PopDel/Makefile at master · kehrlab/PopDel · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
# Use version 4.9 of g++

# Set dependencies, s.t. make detects changes in header files.
%.o: %.cc %.h
	g++ -c $^

CXX=g++
CC=$(CXX)

# Don't change the path to SeqAn! PopDel relies on added HTSlib functionality.
SEQAN_LIB=.

CXXFLAGS+=-I$(SEQAN_LIB) -DSEQAN_HAS_ZLIB=1 -DSEQAN_USE_HTSLIB=1 -std=c++14 -DSEQAN_DISABLE_VERSION_CHECK
LDLIBS=-lz -lpthread -lhts

DATE=on 2021-03-25
VERSION=1.5.0
CXXFLAGS+=-DDATE=\""$(DATE)"\" -DVERSION=\""$(VERSION)"\"

# Enable warnings
CXXFLAGS+=-W -Wall -Wno-long-long -pedantic -Wno-variadic-macros -Wno-unused-result

HEADERS=parse_popdel.h insert_histogram_popdel.h workflow_popdel.h utils_popdel.h
HEADERS+=popdel_profile/*.h
HEADERS+=popdel_call/*.h
HEADERS+=popdel_view/*.h

.PHONY: all
all: CXXFLAGS+=-O3 -DSEQAN_ENABLE_TESTING=0 -DSEQAN_ENABLE_DEBUG=0
all: popdel

.PHONY: profiling
profiling: CXXFLAGS+=-g -O3 -DSEQAN_ENABLE_TESTING=0 -DSEQAN_ENABLE_DEBUG=1
profiling: popdel

.PHONY: debug
debug: CXXFLAGS+=-g -O0 -DSEQAN_ENABLE_TESTING=0 -DSEQAN_ENABLE_DEBUG=1
debug: popdel

PREFIX = /usr/local
.PHONY: install
install: CXXFLAGS+=-O3 -DSEQAN_ENABLE_TESTING=0 -DSEQAN_ENABLE_DEBUG=0
install: popdel
	mkdir -p $(DESTDIR)$(PREFIX)/bin
	cp $< $(DESTDIR)$(PREFIX)/bin/popdel

.PHONY: uninstall
uninstall:
	rm -f $(DESTDIR)$(PREFIX)/bin/popdel

popdel: popdel.o

popdel.o: popdel.cpp $(HEADERS)

.PHONY: clean
clean:
	rm -f *.o popdel