Fix install paths, respect LDFLAGS, CFLAGS

http://bugs.gentoo.org/show_bug.cgi?id=336196

--- rnaml2ps/Makefile
+++ rnaml2ps/Makefile
@@ -5,16 +5,21 @@
 RNADRAW = rnaml2ps
 OBJS_RNADRAW = rnaml2ps.o nrutil.o 
 
+all: $(RNADRAW)
+
 $(RNADRAW):   $(OBJS_RNADRAW)
-	$(CC) -o $(RNADRAW) $(OBJS_RNADRAW) -lm
+	$(CC) $(LDFLAGS) -o $(RNADRAW) $(OBJS_RNADRAW) -lm
 
 nrutil.o : nrutil.c 
-	cc -c  nrutil.c
+	$(CC) $(CFLAGS) -c  nrutil.c
 
 rnaml2ps.o :  rnaml2ps.c
-	cc -c  rnaml2ps.c
+	$(CC) $(CFLAGS) -c  rnaml2ps.c
 
 
-.PHONY : clean
+.PHONY : clean all install
 clean:
-	rm *.o
+	rm -f *.o
+
+install:
+	install -D -m 0755 $(RNADRAW) $(DESTDIR)/usr/bin/$(RNADRAW)
--- Makefile
+++ Makefile
@@ -56,9 +56,14 @@
            $(OBJ)/multiple.o \
            $(OBJ)/statistics.o
 
+.PHONY: clean all install
+
+SUBDIRS = rnaml2ps
+
 all: $(RNAVIEW)
+	for dir in ${SUBDIRS} ; do ( cd $$dir ; ${MAKE} all ) ; done
 
-CFLAGS  =  $(LINCLUDES) 
+CFLAGS  +=  $(LINCLUDES)
 
 $(RNAVIEW) : $(HFILES) $(OBJ_FILE) 
 	$(CC) $(CFLAGS) -o $@ $(OBJ_FILE) $(LDFLAGS) -lm $(MALLOCLIB)
@@ -111,6 +116,15 @@
 clean:
 	@rm -f $(OBJ)/*.o
 	@rm -f $(ALLTARGETS)
+	for dir in ${SUBDIRS} ; do ( cd $$dir ; ${MAKE} clean ) ; done
+
+install:
+	install -D -m 0755 bin/rnaview $(DESTDIR)/usr/bin/rnaview
+	mkdir -p $(DESTDIR)/usr/share/rnaview/BASEPARS
+	install -m 0644 BASEPARS/* $(DESTDIR)/usr/share/rnaview/BASEPARS
+	mkdir -p $(DESTDIR)/usr/share/rnaview/test
+	install -m 0644 test/* $(DESTDIR)/usr/share/rnaview/test
+	for dir in ${SUBDIRS} ; do ( cd $$dir ; ${MAKE} install ) ; done
 
 export:
 	mkdir -p $(EXPORT_DIR)