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comparison pyPRADA_1.2/tools/samtools-0.1.16/Makefile.mingw @ 0:acc2ca1a3ba4

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author siyuan
date Thu, 20 Feb 2014 00:44:58 -0500
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-1:000000000000 0:acc2ca1a3ba4
1 CC= gcc.exe
2 AR= ar.exe
3 CFLAGS= -g -Wall -O2
4 DFLAGS= -D_USE_KNETFILE -D_CURSES_LIB=2
5 KNETFILE_O= knetfile.o
6 LOBJS= bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o \
7 bam_pileup.o bam_lpileup.o bam_md.o glf.o razf.o faidx.o \
8 $(KNETFILE_O) bam_sort.o sam_header.o bam_reheader.o kprobaln.o
9 AOBJS= bam_tview.o bam_maqcns.o bam_plcmd.o sam_view.o \
10 bam_rmdup.o bam_rmdupse.o bam_mate.o bam_stat.o bam_color.o \
11 bamtk.o kaln.o bam2bcf.o bam2bcf_indel.o errmod.o sample.o
12 BCFOBJS= bcftools/bcf.o bcftools/fet.o bcftools/bcf2qcall.o bcftools/bcfutils.o \
13 bcftools/call1.o bcftools/index.o bcftools/kfunc.o bcftools/ld.o \
14 bcftools/prob1.o bcftools/vcf.o
15 PROG= samtools.exe bcftools.exe
16 INCLUDES= -I. -Iwin32
17 SUBDIRS= .
18 LIBPATH=
19
20 .SUFFIXES:.c .o
21
22 .c.o:
23 $(CC) -c $(CFLAGS) $(DFLAGS) $(INCLUDES) $< -o $@
24
25 all:$(PROG)
26
27 .PHONY:all lib clean cleanlocal
28 .PHONY:all-recur lib-recur clean-recur cleanlocal-recur install-recur
29
30 lib:libbam.a
31
32 libbam.a:$(LOBJS)
33 $(AR) -cru $@ $(LOBJS)
34
35 samtools.exe:$(AOBJS) libbam.a $(BCFOBJS)
36 $(CC) $(CFLAGS) -o $@ $(AOBJS) $(BCFOBJS) $(LIBPATH) -lm -L. -lbam -Lwin32 -lz -lcurses -lws2_32
37
38 bcftools.exe:$(BCFOBJS) bcftools/main.o kstring.o bgzf.o knetfile.o
39 $(CC) $(CFLAGS) -o $@ $(BCFOBJS) bcftools/main.o kstring.o bgzf.o knetfile.o -lm -Lwin32 -lz -lws2_32
40
41 razip.o:razf.h
42 bam.o:bam.h razf.h bam_endian.h kstring.h sam_header.h
43 sam.o:sam.h bam.h
44 bam_import.o:bam.h kseq.h khash.h razf.h
45 bam_pileup.o:bam.h razf.h ksort.h
46 bam_plcmd.o:bam.h faidx.h bam_maqcns.h glf.h bcftools/bcf.h bam2bcf.h
47 bam_index.o:bam.h khash.h ksort.h razf.h bam_endian.h
48 bam_lpileup.o:bam.h ksort.h
49 bam_tview.o:bam.h faidx.h bam_maqcns.h
50 bam_maqcns.o:bam.h ksort.h bam_maqcns.h kaln.h
51 bam_sort.o:bam.h ksort.h razf.h
52 bam_md.o:bam.h faidx.h
53 glf.o:glf.h
54 sam_header.o:sam_header.h khash.h
55 bcf.o:bcftools/bcf.h
56 bam2bcf.o:bam2bcf.h errmod.h bcftools/bcf.h
57 bam2bcf_indel.o:bam2bcf.h
58 errmod.o:errmod.h
59
60 faidx.o:faidx.h razf.h khash.h
61 faidx_main.o:faidx.h razf.h
62
63 clean:
64 rm -fr gmon.out *.o a.out *.exe *.dSYM razip bgzip $(PROG) *~ *.a *.so.* *.so *.dylib