Hi, Pelle.
I ran the default Geant4 overlap check on your new detector model and here are the results.
http://www.slac.stanford.edu/~jeremym/hps/HPSTracker2014-v0_overlaps.txt
You can run the check yourself with a command like
slic -g ./detectors/HPSTracker2014-v0.lcdd -m ./overlaps.mac &> HPSTracker2014-v0_overlaps.txt
where overlaps.mac is a text file with
/geometry/test/run
There appear to be some pretty serious overlaps in your detector.
You should look into this because these types of problems can cause incorrect/unexpected results in the simulation.
--Jeremy
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