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Thanks for all help, and quick answers. Hallvard Røe Evensmoen Siterer Tim Behrens <[log in to unmask]>: > 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 >>>>>> >>>> >>