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Update buildsystem for better downstream packaging #6

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Update buildsystem for better downstream packaging #6

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35 changes: 19 additions & 16 deletions Makefile
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Original file line number Diff line number Diff line change
Expand Up @@ -10,24 +10,28 @@ SDIR := src
ODIR := obj
BDIR := bin

CC ?= gcc
CXX ?= g++
CFLAGS ?= -Wall -O3
CXXFLAGS ?= -Wall -O3
CPPFLAGS ?=
LDFLAGS ?=

CFLAGS += -MMD -MP -std=gnu99
CXXFLAGS += -MMD -MP
LDFLAGS += -pthread

# Set up flags depending on mode
ifdef USERMODE
PROG := yaha
CCFLAGS := -Wall -O3 -D COMPILE_USER_MODE -D BUILDNUM=$(BUILDNUM)
CPPFLAGS += -D COMPILE_USER_MODE -D BUILDNUM=$(BUILDNUM)
else
PROG := yaha$(BUILDNUM)
CCFLAGS := -Wall -Winline -O3 -g -D BUILDNUM=$(BUILDNUM)
CPPFLAGS += -D BUILDNUM=$(BUILDNUM)
CFLAGS += -g
CXXFLAGS += -g
endif

# Auto build dependency files.
CCFLAGS += -MMD -MP

CC := gcc
CPP := g++
CFLAGS := $(CCFLAGS) -std=gnu99
CPPFLAGS := $(CCFLAGS)
LDFLAGS := -pthread

# The list of object files.
OBJfiles := Main.o AlignArgs.o AlignHelpers.o AlignExtFrag.o AlignOutput.o BaseSeq.o Compress.o \
FileHelpers.o GraphPath.o Index.o Query.o QueryMatch.o QueryState.o SW.o Math.o
Expand All @@ -45,23 +49,22 @@ $(BDIR):

# Link the program
$(BDIR)/$(PROG): $(OBJS)
$(CPP) $(LDFLAGS) -o $@ $(OBJS)
$(CXX) $(CXXFLAGS) $(LDFLAGS) -o $@ $(OBJS)

# Include the dependencies.
# The actual objects will be built by the below generic rules based on these dependencies.
# The - suppresses warning messages about missing files when building from scratch.
-include $(OBJS:.o=.d)

# Make the object files.
# The built in rules will miss the subdirectories.
# The built in rules will miss the subdirectories.
$(ODIR)/%.o: $(SDIR)/%.c
$(CC) $(CFLAGS) -c $< -o $@
$(CC) $(CPPFLAGS) $(CFLAGS) -c $< -o $@

$(ODIR)/%.o: $(SDIR)/%.cpp
$(CPP) $(CPPFLAGS) -c $< -o $@
$(CXX) $(CPPFLAGS) $(CXXFLAGS) -c $< -o $@

.PHONY: clean
clean:
rm -Rf $(ODIR)
rm -Rf $(BDIR)