Hi Freesurfers,
Have had this error come up after recon-all for a number of subjects and was wondering if you know what the issue is..? I have attached the recon-all.log too FYI.
INFO: assuming .mgz format $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ $Id: mrisurf.c,v 1.693.2.2 2011/04/27 19:21:05 nicks Exp $ MRISread(/home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix): could not open file reading input surface /home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix... No such file or directory mris_fix_topology: could not read input surface /home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix No such file or directory
As the error suggests cannot read lh.qsphere, there is indeed nothing at all in the surf folder. Thanks for all your help, Hugh
Looks like the careg died, probably because you ran out of memory. Was anything else running on the machine?
On Aug 28, 2012, at 10:17 PM, Hugh Pemberton hughpemberton1@gmail.com wrote:
Hi Freesurfers,
Have had this error come up after recon-all for a number of subjects and was wondering if you know what the issue is..? I have attached the recon-all.log too FYI.
INFO: assuming .mgz format $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ $Id: mrisurf.c,v 1.693.2.2 2011/04/27 19:21:05 nicks Exp $ MRISread(/home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix): could not open file reading input surface /home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix... No such file or directory mris_fix_topology: could not read input surface /home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix No such file or directory
As the error suggests cannot read lh.qsphere, there is indeed nothing at all in the surf folder. Thanks for all your help, Hugh <recon-all.error> <recon-all.log> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Yeah had 4/5 other processes going together, shall I just sort memory and re-do? Thanks for such a speedy response! Hugh
On 29 Aug 2012, at 12:35, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Looks like the careg died, probably because you ran out of memory. Was anything else running on the machine?
On Aug 28, 2012, at 10:17 PM, Hugh Pemberton hughpemberton1@gmail.com wrote:
Hi Freesurfers,
Have had this error come up after recon-all for a number of subjects and was wondering if you know what the issue is..? I have attached the recon-all.log too FYI.
INFO: assuming .mgz format $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ $Id: mrisurf.c,v 1.693.2.2 2011/04/27 19:21:05 nicks Exp $ MRISread(/home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix): could not open file reading input surface /home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix... No such file or directory mris_fix_topology: could not read input surface /home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix No such file or directory
As the error suggests cannot read lh.qsphere, there is indeed nothing at all in the surf folder. Thanks for all your help, Hugh <recon-all.error> <recon-all.log> _______________________________________________ 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.
That's my best guess.
Good luck Bruce
On Aug 28, 2012, at 11:07 PM, Hugh Pemberton hughpemberton1@gmail.com wrote:
Yeah had 4/5 other processes going together, shall I just sort memory and re-do? Thanks for such a speedy response! Hugh
On 29 Aug 2012, at 12:35, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Looks like the careg died, probably because you ran out of memory. Was anything else running on the machine?
On Aug 28, 2012, at 10:17 PM, Hugh Pemberton hughpemberton1@gmail.com wrote:
Hi Freesurfers,
Have had this error come up after recon-all for a number of subjects and was wondering if you know what the issue is..? I have attached the recon-all.log too FYI.
INFO: assuming .mgz format $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ $Id: mrisurf.c,v 1.693.2.2 2011/04/27 19:21:05 nicks Exp $ MRISread(/home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix): could not open file reading input surface /home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix... No such file or directory mris_fix_topology: could not read input surface /home/hughp/freesurfer/subjects/FAC/surf/lh.qsphere.nofix No such file or directory
As the error suggests cannot read lh.qsphere, there is indeed nothing at all in the surf folder. Thanks for all your help, Hugh <recon-all.error> <recon-all.log> _______________________________________________ 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@nmr.mgh.harvard.edu
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Bruce Fischl -
Hugh Pemberton