bio-velvet_underground 0.0.1

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Files changed (286) hide show
  1. checksums.yaml +7 -0
  2. data/.document +5 -0
  3. data/.gitmodules +3 -0
  4. data/.travis.yml +13 -0
  5. data/Gemfile +19 -0
  6. data/LICENSE.txt +20 -0
  7. data/README.md +53 -0
  8. data/Rakefile +51 -0
  9. data/VERSION +1 -0
  10. data/ext/bioruby.patch +60 -0
  11. data/ext/mkrf_conf.rb +50 -0
  12. data/ext/src/Makefile +125 -0
  13. data/ext/src/src/allocArray.c +305 -0
  14. data/ext/src/src/allocArray.h +86 -0
  15. data/ext/src/src/autoOpen.c +107 -0
  16. data/ext/src/src/autoOpen.h +18 -0
  17. data/ext/src/src/binarySequences.c +813 -0
  18. data/ext/src/src/binarySequences.h +125 -0
  19. data/ext/src/src/concatenatedGraph.c +233 -0
  20. data/ext/src/src/concatenatedGraph.h +30 -0
  21. data/ext/src/src/concatenatedPreGraph.c +262 -0
  22. data/ext/src/src/concatenatedPreGraph.h +29 -0
  23. data/ext/src/src/correctedGraph.c +2642 -0
  24. data/ext/src/src/correctedGraph.h +32 -0
  25. data/ext/src/src/dfib.c +509 -0
  26. data/ext/src/src/dfib.h +69 -0
  27. data/ext/src/src/dfibHeap.c +89 -0
  28. data/ext/src/src/dfibHeap.h +39 -0
  29. data/ext/src/src/dfibpriv.h +105 -0
  30. data/ext/src/src/fib.c +628 -0
  31. data/ext/src/src/fib.h +78 -0
  32. data/ext/src/src/fibHeap.c +79 -0
  33. data/ext/src/src/fibHeap.h +41 -0
  34. data/ext/src/src/fibpriv.h +110 -0
  35. data/ext/src/src/globals.h +153 -0
  36. data/ext/src/src/graph.c +3983 -0
  37. data/ext/src/src/graph.h +233 -0
  38. data/ext/src/src/graphReConstruction.c +1472 -0
  39. data/ext/src/src/graphReConstruction.h +30 -0
  40. data/ext/src/src/graphStats.c +2167 -0
  41. data/ext/src/src/graphStats.h +72 -0
  42. data/ext/src/src/kmer.c +652 -0
  43. data/ext/src/src/kmer.h +73 -0
  44. data/ext/src/src/kmerOccurenceTable.c +236 -0
  45. data/ext/src/src/kmerOccurenceTable.h +44 -0
  46. data/ext/src/src/kseq.h +223 -0
  47. data/ext/src/src/locallyCorrectedGraph.c +557 -0
  48. data/ext/src/src/locallyCorrectedGraph.h +40 -0
  49. data/ext/src/src/passageMarker.c +677 -0
  50. data/ext/src/src/passageMarker.h +137 -0
  51. data/ext/src/src/preGraph.c +1717 -0
  52. data/ext/src/src/preGraph.h +106 -0
  53. data/ext/src/src/preGraphConstruction.c +990 -0
  54. data/ext/src/src/preGraphConstruction.h +26 -0
  55. data/ext/src/src/readCoherentGraph.c +557 -0
  56. data/ext/src/src/readCoherentGraph.h +30 -0
  57. data/ext/src/src/readSet.c +1734 -0
  58. data/ext/src/src/readSet.h +67 -0
  59. data/ext/src/src/recycleBin.c +199 -0
  60. data/ext/src/src/recycleBin.h +58 -0
  61. data/ext/src/src/roadMap.c +342 -0
  62. data/ext/src/src/roadMap.h +65 -0
  63. data/ext/src/src/run.c +318 -0
  64. data/ext/src/src/run.h +52 -0
  65. data/ext/src/src/run2.c +712 -0
  66. data/ext/src/src/scaffold.c +1876 -0
  67. data/ext/src/src/scaffold.h +64 -0
  68. data/ext/src/src/shortReadPairs.c +1243 -0
  69. data/ext/src/src/shortReadPairs.h +32 -0
  70. data/ext/src/src/splay.c +259 -0
  71. data/ext/src/src/splay.h +43 -0
  72. data/ext/src/src/splayTable.c +1315 -0
  73. data/ext/src/src/splayTable.h +31 -0
  74. data/ext/src/src/tightString.c +362 -0
  75. data/ext/src/src/tightString.h +82 -0
  76. data/ext/src/src/utility.c +199 -0
  77. data/ext/src/src/utility.h +98 -0
  78. data/ext/src/third-party/zlib-1.2.3/ChangeLog +855 -0
  79. data/ext/src/third-party/zlib-1.2.3/FAQ +339 -0
  80. data/ext/src/third-party/zlib-1.2.3/INDEX +51 -0
  81. data/ext/src/third-party/zlib-1.2.3/Makefile +154 -0
  82. data/ext/src/third-party/zlib-1.2.3/Makefile.in +154 -0
  83. data/ext/src/third-party/zlib-1.2.3/README +125 -0
  84. data/ext/src/third-party/zlib-1.2.3/adler32.c +149 -0
  85. data/ext/src/third-party/zlib-1.2.3/algorithm.txt +209 -0
  86. data/ext/src/third-party/zlib-1.2.3/amiga/Makefile.pup +66 -0
  87. data/ext/src/third-party/zlib-1.2.3/amiga/Makefile.sas +65 -0
  88. data/ext/src/third-party/zlib-1.2.3/as400/bndsrc +132 -0
  89. data/ext/src/third-party/zlib-1.2.3/as400/compile.clp +123 -0
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  92. data/ext/src/third-party/zlib-1.2.3/compress.c +79 -0
  93. data/ext/src/third-party/zlib-1.2.3/configure +459 -0
  94. data/ext/src/third-party/zlib-1.2.3/contrib/README.contrib +71 -0
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  107. data/ext/src/third-party/zlib-1.2.3/contrib/asm586/README.586 +43 -0
  108. data/ext/src/third-party/zlib-1.2.3/contrib/asm586/match.S +364 -0
  109. data/ext/src/third-party/zlib-1.2.3/contrib/asm686/README.686 +34 -0
  110. data/ext/src/third-party/zlib-1.2.3/contrib/asm686/match.S +329 -0
  111. data/ext/src/third-party/zlib-1.2.3/contrib/blast/Makefile +8 -0
  112. data/ext/src/third-party/zlib-1.2.3/contrib/blast/README +4 -0
  113. data/ext/src/third-party/zlib-1.2.3/contrib/blast/blast.c +444 -0
  114. data/ext/src/third-party/zlib-1.2.3/contrib/blast/blast.h +71 -0
  115. data/ext/src/third-party/zlib-1.2.3/contrib/blast/test.pk +0 -0
  116. data/ext/src/third-party/zlib-1.2.3/contrib/blast/test.txt +1 -0
  117. data/ext/src/third-party/zlib-1.2.3/contrib/delphi/ZLib.pas +557 -0
  118. data/ext/src/third-party/zlib-1.2.3/contrib/delphi/ZLibConst.pas +11 -0
  119. data/ext/src/third-party/zlib-1.2.3/contrib/delphi/readme.txt +76 -0
  120. data/ext/src/third-party/zlib-1.2.3/contrib/delphi/zlibd32.mak +93 -0
  121. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib.build +33 -0
  122. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib.chm +0 -0
  123. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib.sln +21 -0
  124. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib/AssemblyInfo.cs +58 -0
  125. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib/ChecksumImpl.cs +202 -0
  126. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib/CircularBuffer.cs +83 -0
  127. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib/CodecBase.cs +198 -0
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  129. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib/DotZLib.cs +288 -0
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  131. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib/GZipStream.cs +301 -0
  132. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib/Inflater.cs +105 -0
  133. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/DotZLib/UnitTests.cs +274 -0
  134. data/ext/src/third-party/zlib-1.2.3/contrib/dotzlib/LICENSE_1_0.txt +23 -0
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  136. data/ext/src/third-party/zlib-1.2.3/contrib/infback9/README +1 -0
  137. data/ext/src/third-party/zlib-1.2.3/contrib/infback9/infback9.c +608 -0
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  141. data/ext/src/third-party/zlib-1.2.3/contrib/infback9/inftree9.c +323 -0
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  145. data/ext/src/third-party/zlib-1.2.3/contrib/iostream/test.cpp +24 -0
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  250. data/ext/src/third-party/zlib-1.2.3/old/README +3 -0
  251. data/ext/src/third-party/zlib-1.2.3/old/descrip.mms +48 -0
  252. data/ext/src/third-party/zlib-1.2.3/old/os2/Makefile.os2 +136 -0
  253. data/ext/src/third-party/zlib-1.2.3/old/os2/zlib.def +51 -0
  254. data/ext/src/third-party/zlib-1.2.3/old/visual-basic.txt +160 -0
  255. data/ext/src/third-party/zlib-1.2.3/old/zlib.html +971 -0
  256. data/ext/src/third-party/zlib-1.2.3/projects/README.projects +41 -0
  257. data/ext/src/third-party/zlib-1.2.3/projects/visualc6/README.txt +73 -0
  258. data/ext/src/third-party/zlib-1.2.3/projects/visualc6/example.dsp +278 -0
  259. data/ext/src/third-party/zlib-1.2.3/projects/visualc6/minigzip.dsp +278 -0
  260. data/ext/src/third-party/zlib-1.2.3/projects/visualc6/zlib.dsp +609 -0
  261. data/ext/src/third-party/zlib-1.2.3/projects/visualc6/zlib.dsw +59 -0
  262. data/ext/src/third-party/zlib-1.2.3/qnx/package.qpg +141 -0
  263. data/ext/src/third-party/zlib-1.2.3/trees.c +1219 -0
  264. data/ext/src/third-party/zlib-1.2.3/trees.h +128 -0
  265. data/ext/src/third-party/zlib-1.2.3/uncompr.c +61 -0
  266. data/ext/src/third-party/zlib-1.2.3/win32/DLL_FAQ.txt +397 -0
  267. data/ext/src/third-party/zlib-1.2.3/win32/Makefile.bor +107 -0
  268. data/ext/src/third-party/zlib-1.2.3/win32/Makefile.emx +69 -0
  269. data/ext/src/third-party/zlib-1.2.3/win32/Makefile.gcc +141 -0
  270. data/ext/src/third-party/zlib-1.2.3/win32/Makefile.msc +126 -0
  271. data/ext/src/third-party/zlib-1.2.3/win32/VisualC.txt +3 -0
  272. data/ext/src/third-party/zlib-1.2.3/win32/zlib.def +60 -0
  273. data/ext/src/third-party/zlib-1.2.3/win32/zlib1.rc +39 -0
  274. data/ext/src/third-party/zlib-1.2.3/zconf.h +332 -0
  275. data/ext/src/third-party/zlib-1.2.3/zconf.in.h +332 -0
  276. data/ext/src/third-party/zlib-1.2.3/zlib.3 +159 -0
  277. data/ext/src/third-party/zlib-1.2.3/zlib.h +1357 -0
  278. data/ext/src/third-party/zlib-1.2.3/zutil.c +318 -0
  279. data/ext/src/third-party/zlib-1.2.3/zutil.h +269 -0
  280. data/lib/bio-velvet_underground.rb +12 -0
  281. data/lib/bio-velvet_underground/external/VERSION +1 -0
  282. data/lib/bio-velvet_underground/velvet_underground.rb +72 -0
  283. data/spec/binary_sequence_store_spec.rb +27 -0
  284. data/spec/data/1/CnyUnifiedSeq +0 -0
  285. data/spec/spec_helper.rb +31 -0
  286. metadata +456 -0
@@ -0,0 +1,69 @@
1
+ # Makefile for zlib. Modified for emx 0.9c by Chr. Spieler, 6/17/98.
2
+ # Copyright (C) 1995-1998 Jean-loup Gailly.
3
+ # For conditions of distribution and use, see copyright notice in zlib.h
4
+
5
+ # To compile, or to compile and test, type:
6
+ #
7
+ # make -fmakefile.emx; make test -fmakefile.emx
8
+ #
9
+
10
+ CC=gcc
11
+
12
+ #CFLAGS=-MMD -O
13
+ #CFLAGS=-O -DMAX_WBITS=14 -DMAX_MEM_LEVEL=7
14
+ #CFLAGS=-MMD -g -DDEBUG
15
+ CFLAGS=-MMD -O3 $(BUTT) -Wall -Wwrite-strings -Wpointer-arith -Wconversion \
16
+ -Wstrict-prototypes -Wmissing-prototypes
17
+
18
+ # If cp.exe is available, replace "copy /Y" with "cp -fp" .
19
+ CP=copy /Y
20
+ # If gnu install.exe is available, replace $(CP) with ginstall.
21
+ INSTALL=$(CP)
22
+ # The default value of RM is "rm -f." If "rm.exe" is found, comment out:
23
+ RM=del
24
+ LDLIBS=-L. -lzlib
25
+ LD=$(CC) -s -o
26
+ LDSHARED=$(CC)
27
+
28
+ INCL=zlib.h zconf.h
29
+ LIBS=zlib.a
30
+
31
+ AR=ar rcs
32
+
33
+ prefix=/usr/local
34
+ exec_prefix = $(prefix)
35
+
36
+ OBJS = adler32.o compress.o crc32.o gzio.o uncompr.o deflate.o trees.o \
37
+ zutil.o inflate.o infback.o inftrees.o inffast.o
38
+
39
+ TEST_OBJS = example.o minigzip.o
40
+
41
+ all: example.exe minigzip.exe
42
+
43
+ test: all
44
+ ./example
45
+ echo hello world | .\minigzip | .\minigzip -d
46
+
47
+ %.o : %.c
48
+ $(CC) $(CFLAGS) -c $< -o $@
49
+
50
+ zlib.a: $(OBJS)
51
+ $(AR) $@ $(OBJS)
52
+
53
+ %.exe : %.o $(LIBS)
54
+ $(LD) $@ $< $(LDLIBS)
55
+
56
+
57
+ .PHONY : clean
58
+
59
+ clean:
60
+ $(RM) *.d
61
+ $(RM) *.o
62
+ $(RM) *.exe
63
+ $(RM) zlib.a
64
+ $(RM) foo.gz
65
+
66
+ DEPS := $(wildcard *.d)
67
+ ifneq ($(DEPS),)
68
+ include $(DEPS)
69
+ endif
@@ -0,0 +1,106 @@
1
+ # Makefile for zlib
2
+ # Microsoft C 5.1 or later
3
+ # Last updated: 19-Mar-2003
4
+
5
+ # To use, do "make makefile.msc"
6
+ # To compile in small model, set below: MODEL=S
7
+
8
+ # If you wish to reduce the memory requirements (default 256K for big
9
+ # objects plus a few K), you can add to the LOC macro below:
10
+ # -DMAX_MEM_LEVEL=7 -DMAX_WBITS=14
11
+ # See zconf.h for details about the memory requirements.
12
+
13
+ # ------------- Microsoft C 5.1 and later -------------
14
+
15
+ # Optional nonstandard preprocessor flags (e.g. -DMAX_MEM_LEVEL=7)
16
+ # should be added to the environment via "set LOCAL_ZLIB=-DFOO" or added
17
+ # to the declaration of LOC here:
18
+ LOC = $(LOCAL_ZLIB)
19
+
20
+ # Type for CPU required: 0: 8086, 1: 80186, 2: 80286, 3: 80386, etc.
21
+ CPU_TYP = 0
22
+
23
+ # Memory model: one of S, M, C, L (small, medium, compact, large)
24
+ MODEL=L
25
+
26
+ CC=cl
27
+ CFLAGS=-nologo -A$(MODEL) -G$(CPU_TYP) -W3 -Oait -Gs $(LOC)
28
+ #-Ox generates bad code with MSC 5.1
29
+ LIB_CFLAGS=-Zl $(CFLAGS)
30
+
31
+ LD=link
32
+ LDFLAGS=/noi/e/st:0x1500/noe/farcall/packcode
33
+ # "/farcall/packcode" are only useful for `large code' memory models
34
+ # but should be a "no-op" for small code models.
35
+
36
+
37
+ # variables
38
+ ZLIB_LIB = zlib_$(MODEL).lib
39
+
40
+ OBJ1 = adler32.obj compress.obj crc32.obj deflate.obj gzio.obj infback.obj
41
+ OBJ2 = inffast.obj inflate.obj inftrees.obj trees.obj uncompr.obj zutil.obj
42
+
43
+
44
+ # targets
45
+ all: $(ZLIB_LIB) example.exe minigzip.exe
46
+
47
+ .c.obj:
48
+ $(CC) -c $(LIB_CFLAGS) $*.c
49
+
50
+ adler32.obj: adler32.c zlib.h zconf.h
51
+
52
+ compress.obj: compress.c zlib.h zconf.h
53
+
54
+ crc32.obj: crc32.c zlib.h zconf.h crc32.h
55
+
56
+ deflate.obj: deflate.c deflate.h zutil.h zlib.h zconf.h
57
+
58
+ gzio.obj: gzio.c zutil.h zlib.h zconf.h
59
+
60
+ infback.obj: infback.c zutil.h zlib.h zconf.h inftrees.h inflate.h \
61
+ inffast.h inffixed.h
62
+
63
+ inffast.obj: inffast.c zutil.h zlib.h zconf.h inftrees.h inflate.h \
64
+ inffast.h
65
+
66
+ inflate.obj: inflate.c zutil.h zlib.h zconf.h inftrees.h inflate.h \
67
+ inffast.h inffixed.h
68
+
69
+ inftrees.obj: inftrees.c zutil.h zlib.h zconf.h inftrees.h
70
+
71
+ trees.obj: trees.c zutil.h zlib.h zconf.h deflate.h trees.h
72
+
73
+ uncompr.obj: uncompr.c zlib.h zconf.h
74
+
75
+ zutil.obj: zutil.c zutil.h zlib.h zconf.h
76
+
77
+ example.obj: example.c zlib.h zconf.h
78
+ $(CC) -c $(CFLAGS) $*.c
79
+
80
+ minigzip.obj: minigzip.c zlib.h zconf.h
81
+ $(CC) -c $(CFLAGS) $*.c
82
+
83
+
84
+ # the command line is cut to fit in the MS-DOS 128 byte limit:
85
+ $(ZLIB_LIB): $(OBJ1) $(OBJ2)
86
+ if exist $(ZLIB_LIB) del $(ZLIB_LIB)
87
+ lib $(ZLIB_LIB) $(OBJ1);
88
+ lib $(ZLIB_LIB) $(OBJ2);
89
+
90
+ example.exe: example.obj $(ZLIB_LIB)
91
+ $(LD) $(LDFLAGS) example.obj,,,$(ZLIB_LIB);
92
+
93
+ minigzip.exe: minigzip.obj $(ZLIB_LIB)
94
+ $(LD) $(LDFLAGS) minigzip.obj,,,$(ZLIB_LIB);
95
+
96
+ test: example.exe minigzip.exe
97
+ example
98
+ echo hello world | minigzip | minigzip -d
99
+
100
+ clean:
101
+ -del *.obj
102
+ -del *.lib
103
+ -del *.exe
104
+ -del *.map
105
+ -del zlib_*.bak
106
+ -del foo.gz
@@ -0,0 +1,94 @@
1
+ # Makefile for zlib
2
+ # Turbo C 2.01, Turbo C++ 1.01
3
+ # Last updated: 15-Mar-2003
4
+
5
+ # To use, do "make -fmakefile.tc"
6
+ # To compile in small model, set below: MODEL=s
7
+
8
+ # WARNING: the small model is supported but only for small values of
9
+ # MAX_WBITS and MAX_MEM_LEVEL. For example:
10
+ # -DMAX_WBITS=11 -DMAX_MEM_LEVEL=3
11
+ # If you wish to reduce the memory requirements (default 256K for big
12
+ # objects plus a few K), you can add to CFLAGS below:
13
+ # -DMAX_MEM_LEVEL=7 -DMAX_WBITS=14
14
+ # See zconf.h for details about the memory requirements.
15
+
16
+ # ------------ Turbo C 2.01, Turbo C++ 1.01 ------------
17
+ MODEL=l
18
+ CC=tcc
19
+ LD=tcc
20
+ AR=tlib
21
+ # CFLAGS=-O2 -G -Z -m$(MODEL) -DMAX_WBITS=11 -DMAX_MEM_LEVEL=3
22
+ CFLAGS=-O2 -G -Z -m$(MODEL)
23
+ LDFLAGS=-m$(MODEL) -f-
24
+
25
+
26
+ # variables
27
+ ZLIB_LIB = zlib_$(MODEL).lib
28
+
29
+ OBJ1 = adler32.obj compress.obj crc32.obj deflate.obj gzio.obj infback.obj
30
+ OBJ2 = inffast.obj inflate.obj inftrees.obj trees.obj uncompr.obj zutil.obj
31
+ OBJP1 = +adler32.obj+compress.obj+crc32.obj+deflate.obj+gzio.obj+infback.obj
32
+ OBJP2 = +inffast.obj+inflate.obj+inftrees.obj+trees.obj+uncompr.obj+zutil.obj
33
+
34
+
35
+ # targets
36
+ all: $(ZLIB_LIB) example.exe minigzip.exe
37
+
38
+ .c.obj:
39
+ $(CC) -c $(CFLAGS) $*.c
40
+
41
+ adler32.obj: adler32.c zlib.h zconf.h
42
+
43
+ compress.obj: compress.c zlib.h zconf.h
44
+
45
+ crc32.obj: crc32.c zlib.h zconf.h crc32.h
46
+
47
+ deflate.obj: deflate.c deflate.h zutil.h zlib.h zconf.h
48
+
49
+ gzio.obj: gzio.c zutil.h zlib.h zconf.h
50
+
51
+ infback.obj: infback.c zutil.h zlib.h zconf.h inftrees.h inflate.h \
52
+ inffast.h inffixed.h
53
+
54
+ inffast.obj: inffast.c zutil.h zlib.h zconf.h inftrees.h inflate.h \
55
+ inffast.h
56
+
57
+ inflate.obj: inflate.c zutil.h zlib.h zconf.h inftrees.h inflate.h \
58
+ inffast.h inffixed.h
59
+
60
+ inftrees.obj: inftrees.c zutil.h zlib.h zconf.h inftrees.h
61
+
62
+ trees.obj: trees.c zutil.h zlib.h zconf.h deflate.h trees.h
63
+
64
+ uncompr.obj: uncompr.c zlib.h zconf.h
65
+
66
+ zutil.obj: zutil.c zutil.h zlib.h zconf.h
67
+
68
+ example.obj: example.c zlib.h zconf.h
69
+
70
+ minigzip.obj: minigzip.c zlib.h zconf.h
71
+
72
+
73
+ # the command line is cut to fit in the MS-DOS 128 byte limit:
74
+ $(ZLIB_LIB): $(OBJ1) $(OBJ2)
75
+ -del $(ZLIB_LIB)
76
+ $(AR) $(ZLIB_LIB) $(OBJP1)
77
+ $(AR) $(ZLIB_LIB) $(OBJP2)
78
+
79
+ example.exe: example.obj $(ZLIB_LIB)
80
+ $(LD) $(LDFLAGS) example.obj $(ZLIB_LIB)
81
+
82
+ minigzip.exe: minigzip.obj $(ZLIB_LIB)
83
+ $(LD) $(LDFLAGS) minigzip.obj $(ZLIB_LIB)
84
+
85
+ test: example.exe minigzip.exe
86
+ example
87
+ echo hello world | minigzip | minigzip -d
88
+
89
+ clean:
90
+ -del *.obj
91
+ -del *.lib
92
+ -del *.exe
93
+ -del zlib_*.bak
94
+ -del foo.gz
@@ -0,0 +1,151 @@
1
+ # Project: zlib_1_03
2
+ # Patched for zlib 1.1.2 rw@shadow.org.uk 19980430
3
+ # test works out-of-the-box, installs `somewhere' on demand
4
+
5
+ # Toolflags:
6
+ CCflags = -c -depend !Depend -IC: -g -throwback -DRISCOS -fah
7
+ C++flags = -c -depend !Depend -IC: -throwback
8
+ Linkflags = -aif -c++ -o $@
9
+ ObjAsmflags = -throwback -NoCache -depend !Depend
10
+ CMHGflags =
11
+ LibFileflags = -c -l -o $@
12
+ Squeezeflags = -o $@
13
+
14
+ # change the line below to where _you_ want the library installed.
15
+ libdest = lib:zlib
16
+
17
+ # Final targets:
18
+ @.lib: @.o.adler32 @.o.compress @.o.crc32 @.o.deflate @.o.gzio \
19
+ @.o.infblock @.o.infcodes @.o.inffast @.o.inflate @.o.inftrees @.o.infutil @.o.trees \
20
+ @.o.uncompr @.o.zutil
21
+ LibFile $(LibFileflags) @.o.adler32 @.o.compress @.o.crc32 @.o.deflate \
22
+ @.o.gzio @.o.infblock @.o.infcodes @.o.inffast @.o.inflate @.o.inftrees @.o.infutil \
23
+ @.o.trees @.o.uncompr @.o.zutil
24
+ test: @.minigzip @.example @.lib
25
+ @copy @.lib @.libc A~C~DF~L~N~P~Q~RS~TV
26
+ @echo running tests: hang on.
27
+ @/@.minigzip -f -9 libc
28
+ @/@.minigzip -d libc-gz
29
+ @/@.minigzip -f -1 libc
30
+ @/@.minigzip -d libc-gz
31
+ @/@.minigzip -h -9 libc
32
+ @/@.minigzip -d libc-gz
33
+ @/@.minigzip -h -1 libc
34
+ @/@.minigzip -d libc-gz
35
+ @/@.minigzip -9 libc
36
+ @/@.minigzip -d libc-gz
37
+ @/@.minigzip -1 libc
38
+ @/@.minigzip -d libc-gz
39
+ @diff @.lib @.libc
40
+ @echo that should have reported '@.lib and @.libc identical' if you have diff.
41
+ @/@.example @.fred @.fred
42
+ @echo that will have given lots of hello!'s.
43
+
44
+ @.minigzip: @.o.minigzip @.lib C:o.Stubs
45
+ Link $(Linkflags) @.o.minigzip @.lib C:o.Stubs
46
+ @.example: @.o.example @.lib C:o.Stubs
47
+ Link $(Linkflags) @.o.example @.lib C:o.Stubs
48
+
49
+ install: @.lib
50
+ cdir $(libdest)
51
+ cdir $(libdest).h
52
+ @copy @.h.zlib $(libdest).h.zlib A~C~DF~L~N~P~Q~RS~TV
53
+ @copy @.h.zconf $(libdest).h.zconf A~C~DF~L~N~P~Q~RS~TV
54
+ @copy @.lib $(libdest).lib A~C~DF~L~N~P~Q~RS~TV
55
+ @echo okay, installed zlib in $(libdest)
56
+
57
+ clean:; remove @.minigzip
58
+ remove @.example
59
+ remove @.libc
60
+ -wipe @.o.* F~r~cV
61
+ remove @.fred
62
+
63
+ # User-editable dependencies:
64
+ .c.o:
65
+ cc $(ccflags) -o $@ $<
66
+
67
+ # Static dependencies:
68
+
69
+ # Dynamic dependencies:
70
+ o.example: c.example
71
+ o.example: h.zlib
72
+ o.example: h.zconf
73
+ o.minigzip: c.minigzip
74
+ o.minigzip: h.zlib
75
+ o.minigzip: h.zconf
76
+ o.adler32: c.adler32
77
+ o.adler32: h.zlib
78
+ o.adler32: h.zconf
79
+ o.compress: c.compress
80
+ o.compress: h.zlib
81
+ o.compress: h.zconf
82
+ o.crc32: c.crc32
83
+ o.crc32: h.zlib
84
+ o.crc32: h.zconf
85
+ o.deflate: c.deflate
86
+ o.deflate: h.deflate
87
+ o.deflate: h.zutil
88
+ o.deflate: h.zlib
89
+ o.deflate: h.zconf
90
+ o.gzio: c.gzio
91
+ o.gzio: h.zutil
92
+ o.gzio: h.zlib
93
+ o.gzio: h.zconf
94
+ o.infblock: c.infblock
95
+ o.infblock: h.zutil
96
+ o.infblock: h.zlib
97
+ o.infblock: h.zconf
98
+ o.infblock: h.infblock
99
+ o.infblock: h.inftrees
100
+ o.infblock: h.infcodes
101
+ o.infblock: h.infutil
102
+ o.infcodes: c.infcodes
103
+ o.infcodes: h.zutil
104
+ o.infcodes: h.zlib
105
+ o.infcodes: h.zconf
106
+ o.infcodes: h.inftrees
107
+ o.infcodes: h.infblock
108
+ o.infcodes: h.infcodes
109
+ o.infcodes: h.infutil
110
+ o.infcodes: h.inffast
111
+ o.inffast: c.inffast
112
+ o.inffast: h.zutil
113
+ o.inffast: h.zlib
114
+ o.inffast: h.zconf
115
+ o.inffast: h.inftrees
116
+ o.inffast: h.infblock
117
+ o.inffast: h.infcodes
118
+ o.inffast: h.infutil
119
+ o.inffast: h.inffast
120
+ o.inflate: c.inflate
121
+ o.inflate: h.zutil
122
+ o.inflate: h.zlib
123
+ o.inflate: h.zconf
124
+ o.inflate: h.infblock
125
+ o.inftrees: c.inftrees
126
+ o.inftrees: h.zutil
127
+ o.inftrees: h.zlib
128
+ o.inftrees: h.zconf
129
+ o.inftrees: h.inftrees
130
+ o.inftrees: h.inffixed
131
+ o.infutil: c.infutil
132
+ o.infutil: h.zutil
133
+ o.infutil: h.zlib
134
+ o.infutil: h.zconf
135
+ o.infutil: h.infblock
136
+ o.infutil: h.inftrees
137
+ o.infutil: h.infcodes
138
+ o.infutil: h.infutil
139
+ o.trees: c.trees
140
+ o.trees: h.deflate
141
+ o.trees: h.zutil
142
+ o.trees: h.zlib
143
+ o.trees: h.zconf
144
+ o.trees: h.trees
145
+ o.uncompr: c.uncompr
146
+ o.uncompr: h.zlib
147
+ o.uncompr: h.zconf
148
+ o.zutil: c.zutil
149
+ o.zutil: h.zutil
150
+ o.zutil: h.zlib
151
+ o.zutil: h.zconf
@@ -0,0 +1,3 @@
1
+ This directory contains files that have not been updated for zlib 1.2.x
2
+
3
+ (Volunteers are encouraged to help clean this up. Thanks.)
@@ -0,0 +1,48 @@
1
+ # descrip.mms: MMS description file for building zlib on VMS
2
+ # written by Martin P.J. Zinser <m.zinser@gsi.de>
3
+
4
+ cc_defs =
5
+ c_deb =
6
+
7
+ .ifdef __DECC__
8
+ pref = /prefix=all
9
+ .endif
10
+
11
+ OBJS = adler32.obj, compress.obj, crc32.obj, gzio.obj, uncompr.obj,\
12
+ deflate.obj, trees.obj, zutil.obj, inflate.obj, infblock.obj,\
13
+ inftrees.obj, infcodes.obj, infutil.obj, inffast.obj
14
+
15
+ CFLAGS= $(C_DEB) $(CC_DEFS) $(PREF)
16
+
17
+ all : example.exe minigzip.exe
18
+ @ write sys$output " Example applications available"
19
+ libz.olb : libz.olb($(OBJS))
20
+ @ write sys$output " libz available"
21
+
22
+ example.exe : example.obj libz.olb
23
+ link example,libz.olb/lib
24
+
25
+ minigzip.exe : minigzip.obj libz.olb
26
+ link minigzip,libz.olb/lib,x11vms:xvmsutils.olb/lib
27
+
28
+ clean :
29
+ delete *.obj;*,libz.olb;*
30
+
31
+
32
+ # Other dependencies.
33
+ adler32.obj : zutil.h zlib.h zconf.h
34
+ compress.obj : zlib.h zconf.h
35
+ crc32.obj : zutil.h zlib.h zconf.h
36
+ deflate.obj : deflate.h zutil.h zlib.h zconf.h
37
+ example.obj : zlib.h zconf.h
38
+ gzio.obj : zutil.h zlib.h zconf.h
39
+ infblock.obj : zutil.h zlib.h zconf.h infblock.h inftrees.h infcodes.h infutil.h
40
+ infcodes.obj : zutil.h zlib.h zconf.h inftrees.h infutil.h infcodes.h inffast.h
41
+ inffast.obj : zutil.h zlib.h zconf.h inftrees.h infutil.h inffast.h
42
+ inflate.obj : zutil.h zlib.h zconf.h infblock.h
43
+ inftrees.obj : zutil.h zlib.h zconf.h inftrees.h
44
+ infutil.obj : zutil.h zlib.h zconf.h inftrees.h infutil.h
45
+ minigzip.obj : zlib.h zconf.h
46
+ trees.obj : deflate.h zutil.h zlib.h zconf.h
47
+ uncompr.obj : zlib.h zconf.h
48
+ zutil.obj : zutil.h zlib.h zconf.h