Use the ApplyXFM GUI - select your mask as the input, and the 1mm
standard brain as the output - click "Use identity transformation"
and name the output whatever you like.
Cheers
T
On 15 Feb 2008, at 16:56, Hallvard Røe Evensmoen wrote:
> That was a good suggestion. I just found out that it was the case.
> How would you have transformed the mask into a 1mm resolution?
>
> Siterer Tim Behrens <[log in to unmask]>:
>
>> Hi Hallvard -
>> Can we just check that you are sure you used this standard image when
>> you ran the 1st level analyses.
>> For example, you didn't select the 1mm standard brain by mistake?
>>
>> Cheers
>>
>> T
>>
>>
>> On 15 Feb 2008, at 13:52, Hallvard Røe Evensmoen wrote:
>>
>>> Thanks for quick answear. I don`t know. The data for the
>>> standard space image and the self-made mask are here:
>>> pintzka@linux-sopg:/media/ubuntu/Navigasjon/ROI_masks> fslinfo
>>> MNI152_T1_2mm_brain
>>> data_type INT16
>>> dim1 91
>>> dim2 109
>>> dim3 91
>>> dim4 1
>>> datatype 4
>>> pixdim1 2.0000000000
>>> pixdim2 2.0000000000
>>> pixdim3 2.0000000000
>>> pixdim4 1.0000000000
>>> cal_max 8000.0000
>>> cal_min 3000.0000
>>> file_type NIFTI-1+
>>> pintzka@linux-sopg:/media/ubuntu/Navigasjon/ROI_masks> fslinfo
>>> MTL-mask_square2_bilateral
>>> data_type INT16
>>> dim1 91
>>> dim2 109
>>> dim3 91
>>> dim4 1
>>> datatype 4
>>> pixdim1 2.0000000000
>>> pixdim2 2.0000000000
>>> pixdim3 2.0000000000
>>> pixdim4 0.0000000000
>>> cal_max 1.0000
>>> cal_min 0.0000
>>> file_type NIFTI-1+
>>>
>>> Siterer Tim Behrens <[log in to unmask]>:
>>>
>>>> Sounds to me as if your self-made mask was not the same size as the
>>>> standard space image you are using.
>>>>
>>>> Your results will be in this space, and therefore so should your
>>>> mask be.
>>>>
>>>> Cheers
>>>>
>>>> T
>>>>
>>>>
>>>> On 15 Feb 2008, at 13:26, Hallvard Røe Evensmoen wrote:
>>>>
>>>>> When trying to use a self-made binary MTL mask on a third level
>>>>> analysis in FSL, we got this error message:
>>>>> /usr/local/fsl/bin/fslmaths thresh_zstat1 -mas
>>>>> /media/ubuntu/Navigasjon/ROI_masks/MTL-
>>>>> mask_square2_bilateral.nii.gz
>>>>> thresh_zstat1
>>>>> Image Exception : #3 :: Attempted to multiply images/ROIs of
>>>>> different sizes
>>>>> terminate called after throwing an instance of
>>>>> 'RBD_COMMON::BaseException'
>>>>>
>>>>> And the output were as if we not had used any mask at all....
>>>>>
>>>>> Anyone got any suggestions about what might have gone wrong?,
>>>>> and we
>>>>> would be grateful to hear.
>>>>>
>>>>> Hallvard Røe Evensmoen
>>>>>
>>>
>
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