I believe the issue is that you are entering a string that contains thresh1,
since its a string, it's not looking for a variable.
Try changing 'i2.*(i1>thresh1)' to ['i2.*(i1>' thresh1 ')']
Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Postdoctoral Research Fellow, GRECC, Bedford VA
Research Fellow, Department of Neurology, Massachusetts General Hospital and
Harvard Medical School
Office: (773) 406-2464
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On Sun, May 15, 2011 at 6:45 PM, G Elliott Wimmer <[log in to unmask]>wrote:
> Hi,
>
> I'm having a simple problem with spm_imcalc / spm_imcalc_ui. I need to
> read in a variable to be used in the imcalc equation.
>
> The basic idea is to do this:
>
> spm_imcalc_ui({'input1.img','input2.img'},'output.img','i2.*(i1>thresh1)')
>
> in a batch script, where 'thresh1' is a value previously calculated for
> each subject. The function works if I use a simple number, e.g. '1', in
> place of the variable.
>
> However, adapting the command to read in the extra variable, for example:
>
>
> spm_imcalc({'input1.img','input2.img'},'output.img','i2.*(i1>thresh1)',{[],[],[],[]},thresh1);
>
> has not worked. I think I must be missing something about the syntax.
> (Judging by the lack of questions posted to the board on imcalc and
> variables, it's something obvious, or it's a function that SPM people never
> use.)
>
> Thank you for any help!
>
> Best regards,
>
> Elliott
>
>
> Dept. of Psychology
> Columbia University
> New York, NY
>
