Hi,
I have installed Freesurfer (Leopard version) on Mac Mountain Lion and tried to use it for a full segmentation (recon-all -all). On my own files I get a problem with Talairach, the program aborts and I get the recommendation to try it with -notal–check. I have done this and Freesurfer has since then taken 6 days to run one brain. I have started the example script with Bert and it has run 4 days. I have aborted all the processes now and am asking for help. All other steps in the Testing protocol with Bert seem to work apart from the recon-all -all. I am using 7T data (but with just 1mm isotropic resolution), which is where I thought the problem came from. Since the example script also does not run (that is, does not finish), it seems to be a problem with the installation and possibly my Mac version. Do you have any suggestion how to solve this?
Best, Paula
Paula Vieweg Aging & Cognition Research Group German Center for Neurodegenerative Diseases (DZNE) Building 15, Room 309a Leipziger Str. 44 39120 Magdeburg GERMANY
phone: +49-391-67-24520 email: paula.vieweg@dzne.demailto:paula.vieweg@dzne.de
Paula,
what is the processor type and speed? how much memory do you have on your system?
Nick
On Mon, 2013-02-25 at 11:50 +0100, Vieweg, Paula /DZNE wrote:
Hi,
I have installed Freesurfer (Leopard version) on Mac Mountain Lion and tried to use it for a full segmentation (recon-all -all). On my own files I get a problem with Talairach, the program aborts and I get the recommendation to try it with -notal–check. I have done this and Freesurfer has since then taken 6 days to run one brain. I have started the example script with Bert and it has run 4 days. I have aborted all the processes now and am asking for help. All other steps in the Testing protocol with Bert seem to work apart from the recon-all -all. I am using 7T data (but with just 1mm isotropic resolution), which is where I thought the problem came from. Since the example script also does not run (that is, does not finish), it seems to be a problem with the installation and possibly my Mac version. Do you have any suggestion how to solve this?
Best, Paula
Paula Vieweg Aging & Cognition Research Group German Center for Neurodegenerative Diseases (DZNE) Building 15, Room 309a Leipziger Str. 44 39120 Magdeburg GERMANY
phone: +49-391-67-24520 email: paula.vieweg@dzne.de _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Nick Schmansky -
Vieweg, Paula /DZNE