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You'd need to use imcalc to average the contrast images for each subject.

In the future, I'd just use 1 big model, with N sessions in the model. SPM has a few options for creating contrast vectors via the contrast manager. Additionally, if you have experience with MATLAB, you could look at createVec.m (part of the gPPI toolbox on NITRC) to create contrast vectors and then either copy them into SPM or write a script to compute the contrast based on the contrast vector.


Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Research Fellow, Department of Neurology, Massachusetts General Hospital and
Harvard Medical School
Postdoctoral Research Fellow, GRECC, Bedford VA
Website: http://www.martinos.org/~mclaren
Office: (773) 406-2464
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On Mon, Mar 30, 2015 at 5:55 AM, Johannes Klene <[log in to unmask]> wrote:
Dear SPM experts,
In order to deal with the fact that some runs (within-subject) have a different number of conditions I have analyzed these runs separately, and therefore now need to average over them (https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=spm;def10bbf.1503) or at least for the contrasts that I'm interested in (only first four). How do I do that (, keeping in mind I do not have that much experience with SPM yet)?
Thank you. Kind regards, Johannes.