Hi Alejandro,

I am not sure what this error message means and I suspect Matt (Webster) would have a much better clue than me, but in the mean time, I just would like to double-check: have you used a mask in your randomise command? The rest looks ok to me.

Cheers,
Gwenaëlle

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Gwenaëlle Douaud, PhD
MRC Career Development Fellow

FMRIB Centre, University of Oxford
John Radcliffe Hospital, Headington
OX3 9DU Oxford UK
Tel: +44 (0) 1865 222 523
Fax: +44 (0) 1865 222 717

www.fmrib.ox.ac.uk/team/principal-investigators/gwenaelle-douaud
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De : Alejandro Cosa Liñán <[log in to unmask]>
À : [log in to unmask]
Envoyé le : Jeudi 11 juillet 2013 19h31
Objet : Re: [FSL] TBSS - Randomise

Thanks for the suggestion.
-d refers to the next argument, design matrix file. Is that correct?
Cheers,
Alex
El 11/07/2013 20:27, "Rosalia Dacosta Aguayo" <[log in to unmask]> escribió:
Hi,
It is just a suggestion, but have you tried without the -d flag?
Bert regards,
Rosalia.
El 11/07/2013 20:19, "Alejandro" <[log in to unmask]> escribió:
Dear all,
I am trying to perform an statistical analysis from FA Maps of two groups with 9 subjects each one using randomise function.
randomise is throwing an error at me after stalling at permutation 2. "Warning: tfce has detected a large number of integral steps. This operation may require a great deal of time to complete.
See attached more information.
Any suggestion about the issue?
Thanks in advance,
Alex

The call to the function is:
randomise  -i <input> -o <output> -d <design.mat> -t <design.con> -n 5000 --T2 -V

The design matrix is:

/NumWaves       2
/NumPoints      18
/PPheights              1.000000e+00    1.000000e+00

/Matrix
1.000000e+00    0.000000e+00
1.000000e+00    0.000000e+00
1.000000e+00    0.000000e+00
1.000000e+00    0.000000e+00
1.000000e+00    0.000000e+00
1.000000e+00    0.000000e+00
1.000000e+00    0.000000e+00
1.000000e+00    0.000000e+00
1.000000e+00    0.000000e+00
0.000000e+00    1.000000e+00
0.000000e+00    1.000000e+00
0.000000e+00    1.000000e+00
0.000000e+00    1.000000e+00
0.000000e+00    1.000000e+00
0.000000e+00    1.000000e+00
0.000000e+00    1.000000e+00
0.000000e+00    1.000000e+00
0.000000e+00    1.000000e+00

and contrast

/ContrastName1  group A > group B
/ContrastName2  group B > group A
/NumWaves       2
/NumContrasts   2
/PPheights              1.000000e+00    1.000000e+00
/RequiredEffect         2.801   2.801

/Matrix
1.000000e+00 -1.000000e+00
-1.000000e+00 1.000000e+00