right the wmparc.mgz is not affected. Is your mac mountainlion or leopard or snowleopard?
On 08/21/2013 01:05 PM, Pedro Rosa wrote: > Hi, > I use two Macs. One with OS X 10.8.4 and one with OS X 10.8.3. > I suppose that if the problem is with the mri_segstats the wmparc.mgz should > not have been affected. I am correct? However, if I want to extract stats > from volumetry/surface perhaps I will find myself in trouble. > > Pedro Rosa > > On 21 Aug 2013, at 12:33 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> > wrote: > >> Yea, I don't think mac os comes with it by default. If you want to use >> this functionality, you'll have to install it. Zeke, can you point him >> in the right direction? >> >> to get back to your original problem, I think I gave you the wrong >> version of mri_segstats. What version of mac os do you have? If I get >> you the right version, then you might not need the make option. >> >> doug >> >> >> On 08/21/2013 12:06 PM, Pedro Rosa wrote: >>> Hi, >>> I could not find the make file. I am using Mac OS (most recent). >>> Thanks >>> >>> Pedro Rosa >>> >>> On 21 Aug 2013, at 10:51 AM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> >>> wrote: >>> >>>> You will need to add the "make" program to your path. In Linux, it is >>>> usually in /usr/bin >>>> doug >>>> >>>> >>>> On 08/20/2013 10:12 PM, Pedro Rosa wrote: >>>>> Hi, >>>>> Sorry for that! >>>>> I tried using several targets: all / autorecon1-2-3, and for all I get >>>>> 'make: command not found.' >>>>> I used recon-all -s subject -make target >>>>> Thank you again, >>>>> Pedro Rosa >>>>> >>>>> On 20 Aug 2013, at 12:34 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> >>>>> wrote: >>>>> >>>>>> They should be fine. BTW, you can run >>>>>> >>>>>> recon-all -s subject -make all >>>>>> >>>>>> and it will only run the parts that need to be run >>>>>> >>>>>> doug >>>>>> >>>>>> >>>>>> On 08/20/2013 12:13 PM, Pedro Rosa wrote: >>>>>>> Hi, >>>>>>> I am mainly interested in using the wmparc.mgz files. Are they alright >>>>>>> in the subjects with this error in autorecon2? It would be better if I >>>>>>> could use this processing, as doing it again in 80 subjects would take >>>>>>> a lot of time. Autorecon 1 and 3 ended without errors for all subjects. >>>>>>> I inspected the wmparc.mgz files as labels using Slicer 4, and they >>>>>>> seem fine. >>>>>>> Thanks, >>>>>>> Pedro Rosa. >>>>>>> >>>>>>> On 20 Aug 2013, at 10:28 AM, Douglas N Greve >>>>>>> <gr...@nmr.mgh.harvard.edu> wrote: >>>>>>> >>>>>>>> Hi Pedro, see the release notes for the issue >>>>>>>> http://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes >>>>>>>> doug >>>>>>>> >>>>>>>> On 08/19/2013 10:06 PM, Pedro Rosa wrote: >>>>>>>>> Hi experts, >>>>>>>>> I am processing several subjects, and they all ended up with the same >>>>>>>>> error at the autorecon2: ribbon.mgz could not be opened. I ran at >>>>>>>>> first the autorecon1 to check the skull striping, and then autorecon2 >>>>>>>>> and 3. Autorecon3 always finished without error. I attached a log >>>>>>>>> file. >>>>>>>>> >>>>>>>>> >>>>>>>>> Any help is appreciated. >>>>>>>>> Regards, >>>>>>>>> Pedro Rosa. >>>>>>>>> >>>>>>>>> >>>>>>>>> _______________________________________________ >>>>>>>>> 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. >>>>>> -- >>>>>> 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 >>>> -- >>>> 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 >> -- >> 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 > -- 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
