Fixed a solo output problem introduced in now the results are again identical to 2.7.0e
@@ -184,6 +184,7 @@ void ReadAlign::outputAlignments() {
if (unmapType>=0) {
statsRA.unmappedAll++;
+ soloRead->record(readNameExtra.at(0), nTr, readTrGenes, trMult[0]);//record CBs and stats for unmapped reads
};
if ( P.outSAMunmapped.within && unmapType>=0 && unmapType<4 ) {//output unmapped within && unmapped read && both mates unmapped
