for mac use
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_label2vol.mac
<ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_label2vol.linux32>
doug

On 12/05/2012 05:11 AM, Jos? ?ngel Pineda wrote:
> Hi again,
>
> Sure I did set the permissions for execution, and also for this new
> one I am still having the same error. "/Exec format error. Binary file
> not executable/". I tried this on two macs (OSX Snow Leopard). I am
> still thinking that this is a compilation issue of the script, that is
> just compiled for linux.
>
> Thanks for your help
>
>     Try this one
>     ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_label2vol.linux32
>
>     On 12/04/2012 12:13 PM, Sarosh, Cyrus wrote:
>     > Doug,
>     >
>     > I am unsure if Jose did this in his attempts to get it to work,
>     but I ran this command after downloading and receiving this error
>     initially and even after running this command I still receive the
>     same error in the Windows virtual machine version of FreeSurfer.
>     Any other ideas?
>     >
>     > Thanks,
>     >
>     > Cyrus
>     >
>     > -----Original Message-----
>     > From: freesurfer-bounces@nmr.mgh.harvard.edu
>     <mailto:freesurfer-bounces@nmr.mgh.harvard.edu>
>     [mailto:freesurfer-bounces@nmr.mgh.harvard.edu
>     <mailto:freesurfer-bounces@nmr.mgh.harvard.edu>] On Behalf Of
>     Douglas N Greve
>     > Sent: Tuesday, December 04, 2012 11:58 AM
>     > To: freesurfer@nmr.mgh.harvard.edu
>     <mailto:freesurfer@nmr.mgh.harvard.edu>
>     > Subject: Re: [Freesurfer] (no subject)
>     >
>     > Hi Jose, did you set the permissions to be executable?
>     > chmod a+x mri_label2vol
>     > doug
>     >
>     >
>     > On 12/04/2012 11:34 AM, Sarosh, Cyrus wrote:
>     >> Doug,
>     >>
>     >> I am also curious about this mri_label2vol upgrade. Will this
>     work on
>     >> the Windows virtual machine version of FreeSurfer? I downloaded and
>     >> placed it in the FREESURFER/bin directory, but when trying to
>     run it I
>     >> receive an error that states: Exec format error. Binary file not
>     >> executable. Thanks for your help.
>     >>
>     >> Cyrus
>     >>
>     >> *From:*freesurfer-bounces@nmr.mgh.harvard.edu
>     <mailto:freesurfer-bounces@nmr.mgh.harvard.edu>
>     >> [mailto:freesurfer-bounces@nmr.mgh.harvard.edu
>     <mailto:freesurfer-bounces@nmr.mgh.harvard.edu>] *On Behalf Of *Jos?
>     >> ?ngel Pineda
>     >> *Sent:* Tuesday, December 04, 2012 9:07 AM
>     >> *To:* freesurfer@nmr.mgh.harvard.edu
>     <mailto:freesurfer@nmr.mgh.harvard.edu>
>     >> *Subject:* [Freesurfer] (no subject)
>     >>
>     >> Thanks Doug,
>     >>
>     >> I already downloaded the new script for mri_label2vol, but it
>     seems it
>     >> is just compiled for linux, as I cannot execute it in my Mac.
>     If it is
>     >> so, could you please upload another compiled for mac, or source.
>     >> Thanks
>     >>
>     >> Jose
>     >>
>     >>      For the missing insula problem, try using a newer version of
>     >>      mri_label2vol
>     >>
>     >>
>     ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_labe
>     >> l2vol
>     >>
>     >>      The 2nd problem is not so easy to fix. You might be better
>     off using
>     >>      aparc+aseg.mgz as input to mri_label2vol instead of the
>     surface
>     >>      annotation.
>     >>      doug
>     >>
>     >>
>     >>      On 12/3/12 10:35 AM, Jos? ?ngel Pineda wrote:
>     >>      > Dear experts,
>     >>      >
>     >>      > I am registering cortical labels from Talairach
>     coordinates to my
>     >>      > native T1. For doing this, I have run the next script lines:
>     >>      >
>     >>      >
>     >>      > tkregister --targ brainmask.mgz --mov
>     highres_brain.nii.gz --reg
>     >>      > T1FS2Highres.dat --regheader --noedit
>     >>      >
>     >>      > mri_label2vol --annot rh.aparc.annot --temp
>     highres_brain.nii.gz
>     >>      --reg
>     >>      > T1FS2Highres.dat --o rh_aparc.nii.gz --hemi rh --subject
>     FS --proj
>     >>      > frac 0 1 .1 --fillthresh .3
>     >>      >
>     >>      > and the same for the left hemi.
>     >>      >
>     >>      > However I am finding two problems at the result. First
>     Insula is
>     >>      > missing for both hemispheres, and second the cortical
>     ROIs have the
>     >>      > shape of the figure attached, e.g. there are many voxels
>     empty
>     >>      >
>     >>      > Im?genes integradas 1
>     >>      >
>     >>      > I found in previous topics, that the mri_label2vol, was
>     updated
>     >>      as it
>     >>      > left last volume from the list out of the conversion. I
>     tried to
>     >>      > download it, but it is just compiled for linux, and
>     since Im working
>     >>      > with mac I am not able to run it. Could you please give
>     me any
>     >>      > comments to solve the problem with the missing voxels.
>     >>      > About the problem with the insula, the other option is
>     to just
>     >>      extract
>     >>      > it with mri_annotation2label, but if I could get the
>     mri_label2vol
>     >>      > working correctly it would be better.
>     >>      >
>     >>      > Thanks a lot
>     >>      >
>     >>      > Jose