see https://bugs.gentoo.org/594544 --- src/tophat_reports.cpp.orig 2018-05-24 08:24:31.000000000 -0700 +++ src/tophat_reports.cpp 2019-01-26 23:15:57.000000000 -0700 @@ -2705,7 +2705,7 @@ junction_stat.gtf_match = true; junction_stat.accepted = true; - gtf_junctions.insert(make_pair(Junction(ref_id, left_coord, right_coord, antisense), junction_stat)); + gtf_junctions.insert(make_pair(Junction(ref_id, left_coord, right_coord, antisense), junction_stat)); } } fprintf(stderr, "Loaded %d GFF junctions from %s.\n", (int)(gtf_junctions.size()), gtf_juncs.c_str());