--- Makefile.orig	2010-07-20 17:18:58 UTC
+++ Makefile
@@ -17,21 +17,21 @@ TARFILE_NAME	=	nifticlib-2.0.0
 
 
 ## Compiler  defines
-cc		=	gcc
-CC		=	gcc
-AR		=	ar
-RANLIB  = ranlib
-DEPENDFLAGS	=	-MM
-GNU_ANSI_FLAGS	= 	-Wall -ansi -pedantic
-ANSI_FLAGS	= 	${GNU_ANSI_FLAGS}
-CFLAGS		=	$(ANSI_FLAGS)
+cc		?=	gcc
+CC		?=	gcc
+AR		?=	ar
+RANLIB  	?=	ranlib
+DEPENDFLAGS	?=	-MM
+GNU_ANSI_FLAGS	?= 	-ansi -pedantic
+ANSI_FLAGS	+= 	${GNU_ANSI_FLAGS}
+CFLAGS		+=	$(ANSI_FLAGS)
 
 ## Command defines
 ## gmake does not work on MacOSX or some versions of linux MAKE  = gmake 
-RM		=	rm
-MV		=	mv
-CP		=	cp
-TAR		=	tar
+RM		?=	rm
+MV		?=	mv
+CP		?=	cp
+TAR		?=	tar
 
 
 ## Installation
@@ -41,9 +41,9 @@ INSTALL_INC_DIR	=	include
 
 
 ## Zlib defines
-ZLIB_INC	=	-I/usr/include
-ZLIB_PATH	=	-L/usr/lib
-ZLIB_LIBS 	= 	$(ZLIB_PATH) -lm -lz 
+ZLIB_INC	?=	-I/usr/include
+ZLIB_PATH	?=	-L/usr/lib
+ZLIB_LIBS 	?= 	$(ZLIB_PATH) -lm -lz 
 
 ##############################################################
 # platform specific redefines (to use, set ARCH appropriately)
@@ -116,33 +116,33 @@ clean_all: clean regress_clean_all insta
 
 znz:
 	echo "arch is $(ARCH)"
-	(cd $(ZNZ); $(MAKE) depend; $(MAKE) lib;)
+	$(MAKE) -C $(ZNZ) depend lib
 	@echo " ----------- $(ZNZ) build completed."
 	@echo ""
 
 nifti:	znz
-	(cd $(NIFTI); $(MAKE) depend; $(MAKE) lib;)
+	$(MAKE) -C $(NIFTI) depend lib
 	@echo " ----------- $(NIFTI) build completed."
 	@echo ""
 
 nifticdf:nifti
-	(cd $(NIFTICDF); $(MAKE) depend; $(MAKE) lib;)
+	$(MAKE) -C $(NIFTICDF) depend lib
 	@echo " ----------- $(NIFTICDF) build completed."
 	@echo ""
 
 fslio:	nifti
-	(cd $(FSLIO); $(MAKE) depend; $(MAKE) lib;)
+	$(MAKE) -C $(FSLIO) depend lib
 	@echo " ----------  $(FSLIO) build completed."
 	@echo ""
 
 example:nifti
-	(cd $(EXAMPLES); $(MAKE) all;)
+	$(MAKE) -C $(EXAMPLES) all
 	@echo Example programs built.
 	@echo ""
 
 
 utils:  nifti nifticdf
-	(cd $(UTILS); $(MAKE) all;)
+	$(MAKE) -C $(UTILS) all
 	@echo Utility programs built.
 	@echo ""
 
@@ -152,7 +152,7 @@ doc:
 	@echo ""
 
 regress_data:
-	(cd $(TESTING); $(MAKE) regress_data 'RM=$(RM)' 'TAR=$(TAR)'; )
+	$(MAKE) -C $(TESTING) regress_data 'RM=$(RM)' 'TAR=$(TAR)'
 	@echo ""
 	@echo Regression testing data installed.
 	@echo See Testing/README_regress for details.
@@ -167,25 +167,25 @@ $(INSTALL_INC_DIR):
 $(INSTALL_LIB_DIR):
 	mkdir -p $@
 
-znz_install: $(INSTALL_INC_DIR) $(INSTALL_LIB_DIR)
+znz_install: znz $(INSTALL_INC_DIR) $(INSTALL_LIB_DIR)
 	($(CP) $(ZNZ)/*.a $(INSTALL_LIB_DIR); $(CP) $(ZNZ)/*.h $(INSTALL_INC_DIR);)
 	$(RANLIB) $(INSTALL_LIB_DIR)/*.a
 	@echo " $(ZNZ) installed."
 	@echo ""
 
-nifti_install: $(INSTALL_INC_DIR) $(INSTALL_LIB_DIR)
+nifti_install: nifti $(INSTALL_INC_DIR) $(INSTALL_LIB_DIR)
 	($(CP) $(NIFTI)/*.a $(INSTALL_LIB_DIR); $(CP) $(NIFTI)/*.h $(INSTALL_INC_DIR);)
 	$(RANLIB) $(INSTALL_LIB_DIR)/*.a
 	@echo " $(NIFTI) installed."
 	@echo ""
 
-nifticdf_install: $(INSTALL_INC_DIR) $(INSTALL_LIB_DIR)
+nifticdf_install: nifticdf $(INSTALL_INC_DIR) $(INSTALL_LIB_DIR)
 	($(CP) $(NIFTICDF)/*.a $(INSTALL_LIB_DIR); $(CP) $(NIFTICDF)/*.h $(INSTALL_INC_DIR);)
 	$(RANLIB) $(INSTALL_LIB_DIR)/*.a
 	@echo " $(NIFTI) installed."
 	@echo ""
 
-fslio_install: $(INSTALL_INC_DIR) $(INSTALL_LIB_DIR)
+fslio_install: fslio $(INSTALL_INC_DIR) $(INSTALL_LIB_DIR)
 	($(CP) $(FSLIO)/*.a $(INSTALL_LIB_DIR); $(CP) $(FSLIO)/*.h $(INSTALL_INC_DIR);)
 	$(RANLIB) $(INSTALL_LIB_DIR)/*.a
 	@echo " $(FSLIO) installed."
@@ -212,19 +212,19 @@ fslio_clean:
 	(cd $(FSLIO); $(RM) -f *.o *.a core; $(RM) -f depend.mk;)
 
 examples_clean:
-	(cd $(EXAMPLES); $(MAKE) clean;)
+	$(MAKE) -C $(EXAMPLES) clean
 
 utils_clean:
-	(cd $(UTILS); $(MAKE) clean;)
+	$(MAKE) -C $(UTILS) clean
 
 doc_clean:
 	($(RM) -fr docs/html;)
 
 regress_clean:
-	(cd $(TESTING); $(MAKE) regress_clean; )
+	$(MAKE) -C $(TESTING) regress_clean
 
 regress_clean_all:
-	(cd $(TESTING); $(MAKE) regress_clean_all; )
+	$(MAKE) -C $(TESTING) regress_clean_all
 
 tar:
 	(cd .. ; ln -s $(THIS_DIR) ${TARFILE_NAME} ; \