From b510ba78af0d409ad860d8886a5e8fc0f401103d Mon Sep 17 00:00:00 2001
From: M Bernt <m.bernt@ufz.de>
Date: Wed, 2 May 2018 14:24:19 +0200
Subject: [PATCH] use a larger k

one of our users patched idba_ud to be able to use up-to-date NGS techniques which generates longer short reads (300 in her case).
---
 src/basic/kmer.h              | 2 +-
 src/sequence/short_sequence.h | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/src/basic/kmer.h b/src/basic/kmer.h
index 70146a1..37247c9 100644
--- a/src/basic/kmer.h
+++ b/src/basic/kmer.h
@@ -197,7 +197,7 @@ class Kmer
     { return kMaxSize; }
 
 
-    static const uint32_t kNumUint64 = 4;
+    static const uint32_t kNumUint64 = 10;
     static const uint32_t kBitsForSize = ((kNumUint64 <= 2) ? 6 : ((kNumUint64 <= 8) ? 8 : 16));
     static const uint32_t kBitsForKmer = (kNumUint64 * 64 - kBitsForSize);
     static const uint32_t kMaxSize = kBitsForKmer / 2;
diff --git a/src/sequence/short_sequence.h b/src/sequence/short_sequence.h
index 59bf08c..f4f1c02 100644
--- a/src/sequence/short_sequence.h
+++ b/src/sequence/short_sequence.h
@@ -99,7 +99,7 @@ class ShortSequence
         return size() < seq.size();
     }
 
-    static const uint32_t kMaxShortSequence = 128;
+    static const uint32_t kMaxShortSequence = 600;
     static const uint32_t kNumBytes = (kMaxShortSequence + 3) / 4 + 2;
 
 private: