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] On Behalf Of Douglas N Greve
> Sent: Tuesday, December 04, 2012 11:58 AM
> To: 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] *On Behalf Of *Jos?
>> ?ngel Pineda
>> *Sent:* Tuesday, December 04, 2012 9:07 AM
>> *To:* 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
--José Angel Pineda Pardo
Center of Biomedical Technology (CTB)
Parque Científico y Tecnológico de la UPM
Campus de Montegancedo
28223 Pozuelo de Alarcón, Madrid, ES