Hello Doug,
Thanks so much for fixing this bug. I tried it and
it works perfectly fine and it solves the problem that I had.
Many thanks again,
Nasim
> Nasim and Judith (and
everyone else),
>
> I've found and fixed a bug that was
causing the surfcluster results for
> the mc and perm simulations
of absolute "abs" contrasts.
>
> To implement
the fix, get Linux 64bit versions of these files and copy
> them
to $FREESURFER_HOME/bin (make backups of the originals:).
>
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_surfcluster
>
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_glmfit
>
> You can then run something like:
>
>
mri_glmfit-sim --glmdir yourglmdir --no-sim mc-z.abs
>
>
The "--no-sim" option tells it NOT to do the full simulation
again, just
> use the CSDs that are there to recompute the cluster
results for each
> contrast, so it should be done in a matter of
minutes.
>
> If you've used a permutation, then run
>
> mri_glmfit-sim --glmdir yourglmdir --no-sim perm.abs
>
> Please let me know if this fixes the problem.
>
> doug
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