diff --git a/src/minimizer_mapper.cpp b/src/minimizer_mapper.cpp index b8fa8ed8bd..df0f9fbbaa 100644 --- a/src/minimizer_mapper.cpp +++ b/src/minimizer_mapper.cpp @@ -2072,7 +2072,7 @@ pair, vector> MinimizerMapper::map_paired(Alignment if (show_work) { #pragma omp critical (cerr) { - cerr << log_name() << "Found no pairs and we aren't doing rescue: return best alignment for each read" << endl; + cerr << log_name() << "Found no pairs" << endl; } } std::array best_index {NO_INDEX, NO_INDEX}; @@ -2088,6 +2088,14 @@ pair, vector> MinimizerMapper::map_paired(Alignment } if (max_rescue_attempts == 0 ) { // If we aren't attempting rescue, just return the best alignment from each end. + + if (show_work) { + #pragma omp critical (cerr) + { + cerr << log_name() << "Not attempting rescue; return best alignment for each read" << endl; + } + } + // By default, use argument alignments for scratch. std::array best_aln {alns[0], alns[1]};