From 789a12fe4232fa0ac80aed75244b8f54699d06b4 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Kenta=20Sato=20=28=E4=BD=90=E8=97=A4=20=E5=BB=BA=E5=A4=AA?=
 =?UTF-8?q?=29?= <bicycle1885@gmail.com>
Date: Sat, 21 Jan 2017 23:29:07 +0900
Subject: [PATCH] fix the SAM header parser (#377)

---
 src/align/hts/sam/reader.jl | 1 +
 1 file changed, 1 insertion(+)

diff --git a/src/align/hts/sam/reader.jl b/src/align/hts/sam/reader.jl
index 4c084f61f..d778e9583 100644
--- a/src/align/hts/sam/reader.jl
+++ b/src/align/hts/sam/reader.jl
@@ -17,6 +17,7 @@ type SAMReader <: Bio.IO.AbstractReader
         reader = new(Ragel.State(samparser_start, input), SAMHeader())
         while !eof(input) && BufferedStreams.peek(input) == UInt8('@')
             # NOTE: This reads a header line, not the first record.
+            reader.state.cs = samparser_start
             @assert read(reader) == SAMRecord()
         end
         return reader