From 5f79dfc56aaaf619627361bffe391aeb314a8aa4 Mon Sep 17 00:00:00 2001 From: Andrew D Smith Date: Sun, 5 Nov 2023 17:23:46 -0800 Subject: [PATCH] amrfinder: removing the multithreaded decompression from the input file because it seems to be crashing --- src/amrfinder/amrfinder.cpp | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/src/amrfinder/amrfinder.cpp b/src/amrfinder/amrfinder.cpp index 1739a4e8..7331d654 100644 --- a/src/amrfinder/amrfinder.cpp +++ b/src/amrfinder/amrfinder.cpp @@ -468,10 +468,10 @@ main_amrfinder(int argc, const char **argv) { const auto epistat = EpireadStats(low_prob, high_prob, critical_value, max_itr, use_bic); - bamxx::bam_tpool tp(n_threads); + // bamxx::bam_tpool tp(n_threads); bgzf_file in(reads_file, "r"); if (!in) throw runtime_error("failed to open input file: " + reads_file); - if (n_threads > 1) tp.set_io(in); + // if (n_threads > 1) tp.set_io(in); vector amrs;