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Follow !62 in qee_upgrade

Ross John Hunter requested to merge qee-follow-62 into qee_upgrade

FYI @wbarter

!62 (merged) sets the default behaviour of make_charged_protoparticles to enable muon ID by default. We therefore no longer have to specify this option in options files. I propagate that change to qee_upgrade here.

Goes with Moore!1168 (merged)

Edited by Ross John Hunter

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