Author: Andreas Tille <tille@debian.org>
Last-Update: Fri, 17 Aug 2018 11:04:09 +0200
Description: Propagate hardening options

--- minimap2.orig/Makefile
+++ minimap2/Makefile
@@ -1,5 +1,5 @@
-CFLAGS=		-g -Wall -O2 -Wc++-compat #-Wextra
-CPPFLAGS=	-DHAVE_KALLOC
+CFLAGS+=		-g -Wall -O2 -Wc++-compat #-Wextra
+CPPFLAGS+=	-DHAVE_KALLOC
 INCLUDES=
 OBJS=		kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o \
 			lchain.o align.o hit.o seed.o map.o format.o pe.o esterr.o splitidx.o \
@@ -45,16 +45,16 @@
 extra:all $(PROG_EXTRA)
 
 minimap2:main.o libminimap2.a
-		$(CC) $(CFLAGS) main.o -o $@ -L. -lminimap2 $(LIBS)
+		$(CC) $(CFLAGS) main.o -o $@ -L. -lminimap2 $(LIBS) $(LDFLAGS)
 
 minimap2-lite:example.o libminimap2.a
-		$(CC) $(CFLAGS) $< -o $@ -L. -lminimap2 $(LIBS)
+		$(CC) $(CFLAGS) $< -o $@ -L. -lminimap2 $(LIBS) $(LDFLAGS)
 
 libminimap2.a:$(OBJS)
 		$(AR) -csru $@ $(OBJS)
 
 sdust:sdust.c kalloc.o kalloc.h kdq.h kvec.h kseq.h ketopt.h sdust.h
-		$(CC) -D_SDUST_MAIN $(CFLAGS) $< kalloc.o -o $@ -lz
+		$(CC) -D_SDUST_MAIN $(CFLAGS) $< kalloc.o -o $@ -lz $(LDFLAGS)
 
 # SSE-specific targets on x86/x86_64