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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
