From e010a4b14ad54a56b058e85a1e54da7827efa832 Mon Sep 17 00:00:00 2001
From: Haifeng Chen <haifengc@usc.edu>
Date: Fri, 27 May 2016 10:47:03 -0700
Subject: [PATCH] change 5000 to b

---
 src/walt/mapping.cpp | 1 -
 src/walt/paired.cpp  | 5 ++---
 2 files changed, 2 insertions(+), 4 deletions(-)

diff --git a/src/walt/mapping.cpp b/src/walt/mapping.cpp
index 3df4a74..1f168b1 100644
--- a/src/walt/mapping.cpp
+++ b/src/walt/mapping.cpp
@@ -236,7 +236,6 @@ void SingleEndMapping(const string& org_read, const Genome& genome,
       continue;
 
     IndexRegion(read_seed, genome, hash_table, seed_len, region);
-
     if (region.second - region.first + 1 > b) {
       continue;
     }
diff --git a/src/walt/paired.cpp b/src/walt/paired.cpp
index 5da0f08..b32f5e9 100644
--- a/src/walt/paired.cpp
+++ b/src/walt/paired.cpp
@@ -121,11 +121,10 @@ void PairEndMapping(const string& org_read, const Genome& genome,
       continue;
 
     IndexRegion(read_seed, genome, hash_table, seed_len, region);
-#ifdef SMALLBUCKETS
-    if (region.second - region.first + 1 > 5000) {
+    if (region.second - region.first + 1 > b) {
       continue;
     }
-#endif
+
     for (uint32_t j = region.first; j <= region.second; ++j) {
       uint32_t genome_pos = hash_table.index[j];
       uint32_t chr_id = getChromID(genome.start_index, genome_pos);