# -*- encoding: utf-8 -*-
# stub: macroape 3.3.6 ruby lib

Gem::Specification.new do |s|
  s.name = "macroape".freeze
  s.version = "3.3.6".freeze

  s.required_rubygems_version = Gem::Requirement.new(">= 0".freeze) if s.respond_to? :required_rubygems_version=
  s.require_paths = ["lib".freeze]
  s.authors = ["Ilya Vorontsov".freeze]
  s.date = "2012-09-11"
  s.description = "Macroape is an abbreviation for MAtrix CompaRisOn by Approximate P-value Estimation. It's a bioinformatic tool for evaluating similarity measure and best alignment between a pair of Position Weight Matrices(PWM), finding thresholds by P-values and inside out and even searching a collection of motifs for the most similar ones. Used approach and application described in manual at https://docs.google.com/document/pub?id=1_jsxhMNzMzy4d2d_byAd3n6Szg5gEcqG_Sf7w9tEqWw".freeze
  s.email = ["prijutme4ty@gmail.com".freeze]
  s.executables = ["align_motifs".freeze, "eval_alignment".freeze, "eval_similarity".freeze, "find_pvalue".freeze, "find_threshold".freeze, "preprocess_collection".freeze, "scan_collection".freeze]
  s.files = [".gitignore".freeze, "Gemfile".freeze, "LICENSE".freeze, "README.md".freeze, "Rakefile.rb".freeze, "TODO.txt".freeze, "benchmark/similarity_benchmark.rb".freeze, "bin/align_motifs".freeze, "bin/eval_alignment".freeze, "bin/eval_similarity".freeze, "bin/find_pvalue".freeze, "bin/find_threshold".freeze, "bin/preprocess_collection".freeze, "bin/scan_collection".freeze, "lib/macroape.rb".freeze, "lib/macroape/aligned_pair_intersection.rb".freeze, "lib/macroape/cli.rb".freeze, "lib/macroape/cli/align_motifs.rb".freeze, "lib/macroape/cli/eval_alignment.rb".freeze, "lib/macroape/cli/eval_similarity.rb".freeze, "lib/macroape/cli/find_pvalue.rb".freeze, "lib/macroape/cli/find_threshold.rb".freeze, "lib/macroape/cli/preprocess_collection.rb".freeze, "lib/macroape/cli/scan_collection.rb".freeze, "lib/macroape/counting.rb".freeze, "lib/macroape/pwm_compare.rb".freeze, "lib/macroape/pwm_compare_aligned.rb".freeze, "lib/macroape/version.rb".freeze, "macroape.gemspec".freeze, "spec/count_distribution_spec.rb".freeze, "spec/spec_helper.rb".freeze, "test/align_motifs_test.rb".freeze, "test/data/AHR_si.pat".freeze, "test/data/KLF3_f1.pat".freeze, "test/data/KLF3_f1.pcm".freeze, "test/data/KLF4_f2.pat".freeze, "test/data/KLF4_f2.pcm".freeze, "test/data/KLF4_f2_scan_results_all.txt".freeze, "test/data/KLF4_f2_scan_results_default_cutoff.txt".freeze, "test/data/KLF4_f2_scan_results_precise_mode.txt".freeze, "test/data/SP1_f1.pat".freeze, "test/data/SP1_f1.pcm".freeze, "test/data/SP1_f1_revcomp.pat".freeze, "test/data/SP1_f1_revcomp.pcm".freeze, "test/data/test_collection.yaml".freeze, "test/data/test_collection/GABPA_f1.pat".freeze, "test/data/test_collection/KLF4_f2.pat".freeze, "test/data/test_collection/SP1_f1.pat".freeze, "test/data/test_collection_pcm/GABPA_f1.pcm".freeze, "test/data/test_collection_pcm/KLF4_f2.pcm".freeze, "test/data/test_collection_pcm/SP1_f1.pcm".freeze, "test/data/test_collection_single_file.txt".freeze, "test/data/test_collection_single_file_pcm.txt".freeze, "test/eval_alignment_test.rb".freeze, "test/eval_similarity_test.rb".freeze, "test/find_pvalue_test.rb".freeze, "test/find_threshold_test.rb".freeze, "test/preprocess_collection_test.rb".freeze, "test/scan_collection_test.rb".freeze, "test/test_helper.rb".freeze]
  s.homepage = "http://autosome.ru/macroape/".freeze
  s.rubygems_version = "3.5.10".freeze
  s.summary = "PWM comparison tool using MACROAPE approach".freeze
  s.test_files = ["spec/count_distribution_spec.rb".freeze, "spec/spec_helper.rb".freeze, "test/align_motifs_test.rb".freeze, "test/data/AHR_si.pat".freeze, "test/data/KLF3_f1.pat".freeze, "test/data/KLF3_f1.pcm".freeze, "test/data/KLF4_f2.pat".freeze, "test/data/KLF4_f2.pcm".freeze, "test/data/KLF4_f2_scan_results_all.txt".freeze, "test/data/KLF4_f2_scan_results_default_cutoff.txt".freeze, "test/data/KLF4_f2_scan_results_precise_mode.txt".freeze, "test/data/SP1_f1.pat".freeze, "test/data/SP1_f1.pcm".freeze, "test/data/SP1_f1_revcomp.pat".freeze, "test/data/SP1_f1_revcomp.pcm".freeze, "test/data/test_collection.yaml".freeze, "test/data/test_collection/GABPA_f1.pat".freeze, "test/data/test_collection/KLF4_f2.pat".freeze, "test/data/test_collection/SP1_f1.pat".freeze, "test/data/test_collection_pcm/GABPA_f1.pcm".freeze, "test/data/test_collection_pcm/KLF4_f2.pcm".freeze, "test/data/test_collection_pcm/SP1_f1.pcm".freeze, "test/data/test_collection_single_file.txt".freeze, "test/data/test_collection_single_file_pcm.txt".freeze, "test/eval_alignment_test.rb".freeze, "test/eval_similarity_test.rb".freeze, "test/find_pvalue_test.rb".freeze, "test/find_threshold_test.rb".freeze, "test/preprocess_collection_test.rb".freeze, "test/scan_collection_test.rb".freeze, "test/test_helper.rb".freeze]

  s.specification_version = 3

  s.add_runtime_dependency(%q<bioinform>.freeze, [">= 0.1.7".freeze])
end