The km.hb.tac.nii.gz is not a volume. It is a single voxel of data
stored in nii format. This format is needed to input to mri_glmfit. Try
loading it in matlab, eg,
hb = fast_vol2mat( MRIread('km.hb.tac.nii.gz'));
plot(hb)
if that is all 0s then it will surely cause mrtm1 to fail.
doug
On 01/07/2016 11:40 PM, Jonathan DuBois wrote:
> Hi Freesurfer developers,
>
> I’m trying to perform BP analysis with mri_glmfit —mrtm1. I ran mri_gtmpvc
> without PVC, which finished without error. However, the km.hb.tac.nii.gz
> appears empty when I open it with fslview or tkmedit, although this may be
> due to the nature of the file (I’m not sure what it is supposed to show). The
> km.ref.tac.dat and km.hb.tac.dat are normal.
> Please let me know what you think.
>
> The command and error:
> mri_glmfit --y km.hb.tac.nii.gz --mrtm1 km.ref.tac.dat time.dat --o mrtm1
> --no-est-fwhm --nii.gz
> Segmentation fault (core dumped)
>
> Where time.dat is a text file with the time (in seconds) of each frame:
> 0 30 60 90 120 150 180 240 300 360 420 540 660 780 900 1020 1140 1260 1380
> 1620 1860 2100 2400 2700 3000 3300
>
> I’m using the linux version 6 beta downloaded on Oct. 30th
> freesurfer-Linux-centos4_x86_64-dev-20151030
>
> Best,
> Jonathan
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>
>
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
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