Added printing of alignments in phrase-based output
Added printing of alignments in phrase-based output

fhieber/incubator-joshua,thammegowda/incubator-joshua,fhieber/incubator-joshua,fhieber/incubator-joshua,fhieber/incubator-joshua,thammegowda/incubator-joshua,thammegowda/incubator-joshua,lukeorland/joshua,thammegowda/incubator-joshua,thammegowda/incubator-joshua,lukeorland/joshua,lukeorland/joshua,lukeorland/joshua,thammegowda/incubator-joshua,lukeorland/joshua,fhieber/incubator-joshua,lukeorland/joshua,lukeorland/joshua,fhieber/incubator-joshua,thammegowda/incubator-joshua,thammegowda/incubator-joshua,fhieber/incubator-joshua,thammegowda/incubator-joshua,lukeorland/joshua,lukeorland/joshua,fhieber/incubator-joshua,fhieber/incubator-joshua,thammegowda/incubator-joshua