From b524c9a345c10e1621c3280b1d8d359b9154e934 Mon Sep 17 00:00:00 2001
From: Heng Li <lh3@live.co.uk>
Date: Tue, 28 Apr 2009 12:37:16 +0000
Subject: [PATCH] improve large file support in compilation

---
 Makefile.generic      | 2 +-
 Makefile.lite         | 2 +-
 configure.ac          | 2 +-
 misc/Makefile.generic | 2 +-
 4 files changed, 4 insertions(+), 4 deletions(-)

diff --git a/Makefile.generic b/Makefile.generic
index 002c71a..80bd9e7 100644
--- a/Makefile.generic
+++ b/Makefile.generic
@@ -2,7 +2,7 @@ CC=			gcc
 CXX=		g++
 CFLAGS=		-g -Wall -O2 -m64 #-arch ppc
 CXXFLAGS=	$(CFLAGS)
-DFLAGS=		-D_IOLIB=2 -D_FILE_OFFSET_BITS=64 #-D_NO_RAZF #-D_NO_CURSES
+DFLAGS=		-D_IOLIB=2 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 #-D_NO_RAZF #-D_NO_CURSES
 OBJS=		bam.o bam_import.o bam_pileup.o bam_lpileup.o bam_sort.o bam_index.o \
 			razf.o bgzf.o faidx.o bam_tview.o bam_maqcns.o bam_aux.o bam_plcmd.o \
 			bam_mate.o bam_rmdup.o glf.o bam_stat.o kstring.o bam_md.o
diff --git a/Makefile.lite b/Makefile.lite
index 5ddb284..a539d1e 100644
--- a/Makefile.lite
+++ b/Makefile.lite
@@ -2,7 +2,7 @@ CC=			gcc
 CXX=		g++
 CFLAGS=		-g -Wall -O2 -m64 #-arch ppc
 CXXFLAGS=	$(CFLAGS)
-DFLAGS=		-D_IOLIB=2 -D_FILE_OFFSET_BITS=64 -D_NO_CURSES -D_NO_RAZF
+DFLAGS=		-D_IOLIB=2 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_NO_CURSES -D_NO_RAZF
 OBJS=		bam.o bam_import.o bam_pileup.o bam_lpileup.o bam_sort.o bam_index.o \
 			bgzf.o faidx.o bam_tview.o bam_maqcns.o bam_aux.o bam_plcmd.o \
 			bam_mate.o bam_rmdup.o glf.o bam_stat.o kstring.o bam_md.o
diff --git a/configure.ac b/configure.ac
index d8d25e1..eace603 100644
--- a/configure.ac
+++ b/configure.ac
@@ -8,7 +8,7 @@ AC_PROG_INSTALL
 AC_PROG_CC
 
 # set CFLAGS and CXXFLAGS
-user_CFLAGS="${CFLAGS} -D_IOLIB=2 -D_FILE_OFFSET_BITS=64"
+user_CFLAGS="${CFLAGS} -D_IOLIB=2 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE"
 generic_CFLAGS="-Wall -L."
 
 AC_ARG_ENABLE(norazf, [  --disable-razf	  disable razf support],
diff --git a/misc/Makefile.generic b/misc/Makefile.generic
index 0f65881..6d69292 100644
--- a/misc/Makefile.generic
+++ b/misc/Makefile.generic
@@ -2,7 +2,7 @@ CC=			gcc
 CXX=		g++
 CFLAGS=		-g -Wall -O2 -m64 #-arch ppc
 CXXFLAGS=	$(CFLAGS)
-DFLAGS=		#-D_FILE_OFFSET_BITS=64
+DFLAGS=		-D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE
 OBJS=		
 PROG=		faidx md5sum-lite md5fa maq2sam-short maq2sam-long wgsim
 INCLUDES=	-I..
-- 
2.39.2