From c512842109bb0316f12bf85fef45c520e2da2cab Mon Sep 17 00:00:00 2001 From: milkschen Date: Tue, 24 Dec 2024 16:17:20 -0800 Subject: [PATCH] default should be kbest = false --- bt2_search.cpp | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/bt2_search.cpp b/bt2_search.cpp index 1cd19b06..53c8a294 100644 --- a/bt2_search.cpp +++ b/bt2_search.cpp @@ -316,7 +316,7 @@ static void resetOptions() { outType = OUTPUT_SAM; // style of output noRefNames = false; // true -> print reference indexes; not names khits = 1; // number of hits per read; >1 is much slower - kbest = true; // report the best hits when khits>1 + kbest = false;// report the best hits when khits>1 mhits = 50; // stop after finding this many alignments+1 partitionSz = 0; // output a partitioning key in first field readsPerBatch = 16; // # reads to read from input file at once