Document mongoBnd = new Document(); putNotNull(mongoBnd, SV_BND_ORIENTATION, sv.getBreakend().getOrientation().toString()); putNotNull(mongoBnd, SV_BND_INS_SEQ, sv.getBreakend().getInsSeq()); if (sv.getBreakend().getMate() != null) { Document mongoBndMate = new Document();
Breakend bnd = sv.getBreakend(); VariantProto.Breakend.Builder bndBuilder = VariantProto.Breakend.newBuilder(); ifNotNull(bnd.getInsSeq(), bndBuilder::setInsSeq);