# -*- encoding: utf-8 -*-
# stub: bio-maf 1.0.0 java lib

Gem::Specification.new do |s|
  s.name = "bio-maf".freeze
  s.version = "1.0.0".freeze
  s.platform = "java".freeze

  s.required_rubygems_version = Gem::Requirement.new(">= 0".freeze) if s.respond_to? :required_rubygems_version=
  s.require_paths = ["lib".freeze]
  s.authors = ["Clayton Wheeler".freeze]
  s.date = "2012-08-02"
  s.description = "Multiple Alignment Format parser for BioRuby.".freeze
  s.email = "cswh@umich.edu".freeze
  s.executables = ["find_overlaps".freeze, "maf_bgzip".freeze, "maf_count".freeze, "maf_dump_blocks".freeze, "maf_extract".freeze, "maf_extract_ranges_count".freeze, "maf_index".freeze, "maf_parse_bench".freeze, "maf_tile".freeze, "maf_to_fasta".freeze, "maf_write".freeze, "random_ranges".freeze]
  s.extra_rdoc_files = ["LICENSE.txt".freeze, "README.md".freeze]
  s.files = [".document".freeze, ".gitignore".freeze, ".simplecov".freeze, ".travis.yml".freeze, ".yardopts".freeze, "DEVELOPMENT.md".freeze, "Gemfile".freeze, "LICENSE.txt".freeze, "README.md".freeze, "Rakefile".freeze, "VERSION".freeze, "benchmarks/dispatch_bench".freeze, "benchmarks/iter_bench".freeze, "benchmarks/read_bench".freeze, "benchmarks/sort_bench".freeze, "benchmarks/split_bench".freeze, "bin/find_overlaps".freeze, "bin/maf_bgzip".freeze, "bin/maf_count".freeze, "bin/maf_dump_blocks".freeze, "bin/maf_extract".freeze, "bin/maf_extract_ranges_count".freeze, "bin/maf_index".freeze, "bin/maf_parse_bench".freeze, "bin/maf_tile".freeze, "bin/maf_to_fasta".freeze, "bin/maf_write".freeze, "bin/random_ranges".freeze, "bio-maf.gemspec".freeze, "features/bgzf.feature".freeze, "features/block-joining.feature".freeze, "features/dir-access.feature".freeze, "features/gap-removal.feature".freeze, "features/maf-indexing.feature".freeze, "features/maf-output.feature".freeze, "features/maf-parsing.feature".freeze, "features/maf-querying.feature".freeze, "features/maf-to-fasta.feature".freeze, "features/slice.feature".freeze, "features/step_definitions/convert_steps.rb".freeze, "features/step_definitions/dir-access_steps.rb".freeze, "features/step_definitions/file_steps.rb".freeze, "features/step_definitions/gap_removal_steps.rb".freeze, "features/step_definitions/index_steps.rb".freeze, "features/step_definitions/output_steps.rb".freeze, "features/step_definitions/parse_steps.rb".freeze, "features/step_definitions/query_steps.rb".freeze, "features/step_definitions/slice_steps.rb".freeze, "features/step_definitions/tiling_steps.rb".freeze, "features/step_definitions/ucsc_bin_steps.rb".freeze, "features/support/aruba.rb".freeze, "features/support/env.rb".freeze, "features/tiling.feature".freeze, "features/ucsc-bins.feature".freeze, "lib/bio-maf.rb".freeze, "lib/bio-maf/maf.rb".freeze, "lib/bio/maf.rb".freeze, "lib/bio/maf/index.rb".freeze, "lib/bio/maf/maf.rb".freeze, "lib/bio/maf/parser.rb".freeze, "lib/bio/maf/struct.rb".freeze, "lib/bio/maf/tiler.rb".freeze, "lib/bio/maf/writer.rb".freeze, "lib/bio/ucsc.rb".freeze, "lib/bio/ucsc/genomic-interval-bin.rb".freeze, "lib/bio/ucsc/ucsc_bin.rb".freeze, "man/.gitignore".freeze, "man/maf_bgzip.1".freeze, "man/maf_bgzip.1.ronn".freeze, "man/maf_extract.1".freeze, "man/maf_extract.1.ronn".freeze, "man/maf_index.1".freeze, "man/maf_index.1.markdown".freeze, "man/maf_index.1.ronn".freeze, "man/maf_tile.1".freeze, "man/maf_tile.1.ronn".freeze, "man/maf_to_fasta.1".freeze, "man/maf_to_fasta.1.ronn".freeze, "spec/bio/maf/index_spec.rb".freeze, "spec/bio/maf/maf_spec.rb".freeze, "spec/bio/maf/parser_spec.rb".freeze, "spec/bio/maf/struct_spec.rb".freeze, "spec/bio/maf/tiler_spec.rb".freeze, "spec/spec_helper.rb".freeze, "test/data/big-block.maf".freeze, "test/data/chr22_ieq.maf".freeze, "test/data/chr22_ieq2.maf".freeze, "test/data/chrY-1block.maf".freeze, "test/data/empty".freeze, "test/data/empty.db".freeze, "test/data/gap-1.kct".freeze, "test/data/gap-1.maf".freeze, "test/data/gap-filled1.fa".freeze, "test/data/gap-sp1.fa".freeze, "test/data/gap-sp1.fa.gz".freeze, "test/data/mm8.chrM.maf".freeze, "test/data/mm8.chrM.maf.bgz".freeze, "test/data/mm8_chr7_tiny.kct".freeze, "test/data/mm8_chr7_tiny.maf".freeze, "test/data/mm8_chr7_tiny.maf.gz".freeze, "test/data/mm8_chr7_tiny_slice1.maf".freeze, "test/data/mm8_chr7_tiny_slice2.maf".freeze, "test/data/mm8_chr7_tiny_slice3.maf".freeze, "test/data/mm8_chrM_tiny.kct".freeze, "test/data/mm8_chrM_tiny.maf".freeze, "test/data/mm8_mod_a.maf".freeze, "test/data/mm8_single.maf".freeze, "test/data/mm8_subset_a.maf".freeze, "test/data/t1-bad1.maf".freeze, "test/data/t1.fasta".freeze, "test/data/t1.maf".freeze, "test/data/t1a.maf".freeze, "test/helper.rb".freeze, "test/test_bio-maf.rb".freeze, "travis-ci/install_kc".freeze, "travis-ci/install_kc_java".freeze, "travis-ci/report_errors".freeze]
  s.homepage = "http://github.com/csw/bioruby-maf".freeze
  s.licenses = ["MIT".freeze]
  s.rubygems_version = "3.5.10".freeze
  s.summary = "MAF parser for BioRuby".freeze
  s.test_files = ["features/bgzf.feature".freeze, "features/block-joining.feature".freeze, "features/dir-access.feature".freeze, "features/gap-removal.feature".freeze, "features/maf-indexing.feature".freeze, "features/maf-output.feature".freeze, "features/maf-parsing.feature".freeze, "features/maf-querying.feature".freeze, "features/maf-to-fasta.feature".freeze, "features/slice.feature".freeze, "features/step_definitions/convert_steps.rb".freeze, "features/step_definitions/dir-access_steps.rb".freeze, "features/step_definitions/file_steps.rb".freeze, "features/step_definitions/gap_removal_steps.rb".freeze, "features/step_definitions/index_steps.rb".freeze, "features/step_definitions/output_steps.rb".freeze, "features/step_definitions/parse_steps.rb".freeze, "features/step_definitions/query_steps.rb".freeze, "features/step_definitions/slice_steps.rb".freeze, "features/step_definitions/tiling_steps.rb".freeze, "features/step_definitions/ucsc_bin_steps.rb".freeze, "features/support/aruba.rb".freeze, "features/support/env.rb".freeze, "features/tiling.feature".freeze, "features/ucsc-bins.feature".freeze, "spec/bio/maf/index_spec.rb".freeze, "spec/bio/maf/maf_spec.rb".freeze, "spec/bio/maf/parser_spec.rb".freeze, "spec/bio/maf/struct_spec.rb".freeze, "spec/bio/maf/tiler_spec.rb".freeze, "spec/spec_helper.rb".freeze, "test/data/big-block.maf".freeze, "test/data/chr22_ieq.maf".freeze, "test/data/chr22_ieq2.maf".freeze, "test/data/chrY-1block.maf".freeze, "test/data/empty".freeze, "test/data/empty.db".freeze, "test/data/gap-1.kct".freeze, "test/data/gap-1.maf".freeze, "test/data/gap-filled1.fa".freeze, "test/data/gap-sp1.fa".freeze, "test/data/gap-sp1.fa.gz".freeze, "test/data/mm8.chrM.maf".freeze, "test/data/mm8.chrM.maf.bgz".freeze, "test/data/mm8_chr7_tiny.kct".freeze, "test/data/mm8_chr7_tiny.maf".freeze, "test/data/mm8_chr7_tiny.maf.gz".freeze, "test/data/mm8_chr7_tiny_slice1.maf".freeze, "test/data/mm8_chr7_tiny_slice2.maf".freeze, "test/data/mm8_chr7_tiny_slice3.maf".freeze, "test/data/mm8_chrM_tiny.kct".freeze, "test/data/mm8_chrM_tiny.maf".freeze, "test/data/mm8_mod_a.maf".freeze, "test/data/mm8_single.maf".freeze, "test/data/mm8_subset_a.maf".freeze, "test/data/t1-bad1.maf".freeze, "test/data/t1.fasta".freeze, "test/data/t1.maf".freeze, "test/data/t1a.maf".freeze, "test/helper.rb".freeze, "test/test_bio-maf.rb".freeze]

  s.specification_version = 3

  s.add_runtime_dependency(%q<bio-alignment>.freeze, ["~> 0.0.7".freeze])
  s.add_runtime_dependency(%q<bio-bgzf>.freeze, ["~> 0.2.0".freeze])
  s.add_runtime_dependency(%q<bio-genomic-interval>.freeze, ["~> 0.1.2".freeze])
  s.add_runtime_dependency(%q<bio-logger>.freeze, ["~> 1.0.1".freeze])
  s.add_runtime_dependency(%q<kyotocabinet-java>.freeze, ["~> 0.3.0".freeze])
end