Makefile: Add an option to compile with coverage.

Now you must compile with make COVERAGE=1 to compile with coverage
information. There is another rule (called coverage) which compiles with
coverage options and then runs gcovr (if available).

Makefile

 
-
+COVERAGE=
 VIDJIL_ALGO_SRC = algo/
 VIDJIL_SERVER_SRC = server/
 
+ifeq (${COVERAGE},1)
+	COVERAGE_OPTION=--coverage
+else
+	COVERAGE_OPTION=
+endif
+
 all:
-	make -C $(VIDJIL_ALGO_SRC)
+	make COVERAGE="$(COVERAGE_OPTION)" -C $(VIDJIL_ALGO_SRC)
 
 test:
-	make unit
+	make COVERAGE="$(COVERAGE)" unit
 	make should
 	# make pytests
 
 test_with_fuse:
-	make unit
+	make COVERAGE="$(COVERAGE)" unit
 	make should
 	make pytests
 
 unit: all
 	@echo "*** Launching unit tests..."
-	make -C $(VIDJIL_ALGO_SRC)/tests 
+	make COVERAGE="$(COVERAGE_OPTION)" -C $(VIDJIL_ALGO_SRC)/tests
 	@echo "*** All .should_get tests passed"
 
 pytests:
@@ -29,9 +35,19 @@ pytests:
 should: all
 	@echo
 	@echo "*** Launching .should_get tests..."
-	make -C $(VIDJIL_ALGO_SRC)/tests should
+	make COVERAGE="$(COVERAGE_OPTION)" -C $(VIDJIL_ALGO_SRC)/tests should
 	@echo "*** All .should_get tests passed"
 
+coverage: unit_coverage should_coverage
+
+unit_coverage: clean
+	make COVERAGE=1 unit
+	test -x gcovr && gcovr -r algo -e tests/ --xml > unit_coverage.xml || echo "gcovr is needed to generate a full report"
+should_coverage: clean
+	make COVERAGE=1 should
+	test -x gcovr && gcovr -r algo -e tests/ --xml > should_coverage.xml || echo "gcovr is needed to generate a full report"
+
+
 data germline: %:
 	make -C $@
 
@@ -42,7 +58,7 @@ cleanall: clean
 	make -C data $^
 	make -C germline $^
 
-.PHONY: all test should clean cleanall distrib data germline
+.PHONY: all test should clean cleanall distrib data germline unit_coverage should_coverage coverage
 
 RELEASE_TAG="notag"
 RELEASE_H = $(VIDJIL_ALGO_SRC)/release.h

algo/Makefile

 CC=g++
-OPTIM=-O2 -DNDEBUG
+OPTIM=-O2 -DNDEBUG  $(COVERAGE)
 CXXFLAGS=-W -Wall $(OPTIM) $(DEBUG) $(CONFIG)
 LDFLAGS=-lm
 EXEC=vidjil kmer kmer_count cut count detailed_affect
@@ -50,6 +50,7 @@ $(EXEC): %: %.o
 
 clean:
 	make -C core $@
+	rm -f *.o *.gcda *.gcno *.gcov
 	cd $(BINDIR) ; rm -f $(EXEC)
 	make -C tests $@
 

algo/core/Makefile

@@ -13,7 +13,7 @@ $(LIBCORE): $(OBJCORE)
 	ar rc $@ $^
 
 clean:
-	rm -f $(OBJCORE) $(LIBCORE)
+	rm -f $(OBJCORE) $(LIBCORE) *.gcda *.gcno *.gcov
 
 forcedep:
 	g++ -M $(SRCCORE) > dep.mk

algo/tests/Makefile

 CC=g++
-CXXFLAGS=-W -Wall -g -O0
+CXXFLAGS=-W -Wall -g -O0 $(COVERAGE)
 INCLUDE=-I ..
 LDFLAGS=
 SRC= tests.cpp
@@ -33,16 +33,16 @@ $(EXEC): % : %.o $(LIB)
 ../core.a: core
 
 vidjil:
-	make OPTIM="-O0 -g" -C ../
+	make CXXFLAGS="$(CXXFLAGS)" -C ../
 
 core:
-	make OPTIM="-O0 -g" -C ../core 
+	make CXXFLAGS="$(CXXFLAGS)" -C ../core
 
 %.o: %.cpp $(OTHER_SRC)
 	$(CC) -o $@ $(INCLUDE) -c $< $(CXXFLAGS)
 
 clean:
-	rm -f *.o $(EXEC) *.tap *.log
+	rm -f *.o $(EXEC) *.tap *.log *.gcda *.gcno *.gcov
 
 forcedep:
 	g++ $(INCLUDE) -M $(SRC) > dep.mk