Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-04-06 Thread Anthony Dick
Hello--was wondering if you guys have any ideas. I am a bit stumped. Thanks for the help! Anthony On 4/4/12 4:50 PM, Anthony Dick wrote: No, but the conversion from the original .nii works... [miles:[PATH]] adick% mri_convert chuman_1.mgz junk.mgh mri_convert chuman_1.mgz junk.mgh $Id:

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-04-06 Thread Douglas N Greve
can you upload chuman_1.nii to our file drop? On 04/06/2012 11:30 AM, Anthony Dick wrote: Hello--was wondering if you guys have any ideas. I am a bit stumped. Thanks for the help! Anthony On 4/4/12 4:50 PM, Anthony Dick wrote: No, but the conversion from the original .nii works...

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-04-06 Thread Bruce Fischl
if you email me the .mgz I'll fix it. On Fri, 6 Apr 2012, Anthony Dick wrote: Hello--was wondering if you guys have any ideas. I am a bit stumped. Thanks for the help! Anthony On 4/4/12 4:50 PM, Anthony Dick wrote: No, but the conversion from the original .nii works... [miles:[PATH]]

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-04-04 Thread Anthony Dick
Hello Bruce, Sorry--just getting back to this project. The basic problem is that I am trying to align a cerebellar parcellation with the underlay in tkmedit. I was working on this with Doug, and his suggestion actually worked, and now I can't get it to work again (see thread:

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-04-04 Thread Douglas N Greve
Can you successfully run mri_convert on chuman_1.mgz, eg mri_convert chuman_1.mgz junk.mgh doug On 04/04/2012 12:29 PM, Anthony Dick wrote: Hello Bruce, Sorry--just getting back to this project. The basic problem is that I am trying to align a cerebellar parcellation with the underlay in

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-04-04 Thread Anthony Dick
No, but the conversion from the original .nii works... [miles:[PATH]] adick% mri_convert chuman_1.mgz junk.mgh mri_convert chuman_1.mgz junk.mgh $Id: mri_convert.c,v 1.179.2.2 2011/05/16 20:53:47 greve Exp $ reading from chuman_1.mgz... MRIallocIndices: could not allocate 1701979223 elt index

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-04-04 Thread Douglas N Greve
What version are you using? One of our versions had a problem with creating bad mgzs. You probably don't need to convert it to mgz. Can you run mri_label2vol with the original nii and see if it works? doug On 04/04/2012 04:50 PM, Anthony Dick wrote: No, but the conversion from the original

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-03-07 Thread Anthony Dick
Hello--I am giving this message a bump. Please let me know if there are any suggestions. Thanks! Anthony On 2/15/12 1:43 PM, Anthony Dick wrote: Hello, I have run the following successfully, but when I have moved on to other brains I get: mri_label2vol --seg chuman_1.mgz --temp orig.mgz

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-03-07 Thread Bruce Fischl
Hi Anthony sounds like there is something wrong with one of your volumes. Can you ru mri_info on them? Bruce On Wed, 7 Mar 2012, Anthony Dick wrote: Hello--I am giving this message a bump. Please let me know if there are any suggestions. Thanks! Anthony On 2/15/12 1:43 PM, Anthony Dick

Re: [Freesurfer] mri_label2vol cannot allocate memory

2012-03-07 Thread Douglas N Greve
Hi Anthony, what's in chuman_1.mgz? How many labels? doug Anthony Dick wrote: Hello--I am giving this message a bump. Please let me know if there are any suggestions. Thanks! Anthony On 2/15/12 1:43 PM, Anthony Dick wrote: Hello, I have run the following successfully, but when I

[Freesurfer] mri_label2vol cannot allocate memory

2012-02-15 Thread Anthony Dick
Hello, I have run the following successfully, but when I have moved on to other brains I get: mri_label2vol --seg chuman_1.mgz --temp orig.mgz --regheader chuman_1.mgz --o chuman_1.conf.mgz MRIalloc: could not allocate 975187978 frame Cannot allocate memory I am running a Mac Pro with 8GB