Dear Douglas,
I checked km.ref.tac.dat and these are the values (I also copied the values
from km.hb.tac.dat):
hb ref
26.73126411 -4.761529326
-51.51094818 9.139505029
-44.41317749 -30.22258914
220.9154358 14.15057564
-148.9746399 -43.47668242
616.010437 693.7505493
3824.406494 1780.615295
5860.389648 4099.188477
9274.21582 7107.838867
13033.90234 11014.56836
20199.89453 15320.79248
26479.21094 19191.92676
22497.46875 22564.60352
33364.9375 23562.50488
32399.6543 25423.65039
30375.87891 27588.76758
31598.69531 28611.44141
36040.28125 28856.04297
33941.47266 29354.62598
36371.19922 29652.85645
36864.45313 29824.78809
36461.71875 30356.99902
37141.31641 29621.66504
35989.77734 29284.03418
34920.16406 28383.14063
32570.80273 27048.52637
31181.25195 26152.96777
30228.48438 24923.17285
30397.92188 23731.39355
27963.25391 22931.38672
27626.80859 21669.00781
27317.41406 20714.75098
24818.10352 19908.15332
25746.88867 18791.90332
23731.32227 17453.33691
21670.56445 16185.16846
20853.60156 14717.54785
19521.11523 13301.76416
18291.18164 12331.82324
17112.03125 11231.87012
16750.16797 10366.62256
15137.30078 8969.751953
12795.11328 7273.169434
11052.7207 5976.648193
9589.397461 4914.908691
7955.464844 3755.181274
6104.589844 2690.000854
4789.041016 1954.52179
3701.868652 1439.027466
2905.178223 1106.310547
2309.740967 834.9413757
1885.463867 654.3575439
1415.454956 498.8769073
1100.553345 413.3814087
930.8244629 313.5371246
754.6965332 260.3549805
633.7663574 190.4842987
523.4249878 171.7433548
The output is this one:
MacBook-Pro:~ usr$ cd $SUBJECTS_DIR
MacBook-Pro:~ usr$ mri_glmfit.bin --y gtmpvc/km.hb.tac.nii.gz --mrtm1
gtmpvc/km.ref.tac.dat time.dat --o mrtm1 --no-est-fwhm --nii.gz
Segmentation fault: 11
Unfortunately, there is no more information.
I am running the command on a Mac OS X 10.9.5.
What do you think?
Thank you and kind regards,
CP
On Mon, Nov 13, 2017 at 4:18 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>
wrote:
> Please check the reference TAC. Also, please send the full terminal output
>
>
> On 11/11/2017 06:07 AM, Conchy PF wrote:
> > Dear Douglas,
> >
> > I had the same problem as Jonathan described in his post "PET
> > processing seg fault with mri_glmfit --mrtm1"
> > (https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/
> 2016-January/043144.html).
> >
> > In my case, I used this command:
> >
> > mri_glmfit --y gtmpvc/km.hb.tac.nii.gz --mrtm1 gtmpvc/km.ref.tac.dat
> > time.dat --o mrtm1 --no-est-fwhm --nii.gz
> >
> > And I got this message:
> >
> > /Applications/freesurfer/bin/mri_glmfit: line 3: 27756 Segmentation
> > fault: 11mri_glmfit.bin "$@"
> >
> > Following your advice, I checked if km.hb.tac.nii.gz was all 0 using
> >
> > hb = fast_vol2mat( MRIread('km.hb.tac.nii.gz'));
> > plot(hb)
> >
> > in matlab, but that is not the case
> >
> > Inline image 1
> >
> > I also checked the table.dat format and it was correct, and I tried
> > using mri_glmfit.bin command insted, but it did not work.
> >
> > Could you give me some advice, so I can keep running the PET surfer
> > pipeline?
> >
> > Thank you in advance and kind regards,
> >
> > CP
> >
> >
> > _______________________________________________
> > Freesurfer mailing list
> > Freesurfer@nmr.mgh.harvard.edu
> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> gr...@nmr.mgh.harvard.edu
> Phone Number: 617-724-2358
> Fax: 617-726-7422
>
> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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>
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