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Subject: upstream copies libsam headers
Description: use Debian libraries instead of embedded headers
Author: Olivier Sallou <osallou@debian.org>
Last-Updated: 2013-08-05
Forwarded: no
--- a/sparsePregraph/Makefile
+++ b/sparsePregraph/Makefile
@@ -10,7 +10,7 @@
build_preArc.o pregraph_sparse.o io_func.o\
global.o convert_soapdenovo.o
PROG=
-INCLUDES= -I./inc
+INCLUDES= -I./inc -I/usr/include/samtools
SUBDIRS= .
LIBPATH= -L./inc -L/usr/lib64
LIBS= -pthread -lz
--- a/sparsePregraph/inc/stdinc.h
+++ b/sparsePregraph/inc/stdinc.h
@@ -40,4 +40,4 @@
-
+#include <stdbool.h>
--- a/standardPregraph/Makefile
+++ b/standardPregraph/Makefile
@@ -25,7 +25,7 @@
readseq1by1.o scaffold.o searchPath.o seq.o splitReps.o \
cutTip_graph2.o linearEdge.o kmerhash.o read2edge.o iterate.o
PROG= SOAPdenovo-63mer
-INCLUDES= -Iinc
+INCLUDES= -Iinc -I/usr/include/samtools
SUBDIRS= .
LIBPATH= -L./inc -L/lib64 -L/usr/lib64
LIBS= -pthread -lz -lm
--- a/standardPregraph/inc/stdinc.h
+++ b/standardPregraph/inc/stdinc.h
@@ -32,3 +32,4 @@
#include "types.h"
#include <aio.h>
#include <errno.h>
+#include <stdbool.h>
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