Improve logging, pickle output, expand options.
Improve logging, pickle output, expand options.

johnbachman/indra,pvtodorov/indra,pvtodorov/indra,johnbachman/belpy,pvtodorov/indra,pvtodorov/indra,johnbachman/indra,johnbachman/belpy,johnbachman/belpy,bgyori/indra,sorgerlab/indra,johnbachman/indra,bgyori/indra,sorgerlab/belpy,bgyori/indra,sorgerlab/indra,sorgerlab/belpy,sorgerlab/indra,sorgerlab/belpy