diff --git a/src/overlapErrorAdjustment/correctOverlaps.C b/src/overlapErrorAdjustment/correctOverlaps.C index 0a3281013..41d1bfab7 100644 --- a/src/overlapErrorAdjustment/correctOverlaps.C +++ b/src/overlapErrorAdjustment/correctOverlaps.C @@ -62,7 +62,6 @@ main(int argc, char **argv) { } else if (strcmp(argv[arg], "-s") == 0) { G->checkTrivialDNA = true; - fprintf(stderr, "Correcting HIFI reads\n"); } else if (strcmp(argv[arg], "-c") == 0) { // For 'corrections' file input G->correctionsName = argv[++arg]; @@ -145,6 +144,9 @@ main(int argc, char **argv) { // Load the reads for the overlaps we are going to be correcting, and apply corrections to them fprintf(stderr, "Correcting reads " F_U32 " to " F_U32 ".\n", G->bgnID, G->endID); + fprintf(stderr, " %s alignment errors in simple sequence repeats (-s %ssupplied).\n", + G->checkTrivialDNA ? "Ignoring" : "Allowing", + G->checkTrivialDNA ? "" : "not "); FILE *correctedReads = G->correctedName == NULL ? NULL : fopen(G->correctedName, "w"); Correct_Frags(G, seqStore, correctedReads);