finishm 0.0.1
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- data/ext/src/third-party/zlib-1.2.3/minigzip +0 -0
- data/ext/src/third-party/zlib-1.2.3/minigzip.c +322 -0
- data/ext/src/third-party/zlib-1.2.3/msdos/Makefile.bor +109 -0
- data/ext/src/third-party/zlib-1.2.3/msdos/Makefile.dj2 +104 -0
- data/ext/src/third-party/zlib-1.2.3/msdos/Makefile.emx +69 -0
- data/ext/src/third-party/zlib-1.2.3/msdos/Makefile.msc +106 -0
- data/ext/src/third-party/zlib-1.2.3/msdos/Makefile.tc +94 -0
- data/ext/src/third-party/zlib-1.2.3/old/Makefile.riscos +151 -0
- data/ext/src/third-party/zlib-1.2.3/old/README +3 -0
- data/ext/src/third-party/zlib-1.2.3/old/descrip.mms +48 -0
- data/ext/src/third-party/zlib-1.2.3/old/os2/Makefile.os2 +136 -0
- data/ext/src/third-party/zlib-1.2.3/old/os2/zlib.def +51 -0
- data/ext/src/third-party/zlib-1.2.3/old/visual-basic.txt +160 -0
- data/ext/src/third-party/zlib-1.2.3/old/zlib.html +971 -0
- data/ext/src/third-party/zlib-1.2.3/projects/README.projects +41 -0
- data/ext/src/third-party/zlib-1.2.3/projects/visualc6/README.txt +73 -0
- data/ext/src/third-party/zlib-1.2.3/projects/visualc6/example.dsp +278 -0
- data/ext/src/third-party/zlib-1.2.3/projects/visualc6/minigzip.dsp +278 -0
- data/ext/src/third-party/zlib-1.2.3/projects/visualc6/zlib.dsp +609 -0
- data/ext/src/third-party/zlib-1.2.3/projects/visualc6/zlib.dsw +59 -0
- data/ext/src/third-party/zlib-1.2.3/qnx/package.qpg +141 -0
- data/ext/src/third-party/zlib-1.2.3/trees.c +1219 -0
- data/ext/src/third-party/zlib-1.2.3/trees.h +128 -0
- data/ext/src/third-party/zlib-1.2.3/trees.o +0 -0
- data/ext/src/third-party/zlib-1.2.3/uncompr.c +61 -0
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- data/ext/src/third-party/zlib-1.2.3/win32/DLL_FAQ.txt +397 -0
- data/ext/src/third-party/zlib-1.2.3/win32/Makefile.bor +107 -0
- data/ext/src/third-party/zlib-1.2.3/win32/Makefile.emx +69 -0
- data/ext/src/third-party/zlib-1.2.3/win32/Makefile.gcc +141 -0
- data/ext/src/third-party/zlib-1.2.3/win32/Makefile.msc +126 -0
- data/ext/src/third-party/zlib-1.2.3/win32/VisualC.txt +3 -0
- data/ext/src/third-party/zlib-1.2.3/win32/zlib.def +60 -0
- data/ext/src/third-party/zlib-1.2.3/win32/zlib1.rc +39 -0
- data/ext/src/third-party/zlib-1.2.3/zconf.h +332 -0
- data/ext/src/third-party/zlib-1.2.3/zconf.in.h +332 -0
- data/ext/src/third-party/zlib-1.2.3/zlib.3 +159 -0
- data/ext/src/third-party/zlib-1.2.3/zlib.h +1357 -0
- data/ext/src/third-party/zlib-1.2.3/zutil.c +318 -0
- data/ext/src/third-party/zlib-1.2.3/zutil.h +269 -0
- data/ext/src/third-party/zlib-1.2.3/zutil.o +0 -0
- data/lib/assembly/a_b_visualiser.rb +169 -0
- data/lib/assembly/acyclic_connection_finder.rb +81 -0
- data/lib/assembly/all_orfs.rb +615 -0
- data/lib/assembly/bad_format_writer.rb +46 -0
- data/lib/assembly/bam_probe_read_selector.rb +48 -0
- data/lib/assembly/bubbly_assembler.rb +842 -0
- data/lib/assembly/c_probe_node_finder.rb +38 -0
- data/lib/assembly/connection_interpreter.rb +350 -0
- data/lib/assembly/contig_printer.rb +400 -0
- data/lib/assembly/coverage_based_graph_filter.rb +68 -0
- data/lib/assembly/depth_first_search.rb +63 -0
- data/lib/assembly/dijkstra.rb +216 -0
- data/lib/assembly/fluffer.rb +253 -0
- data/lib/assembly/graph_explorer.rb +85 -0
- data/lib/assembly/graph_generator.rb +315 -0
- data/lib/assembly/height_finder.rb +355 -0
- data/lib/assembly/hybrid_velvet_graph.rb +70 -0
- data/lib/assembly/input_genome.rb +182 -0
- data/lib/assembly/kmer_coverage_based_path_filter.rb +65 -0
- data/lib/assembly/node_finder.rb +171 -0
- data/lib/assembly/oriented_node_trail.rb +507 -0
- data/lib/assembly/paired_end_assembler.rb +53 -0
- data/lib/assembly/paired_end_neighbour_finder.rb +176 -0
- data/lib/assembly/probed_graph.rb +105 -0
- data/lib/assembly/read_input.rb +79 -0
- data/lib/assembly/read_to_node.rb +37 -0
- data/lib/assembly/scaffold_breaker.rb +126 -0
- data/lib/assembly/sequence_hasher.rb +71 -0
- data/lib/assembly/single_coherent_paths_between_nodes.rb +533 -0
- data/lib/assembly/single_coherent_wanderer.rb +261 -0
- data/lib/assembly/single_ended_assembler.rb +441 -0
- data/lib/assembly/velvet_c_binding.rb +54 -0
- data/lib/assembly/velvet_graph_sequence_extractor.rb +123 -0
- data/lib/external/VERSION +1 -0
- data/lib/finishm/assemble.rb +224 -0
- data/lib/finishm/explore.rb +217 -0
- data/lib/finishm/finisher.rb +303 -0
- data/lib/finishm/fluff.rb +122 -0
- data/lib/finishm/gapfiller.rb +325 -0
- data/lib/finishm/orfs_finder.rb +88 -0
- data/lib/finishm/path_counter.rb +90 -0
- data/lib/finishm/primers.rb +425 -0
- data/lib/finishm/primers_check.rb +176 -0
- data/lib/finishm/roundup.rb +344 -0
- data/lib/finishm/sequence.rb +142 -0
- data/lib/finishm/visualise.rb +430 -0
- data/lib/finishm/wander.rb +270 -0
- data/lib/kmer_abundance_pattern.rb +79 -0
- data/lib/kmer_multi_abundance_file.rb +48 -0
- data/lib/oligo_designer.rb +88 -0
- data/lib/priner.rb +66 -0
- data/spec/acyclic_connection_finder_spec.rb +551 -0
- data/spec/all_orfs_spec.rb +443 -0
- data/spec/assemble_spec.rb +186 -0
- data/spec/bubbly_assembler_spec.rb +707 -0
- data/spec/c_node_finder_spec.rb +58 -0
- data/spec/connection_interpreter_spec.rb +284 -0
- data/spec/contig_printer_spec.rb +291 -0
- data/spec/coverage_based_graph_filter_spec.rb +102 -0
- data/spec/data/6_3e4e5e6e.1vANME.bam +0 -0
- data/spec/data/6_3e4e5e6e.1vANME.bam.bai +0 -0
- data/spec/data/acyclic_connection_finder/1/probes.fa +5 -0
- data/spec/data/acyclic_connection_finder/1/random1.fa +2 -0
- data/spec/data/acyclic_connection_finder/1/random1.sammy.fa.gz +0 -0
- data/spec/data/acyclic_connection_finder/1/random2.fa +2 -0
- data/spec/data/acyclic_connection_finder/1/random2.sammy.fa.gz +0 -0
- data/spec/data/assembly/1_simple_bubble_uneven_coverage/random3000.fa +39 -0
- data/spec/data/assembly/1_simple_bubble_uneven_coverage/random3000.slightly_changed.fa +39 -0
- data/spec/data/assembly/1_simple_bubble_uneven_coverage/reads_combined.fa.gz +0 -0
- data/spec/data/assembly_visualiser/Contig_6_1_to_250.fa.kmers31 +220 -0
- data/spec/data/assembly_visualiser/Contig_7_1_to_250.fa.kmers31 +220 -0
- data/spec/data/assembly_visualiser/Graph +46 -0
- data/spec/data/assembly_visualiser/start_kmers1 +2 -0
- data/spec/data/bands.csv +1 -0
- data/spec/data/c_probe_node_finder/1/CnyUnifiedSeq +0 -0
- data/spec/data/c_probe_node_finder/1/CnyUnifiedSeq.names +544 -0
- data/spec/data/c_probe_node_finder/1/Graph2 +668 -0
- data/spec/data/c_probe_node_finder/1/LastGraph +668 -0
- data/spec/data/c_probe_node_finder/1/Log +756 -0
- data/spec/data/c_probe_node_finder/1/PreGraph +11 -0
- data/spec/data/c_probe_node_finder/1/Roadmaps +2009 -0
- data/spec/data/c_probe_node_finder/1/contigs.fa +29 -0
- data/spec/data/c_probe_node_finder/1/stats.txt +6 -0
- data/spec/data/contig_printer/1/HOWTO_RECREATE +17 -0
- data/spec/data/contig_printer/1/contigs.fa +4 -0
- data/spec/data/contig_printer/1/seq.fa +2408 -0
- data/spec/data/contig_printer/1/seq.fa.svg +153 -0
- data/spec/data/contig_printer/1/seq.fa.velvet/Graph2 +2953 -0
- data/spec/data/contig_printer/1/seq.fa.velvet/LastGraph +2953 -0
- data/spec/data/contig_printer/1/seq.fa.velvet/Log +21 -0
- data/spec/data/contig_printer/1/seq.fa.velvet/PreGraph +27 -0
- data/spec/data/contig_printer/1/seq.fa.velvet/Roadmaps +5182 -0
- data/spec/data/contig_printer/1/seq.fa.velvet/Sequences +3612 -0
- data/spec/data/contig_printer/1/seq.fa.velvet/contigs.fa +36 -0
- data/spec/data/contig_printer/1/seq.fa.velvet/stats.txt +14 -0
- data/spec/data/contig_printer/1/seq.faVseq2_1to550.fa.bam +0 -0
- data/spec/data/contig_printer/1/seq.faVseq2_1to550.fa.bam.bai +0 -0
- data/spec/data/contig_printer/1/seq.node12.fa +4 -0
- data/spec/data/contig_printer/1/seq1_1to550.fa +2 -0
- data/spec/data/contig_printer/1/seq2_1to550.fa +2 -0
- data/spec/data/contig_printer/1/seq2_1to550.fa.fai +1 -0
- data/spec/data/explore/1/2seqs.sammy.fa +12004 -0
- data/spec/data/explore/1/HOWTO_RECREATE.txt +6 -0
- data/spec/data/explore/1/a.fa +2 -0
- data/spec/data/explore/1/seq1_and_a.fa +3 -0
- data/spec/data/explore/1/seq2.fa +2 -0
- data/spec/data/fluff/1/2seqs.sammy.fa +12004 -0
- data/spec/data/fluff/1/HOWTO_RECREATE.txt +5 -0
- data/spec/data/fluff/1/seq1.fa +2 -0
- data/spec/data/fluff/1/seq2.fa +2 -0
- data/spec/data/gapfilling/1/reads.fa +171 -0
- data/spec/data/gapfilling/1/trail_with_Ns.fa +5 -0
- data/spec/data/gapfilling/1/velvetAssembly/Graph2 +130 -0
- data/spec/data/gapfilling/1/velvetAssembly/LastGraph +130 -0
- data/spec/data/gapfilling/1/velvetAssembly/Log +199 -0
- data/spec/data/gapfilling/1/velvetAssembly/PreGraph +7 -0
- data/spec/data/gapfilling/1/velvetAssembly/Roadmaps +239 -0
- data/spec/data/gapfilling/1/velvetAssembly/Sequences +281 -0
- data/spec/data/gapfilling/1/velvetAssembly/contigs.fa +12 -0
- data/spec/data/gapfilling/1/velvetAssembly/stats.txt +4 -0
- data/spec/data/gapfilling/2/HOWTO_recreate +17 -0
- data/spec/data/gapfilling/2/reference.fa +2 -0
- data/spec/data/gapfilling/2/reference_part1.fa +4 -0
- data/spec/data/gapfilling/2/reference_part2.fa +4 -0
- data/spec/data/gapfilling/2/sammy_reads.fa.gz +0 -0
- data/spec/data/gapfilling/2/with_gaps.fa +4 -0
- data/spec/data/gapfilling/3/HOWTO_recreate +4 -0
- data/spec/data/gapfilling/3/reads.fa.gz +0 -0
- data/spec/data/gapfilling/3/reference_part1.fa +4 -0
- data/spec/data/gapfilling/3/reference_part2.fa +4 -0
- data/spec/data/gapfilling/3/with_gaps.fa +4 -0
- data/spec/data/gapfilling/4/HOWTO_recreate +1 -0
- data/spec/data/gapfilling/4/reads.fa.gz +0 -0
- data/spec/data/gapfilling/5/HOWTO_RECREATE +7 -0
- data/spec/data/gapfilling/5/answer.fna +2 -0
- data/spec/data/gapfilling/5/gappy.fna +2 -0
- data/spec/data/gapfilling/5/reads.fa +17961 -0
- data/spec/data/gapfilling/5/velvet51_3.5/LastGraph +8337 -0
- data/spec/data/gapfilling/5/velvet51_3.5/Sequences +20921 -0
- data/spec/data/gapfilling/6/random1.fa +28 -0
- data/spec/data/gapfilling/6/random2.fa +28 -0
- data/spec/data/gapfilling/6/random_sequence_length_2000 +0 -0
- data/spec/data/gapfilling/6/reads.random1.fa.gz +0 -0
- data/spec/data/gapfilling/6/reads.random2.fa.gz +0 -0
- data/spec/data/gapfilling/6/to_gapfill.fa +22 -0
- data/spec/data/kmer_profile_to_assembly/multiple_abundance_file1.csv +2 -0
- data/spec/data/kmers_count1.csv +2 -0
- data/spec/data/kmers_count2.csv +3 -0
- data/spec/data/out +3 -0
- data/spec/data/positive_latching_pair.fa +2 -0
- data/spec/data/primers.csv +4 -0
- data/spec/data/read_selection_by_kmer/blacklist1.txt +1 -0
- data/spec/data/read_selection_by_kmer/input.fasta +6 -0
- data/spec/data/read_selection_by_kmer/whitelist1.txt +1 -0
- data/spec/data/read_selection_by_kmer/whitelist2.txt +2 -0
- data/spec/data/read_to_node/1_a_graph/HOWTO_RECREATE.txt +2 -0
- data/spec/data/read_to_node/1_a_graph/LastGraph +6695 -0
- data/spec/data/read_to_node/1_a_graph/ReadToNode.bin +0 -0
- data/spec/data/read_to_node/2_no_read256_or_259/HOWTO_RECREATE.txt +3 -0
- data/spec/data/read_to_node/2_no_read256_or_259/LastGraph +6693 -0
- data/spec/data/read_to_node/2_no_read256_or_259/ReadToNode.bin +0 -0
- data/spec/data/read_to_node/3_no_last_read/LastGraph +6694 -0
- data/spec/data/read_to_node/3_no_last_read/ReadToNode.bin +0 -0
- data/spec/data/t/details.txt +5 -0
- data/spec/data/t/details.txt.srt +5 -0
- data/spec/data/t/location.txt +3 -0
- data/spec/data/t/location.txt.srt +3 -0
- data/spec/data/tweak/1_gap_then_unscaffolded/answer.fa +2 -0
- data/spec/data/tweak/1_gap_then_unscaffolded/reads.fa.gz +0 -0
- data/spec/data/tweak/1_gap_then_unscaffolded/scaffolds.fa +6 -0
- data/spec/data/tweak/2_second_genome/answer2.fa +2 -0
- data/spec/data/tweak/2_second_genome/reads.fa.gz +0 -0
- data/spec/data/tweak/3_variant/answer.fa +2 -0
- data/spec/data/tweak/3_variant/lesser_answer.fa +2 -0
- data/spec/data/tweak/3_variant/reads.fa.gz +0 -0
- data/spec/data/tweak/3_variant/with_gaps.fa +2 -0
- data/spec/data/velvet_test_trails/Assem/Graph +17 -0
- data/spec/data/velvet_test_trails/Assem/Graph2 +40 -0
- data/spec/data/velvet_test_trails/Assem/LastGraph +40 -0
- data/spec/data/velvet_test_trails/Assem/Log +35 -0
- data/spec/data/velvet_test_trails/Assem/PreGraph +9 -0
- data/spec/data/velvet_test_trails/Assem/Roadmaps +89 -0
- data/spec/data/velvet_test_trails/Assem/Sequences +50 -0
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- data/spec/data/velvet_test_trails/Assem/contigs.fa +15 -0
- data/spec/data/velvet_test_trails/Assem/stats.txt +5 -0
- data/spec/data/velvet_test_trails/node_fwds.fa +8 -0
- data/spec/data/velvet_test_trails/node_seqs.fa +9 -0
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- data/spec/data/velvet_test_trails/reads.fa +50 -0
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- data/spec/data/visualise/1/LastGraph +6695 -0
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- data/spec/data/visualise/2_paired_end/rand1.fa +2 -0
- data/spec/data/visualise/2_paired_end/rand2.fa +2 -0
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- data/spec/data/wander/1/random1.fa +2 -0
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- data/spec/depth_first_search_spec.rb +190 -0
- data/spec/dijkstra_spec.rb +143 -0
- data/spec/explore_spec.rb +29 -0
- data/spec/fluffer_spec.rb +155 -0
- data/spec/gapfiller_spec.rb +107 -0
- data/spec/graph_explorer_spec.rb +475 -0
- data/spec/graph_generator_spec.rb +99 -0
- data/spec/height_finder_spec.rb +306 -0
- data/spec/kmer_abundance_pattern_spec.rb +56 -0
- data/spec/kmer_coverage_based_path_filter_spec.rb +73 -0
- data/spec/kmer_profile_finder_spec.rb +38 -0
- data/spec/kmers_count_tabulate_spec.rb +120 -0
- data/spec/oriented_node_trail_spec.rb +221 -0
- data/spec/paired_end_neighbours_spec.rb +126 -0
- data/spec/paths_between_nodes_spec.rb +349 -0
- data/spec/priner_spec.rb +7 -0
- data/spec/read_input_spec.rb +23 -0
- data/spec/read_selection_by_kmer_spec.rb +166 -0
- data/spec/read_to_node_spec.rb +35 -0
- data/spec/roundup_spec.rb +366 -0
- data/spec/scaffold_breaker_spec.rb +144 -0
- data/spec/sequence_spec.rb +43 -0
- data/spec/single_coherent_paths_between_nodes_spec.rb +492 -0
- data/spec/single_coherent_wanderer_spec.rb +120 -0
- data/spec/single_ended_assembler_spec.rb +398 -0
- data/spec/spec_helper.rb +310 -0
- data/spec/velvet_graph_sequence_extractor_spec.rb +80 -0
- data/spec/visualise_spec.rb +105 -0
- data/spec/wander_spec.rb +119 -0
- data/spec/watch_for_changes.sh +16 -0
- data/validation/fasta_compare.rb +72 -0
- data/validation/gapfill_simulate_perfect.rb +108 -0
- metadata +899 -0
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$(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 +1,48 @@
|
|
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
|