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comparison PsiCLASS-1.0.2/samtools-0.1.19/misc/Makefile @ 0:903fc43d6227 draft default tip

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author lsong10
date Fri, 26 Mar 2021 16:52:45 +0000
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-1:000000000000 0:903fc43d6227
1 CC= gcc
2 CXX= g++
3 CFLAGS= -g -Wall -O2 #-m64 #-arch ppc
4 CXXFLAGS= $(CFLAGS)
5 DFLAGS= -D_FILE_OFFSET_BITS=64
6 OBJS=
7 PROG= md5sum-lite md5fa maq2sam-short maq2sam-long ace2sam wgsim bamcheck
8 INCLUDES= -I..
9 SUBDIRS= .
10
11 .SUFFIXES:.c .o
12
13 .c.o:
14 $(CC) -c $(CFLAGS) $(DFLAGS) $(INCLUDES) $< -o $@
15
16 all:$(PROG)
17
18 lib-recur all-recur clean-recur cleanlocal-recur install-recur:
19 @target=`echo $@ | sed s/-recur//`; \
20 wdir=`pwd`; \
21 list='$(SUBDIRS)'; for subdir in $$list; do \
22 cd $$subdir; \
23 $(MAKE) CC="$(CC)" DFLAGS="$(DFLAGS)" CFLAGS="$(CFLAGS)" \
24 INCLUDES="$(INCLUDES)" $$target || exit 1; \
25 cd $$wdir; \
26 done;
27
28 lib:
29
30 bamcheck:bamcheck.o
31 $(CC) $(CFLAGS) -o $@ bamcheck.o -L.. -lm -lbam -lpthread -lz
32
33 bamcheck.o:bamcheck.c ../faidx.h ../khash.h ../sam.h ../razf.h
34 $(CC) $(CFLAGS) -c -I.. -o $@ bamcheck.c
35
36 ace2sam:ace2sam.o
37 $(CC) $(CFLAGS) -o $@ ace2sam.o -lz
38
39 wgsim:wgsim.o
40 $(CC) $(CFLAGS) -o $@ wgsim.o -lm -lz
41
42 md5fa:md5.o md5fa.o md5.h ../kseq.h
43 $(CC) $(CFLAGS) -o $@ md5.o md5fa.o -lz
44
45 md5sum-lite:md5sum-lite.o
46 $(CC) $(CFLAGS) -o $@ md5sum-lite.o
47
48 md5sum-lite.o:md5.c md5.h
49 $(CC) -c $(CFLAGS) -DMD5SUM_MAIN -o $@ md5.c
50
51 maq2sam-short:maq2sam.c
52 $(CC) $(CFLAGS) -o $@ maq2sam.c -lz
53
54 maq2sam-long:maq2sam.c
55 $(CC) $(CFLAGS) -DMAQ_LONGREADS -o $@ maq2sam.c -lz
56
57 md5fa.o:md5.h md5fa.c
58 $(CC) $(CFLAGS) -c -I.. -o $@ md5fa.c
59
60 wgsim.o:wgsim.c ../kseq.h
61 $(CC) $(CFLAGS) -c -I.. -o $@ wgsim.c
62
63 ace2sam.o:ace2sam.c ../kstring.h ../kseq.h
64 $(CC) $(CFLAGS) -c -I.. -o $@ ace2sam.c
65
66 cleanlocal:
67 rm -fr gmon.out *.o a.out *.exe *.dSYM $(PROG) *~ *.a
68
69 clean:cleanlocal-recur