Great! thanks so much!
On Sat, Jun 9, 2012 at 9:56 AM, Mark Jenkinson <[log in to unmask]> wrote:
> Hi Roberto,
>
> This looks like you have a very old version of FSL and sienax.
> Please update to the most recent version.
> The command avwmaths became fslmaths many years ago.
>
> All the best,
> Mark
>
>
> On 9 Jun 2012, at 06:22, Roberto wrote:
>
>> Hello,
>>
>> I am trying to use SIENAX to obtain total intracranial volume for some T1 niftii images.
>>
>> I am using the sienax command (running it off the terminal on a PC) and i receive an error message as follows:
>>
>> ERROR (nifti_image_read): failed to fined header file for '/software/fsl4/etc/standard/avg152T1_brain_mask_dil_.
>>
>> Indeed when I go to that folder, I do not find that particular file but I do have a lot of other 152 templates. Does this have to do with the version I have or the add-ons I have installed? (Note: I also have an error with that it cannot find avwmaths from the bin subfolder in fsl4.)
>>
>> If not, should I be using a different MNI template and if so, how can I specify, via command, which template to use. Also, I only assumed my input file should be a .nii. Is this ok?
>>
>> I ran the command as:
>>
>> sienax 3dvol.nii -d -2
>>
>> I am using t1 images
>>
>> Many thanks,
>> Robert
>>
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