.ms/weboutlook> > _______________________________________________ > 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.
