search_biomodel 0.1.2 → 1.0.0

data/search_biomodel/ruby/1.8/gems/jeweler-1.6.2/features/tasks/version_bumping.feature

@@ -0,0 +1,49 @@
+Feature: bumping version
+
+  Scenario: major version
+    Given a working directory
+    And I use the existing project "existing-project-with-version-yaml" as a template
+    And "VERSION.yml" contains hash "{ :major => 1, :minor => 5, :patch => 3}"
+    When I run "rake version:bump:major" in "existing-project-with-version-yaml"
+    Then the process should exit cleanly
+    And the updated version, 2.0.0, is displayed
+
+  Scenario: minor version
+    Given a working directory
+    And I use the existing project "existing-project-with-version-yaml" as a template
+    And "VERSION.yml" contains hash "{ :major => 1, :minor => 5, :patch => 3}"
+    When I run "rake version:bump:minor" in "existing-project-with-version-yaml"
+    Then the process should exit cleanly
+    And the updated version, 1.6.0, is displayed
+
+  Scenario: patch version
+    Given a working directory
+    And I use the existing project "existing-project-with-version-yaml" as a template
+    And "VERSION.yml" contains hash "{ :major => 1, :minor => 5, :patch => 3}"
+    When I run "rake version:bump:patch" in "existing-project-with-version-yaml"
+    Then the process should exit cleanly
+    And the updated version, 1.5.4, is displayed
+
+  Scenario: arbitrary version
+    Given a working directory
+    And I use the existing project "existing-project-with-version-yaml" as a template
+    And "VERSION.yml" contains hash "{ :major => 1, :minor => 5, :patch => 3}"
+    When I run "rake version:write MAJOR=3 MINOR=7 PATCH=1" in "existing-project-with-version-yaml"
+    Then the process should exit cleanly
+    And the updated version, 3.7.1, is displayed
+
+  Scenario: arbitrary version with a build version yaml
+    Given a working directory
+    And I use the existing project "existing-project-with-version-yaml" as a template
+    And "VERSION.yml" contains hash "{ :major => 1, :minor => 5, :patch => 3}"
+    When I run "rake version:write MAJOR=3 MINOR=7 PATCH=1 BUILD=2" in "existing-project-with-version-yaml"
+    Then the process should exit cleanly
+    And the updated version, 3.7.1.2, is displayed
+
+  Scenario: arbitrary version with a build version plaintext
+    Given a working directory
+    And I use the existing project "existing-project-with-version-plaintext" as a template
+    And "VERSION" contains "1.5.3"
+    When I run "rake version:write MAJOR=3 MINOR=7 PATCH=1 BUILD=2" in "existing-project-with-version-plaintext"
+    Then the process should exit cleanly
+    And the updated version, 3.7.1.2, is displayed

data/search_biomodel/ruby/1.8/gems/jeweler-1.6.2/jeweler.gemspec

@@ -0,0 +1,244 @@
+# Generated by jeweler
+# DO NOT EDIT THIS FILE DIRECTLY
+# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
+# -*- encoding: utf-8 -*-
+
+Gem::Specification.new do |s|
+  s.name = %q{jeweler}
+  s.version = "1.6.2"
+
+  s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
+  s.authors = [%q{Josh Nichols}]
+  s.date = %q{2011-06-01}
+  s.description = %q{Simple and opinionated helper for creating Rubygem projects on GitHub}
+  s.email = %q{josh@technicalpickles.com}
+  s.executables = [%q{jeweler}]
+  s.extra_rdoc_files = [
+    "ChangeLog.markdown",
+    "LICENSE.txt",
+    "README.markdown"
+  ]
+  s.files = [
+    ".document",
+    "ChangeLog.markdown",
+    "Gemfile",
+    "Gemfile.lock",
+    "LICENSE.txt",
+    "README.markdown",
+    "Rakefile",
+    "bin/jeweler",
+    "features/generator/cucumber.feature",
+    "features/generator/directory_layout.feature",
+    "features/generator/dotdocument.feature",
+    "features/generator/env_options.feature",
+    "features/generator/gemfile.feature",
+    "features/generator/git.feature",
+    "features/generator/license.feature",
+    "features/generator/rakefile.feature",
+    "features/generator/readme.feature",
+    "features/generator/test.feature",
+    "features/generator/test_helper.feature",
+    "features/placeholder.feature",
+    "features/step_definitions/debug_steps.rb",
+    "features/step_definitions/filesystem_steps.rb",
+    "features/step_definitions/generator_steps.rb",
+    "features/step_definitions/task_steps.rb",
+    "features/support/env.rb",
+    "features/tasks/build_gem.feature",
+    "features/tasks/version.feature",
+    "features/tasks/version_bumping.feature",
+    "jeweler.gemspec",
+    "lib/jeweler.rb",
+    "lib/jeweler/commands.rb",
+    "lib/jeweler/commands/build_gem.rb",
+    "lib/jeweler/commands/check_dependencies.rb",
+    "lib/jeweler/commands/install_gem.rb",
+    "lib/jeweler/commands/release_gemspec.rb",
+    "lib/jeweler/commands/release_to_git.rb",
+    "lib/jeweler/commands/release_to_rubygems.rb",
+    "lib/jeweler/commands/validate_gemspec.rb",
+    "lib/jeweler/commands/version/base.rb",
+    "lib/jeweler/commands/version/bump_major.rb",
+    "lib/jeweler/commands/version/bump_minor.rb",
+    "lib/jeweler/commands/version/bump_patch.rb",
+    "lib/jeweler/commands/version/write.rb",
+    "lib/jeweler/commands/write_gemspec.rb",
+    "lib/jeweler/errors.rb",
+    "lib/jeweler/gemcutter_tasks.rb",
+    "lib/jeweler/gemspec_helper.rb",
+    "lib/jeweler/generator.rb",
+    "lib/jeweler/generator/application.rb",
+    "lib/jeweler/generator/bacon_mixin.rb",
+    "lib/jeweler/generator/github_mixin.rb",
+    "lib/jeweler/generator/micronaut_mixin.rb",
+    "lib/jeweler/generator/minitest_mixin.rb",
+    "lib/jeweler/generator/options.rb",
+    "lib/jeweler/generator/rdoc_mixin.rb",
+    "lib/jeweler/generator/riot_mixin.rb",
+    "lib/jeweler/generator/rspec_mixin.rb",
+    "lib/jeweler/generator/shindo_mixin.rb",
+    "lib/jeweler/generator/shoulda_mixin.rb",
+    "lib/jeweler/generator/testspec_mixin.rb",
+    "lib/jeweler/generator/testunit_mixin.rb",
+    "lib/jeweler/generator/yard_mixin.rb",
+    "lib/jeweler/rubyforge_tasks.rb",
+    "lib/jeweler/rubygems_dot_org_tasks.rb",
+    "lib/jeweler/rubygems_tasks.rb",
+    "lib/jeweler/specification.rb",
+    "lib/jeweler/tasks.rb",
+    "lib/jeweler/templates/.document",
+    "lib/jeweler/templates/.gitignore",
+    "lib/jeweler/templates/Gemfile",
+    "lib/jeweler/templates/LICENSE.txt",
+    "lib/jeweler/templates/README.rdoc",
+    "lib/jeweler/templates/Rakefile",
+    "lib/jeweler/templates/bacon/flunking.rb",
+    "lib/jeweler/templates/bacon/helper.rb",
+    "lib/jeweler/templates/bundler_setup.erb",
+    "lib/jeweler/templates/features/default.feature",
+    "lib/jeweler/templates/features/support/env.rb",
+    "lib/jeweler/templates/jeweler_tasks.erb",
+    "lib/jeweler/templates/micronaut/flunking.rb",
+    "lib/jeweler/templates/micronaut/helper.rb",
+    "lib/jeweler/templates/minitest/flunking.rb",
+    "lib/jeweler/templates/minitest/helper.rb",
+    "lib/jeweler/templates/other_tasks.erb",
+    "lib/jeweler/templates/riot/flunking.rb",
+    "lib/jeweler/templates/riot/helper.rb",
+    "lib/jeweler/templates/rspec/.rspec",
+    "lib/jeweler/templates/rspec/flunking.rb",
+    "lib/jeweler/templates/rspec/helper.rb",
+    "lib/jeweler/templates/shindo/flunking.rb",
+    "lib/jeweler/templates/shindo/helper.rb",
+    "lib/jeweler/templates/shoulda/flunking.rb",
+    "lib/jeweler/templates/shoulda/helper.rb",
+    "lib/jeweler/templates/testspec/flunking.rb",
+    "lib/jeweler/templates/testspec/helper.rb",
+    "lib/jeweler/templates/testunit/flunking.rb",
+    "lib/jeweler/templates/testunit/helper.rb",
+    "lib/jeweler/version.rb",
+    "lib/jeweler/version_helper.rb",
+    "test/fixtures/bar/VERSION.yml",
+    "test/fixtures/bar/bin/foo_the_ultimate_bin",
+    "test/fixtures/bar/hey_include_me_in_gemspec",
+    "test/fixtures/bar/lib/foo_the_ultimate_lib.rb",
+    "test/fixtures/existing-project-with-version-constant/.document",
+    "test/fixtures/existing-project-with-version-constant/.gitignore",
+    "test/fixtures/existing-project-with-version-constant/LICENSE.txt",
+    "test/fixtures/existing-project-with-version-constant/README.rdoc",
+    "test/fixtures/existing-project-with-version-constant/Rakefile",
+    "test/fixtures/existing-project-with-version-constant/existing-project-with-version.gemspec",
+    "test/fixtures/existing-project-with-version-constant/lib/existing_project_with_version.rb",
+    "test/fixtures/existing-project-with-version-constant/test/existing_project_with_version_test.rb",
+    "test/fixtures/existing-project-with-version-constant/test/test_helper.rb",
+    "test/fixtures/existing-project-with-version-plaintext/.document",
+    "test/fixtures/existing-project-with-version-plaintext/.gitignore",
+    "test/fixtures/existing-project-with-version-plaintext/LICENSE.txt",
+    "test/fixtures/existing-project-with-version-plaintext/README.rdoc",
+    "test/fixtures/existing-project-with-version-plaintext/Rakefile",
+    "test/fixtures/existing-project-with-version-plaintext/VERSION",
+    "test/fixtures/existing-project-with-version-plaintext/existing-project-with-version.gemspec",
+    "test/fixtures/existing-project-with-version-plaintext/lib/existing_project_with_version.rb",
+    "test/fixtures/existing-project-with-version-plaintext/test/existing_project_with_version_test.rb",
+    "test/fixtures/existing-project-with-version-plaintext/test/test_helper.rb",
+    "test/fixtures/existing-project-with-version-yaml/.document",
+    "test/fixtures/existing-project-with-version-yaml/.gitignore",
+    "test/fixtures/existing-project-with-version-yaml/LICENSE.txt",
+    "test/fixtures/existing-project-with-version-yaml/README.rdoc",
+    "test/fixtures/existing-project-with-version-yaml/Rakefile",
+    "test/fixtures/existing-project-with-version-yaml/VERSION.yml",
+    "test/fixtures/existing-project-with-version-yaml/bin/foo_the_ultimate_bin",
+    "test/fixtures/existing-project-with-version-yaml/existing-project-with-version.gemspec",
+    "test/fixtures/existing-project-with-version-yaml/lib/existing_project_with_version.rb",
+    "test/fixtures/existing-project-with-version-yaml/test/existing_project_with_version_test.rb",
+    "test/fixtures/existing-project-with-version-yaml/test/test_helper.rb",
+    "test/geminstaller.yml",
+    "test/jeweler/commands/test_build_gem.rb",
+    "test/jeweler/commands/test_install_gem.rb",
+    "test/jeweler/commands/test_release_to_gemcutter.rb",
+    "test/jeweler/commands/test_release_to_git.rb",
+    "test/jeweler/commands/test_release_to_github.rb",
+    "test/jeweler/commands/test_validate_gemspec.rb",
+    "test/jeweler/commands/test_write_gemspec.rb",
+    "test/jeweler/commands/version/test_base.rb",
+    "test/jeweler/commands/version/test_bump_major.rb",
+    "test/jeweler/commands/version/test_bump_minor.rb",
+    "test/jeweler/commands/version/test_bump_patch.rb",
+    "test/jeweler/commands/version/test_write.rb",
+    "test/jeweler/generator/test_application.rb",
+    "test/jeweler/generator/test_options.rb",
+    "test/jeweler/test_gemspec_helper.rb",
+    "test/jeweler/test_generator.rb",
+    "test/jeweler/test_generator_initialization.rb",
+    "test/jeweler/test_generator_mixins.rb",
+    "test/jeweler/test_specification.rb",
+    "test/jeweler/test_tasks.rb",
+    "test/jeweler/test_version_helper.rb",
+    "test/shoulda_macros/jeweler_macros.rb",
+    "test/test_helper.rb",
+    "test/test_jeweler.rb"
+  ]
+  s.homepage = %q{http://github.com/technicalpickles/jeweler}
+  s.licenses = [%q{MIT}]
+  s.require_paths = [%q{lib}]
+  s.rubygems_version = %q{1.8.4}
+  s.summary = %q{Opinionated tool for creating and managing RubyGem projects}
+
+  if s.respond_to? :specification_version then
+    s.specification_version = 3
+
+    if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
+      s.add_runtime_dependency(%q<rake>, [">= 0"])
+      s.add_runtime_dependency(%q<git>, [">= 1.2.5"])
+      s.add_runtime_dependency(%q<bundler>, ["~> 1.0"])
+      s.add_development_dependency(%q<shoulda>, [">= 0"])
+      s.add_development_dependency(%q<mhennemeyer-output_catcher>, [">= 0"])
+      s.add_development_dependency(%q<rr>, [">= 0"])
+      s.add_development_dependency(%q<mocha>, [">= 0"])
+      s.add_development_dependency(%q<redgreen>, [">= 0"])
+      s.add_development_dependency(%q<test-construct>, [">= 0"])
+      s.add_development_dependency(%q<yard>, ["~> 0.6.0"])
+      s.add_development_dependency(%q<bluecloth>, [">= 0"])
+      s.add_development_dependency(%q<cucumber>, [">= 0"])
+      s.add_development_dependency(%q<rcov>, [">= 0"])
+      s.add_development_dependency(%q<timecop>, [">= 0"])
+      s.add_development_dependency(%q<activesupport>, ["~> 2.3.5"])
+      s.add_development_dependency(%q<ruby-debug>, [">= 0"])
+    else
+      s.add_dependency(%q<rake>, [">= 0"])
+      s.add_dependency(%q<git>, [">= 1.2.5"])
+      s.add_dependency(%q<bundler>, ["~> 1.0"])
+      s.add_dependency(%q<shoulda>, [">= 0"])
+      s.add_dependency(%q<mhennemeyer-output_catcher>, [">= 0"])
+      s.add_dependency(%q<rr>, [">= 0"])
+      s.add_dependency(%q<mocha>, [">= 0"])
+      s.add_dependency(%q<redgreen>, [">= 0"])
+      s.add_dependency(%q<test-construct>, [">= 0"])
+      s.add_dependency(%q<yard>, ["~> 0.6.0"])
+      s.add_dependency(%q<bluecloth>, [">= 0"])
+      s.add_dependency(%q<cucumber>, [">= 0"])
+      s.add_dependency(%q<rcov>, [">= 0"])
+      s.add_dependency(%q<timecop>, [">= 0"])
+      s.add_dependency(%q<activesupport>, ["~> 2.3.5"])
+      s.add_dependency(%q<ruby-debug>, [">= 0"])
+    end
+  else
+    s.add_dependency(%q<rake>, [">= 0"])
+    s.add_dependency(%q<git>, [">= 1.2.5"])
+    s.add_dependency(%q<bundler>, ["~> 1.0"])
+    s.add_dependency(%q<shoulda>, [">= 0"])
+    s.add_dependency(%q<mhennemeyer-output_catcher>, [">= 0"])
+    s.add_dependency(%q<rr>, [">= 0"])
+    s.add_dependency(%q<mocha>, [">= 0"])
+    s.add_dependency(%q<redgreen>, [">= 0"])
+    s.add_dependency(%q<test-construct>, [">= 0"])
+    s.add_dependency(%q<yard>, ["~> 0.6.0"])
+    s.add_dependency(%q<bluecloth>, [">= 0"])
+    s.add_dependency(%q<cucumber>, [">= 0"])
+    s.add_dependency(%q<rcov>, [">= 0"])
+    s.add_dependency(%q<timecop>, [">= 0"])
+    s.add_dependency(%q<activesupport>, ["~> 2.3.5"])
+    s.add_dependency(%q<ruby-debug>, [">= 0"])
+  end
+end
+

data/search_biomodel/ruby/1.8/gems/jeweler-1.6.2/lib/jeweler.rb

@@ -0,0 +1,177 @@
+require 'pathname'
+require 'date'
+require 'jeweler/version'
+
+# A Jeweler helps you craft the perfect Rubygem. Give him a gemspec, and he takes care of the rest.
+#
+# See Jeweler::Tasks for examples of how to get started. Additionally, resources are available on the wiki:
+#
+# * http://wiki.github.com/technicalpickles/jeweler/create-a-new-project
+# * http://wiki.github.com/technicalpickles/jeweler/configure-an-existing-project
+class Jeweler
+  require 'jeweler/errors'
+  require 'rubygems/user_interaction'
+
+  autoload :Generator,      'jeweler/generator'
+
+  autoload :Commands,       'jeweler/commands'
+  
+  autoload :VersionHelper,  'jeweler/version_helper'
+  autoload :GemSpecHelper,  'jeweler/gemspec_helper'
+
+  autoload :Tasks,          'jeweler/tasks'
+  autoload :RubygemsDotOrgTasks,  'jeweler/rubygems_dot_org_tasks'
+  autoload :GemcutterTasks, 'jeweler/gemcutter_tasks'
+  autoload :RubyforgeTasks, 'jeweler/rubyforge_tasks'
+  autoload :Specification,  'jeweler/specification'
+
+  attr_reader :gemspec, :gemspec_helper, :version_helper
+  attr_accessor :base_dir, :output, :repo, :commit
+
+  def initialize(gemspec, base_dir = '.')
+    raise(GemspecError, "Can't create a Jeweler with a nil gemspec") if gemspec.nil?
+
+    @gemspec = gemspec
+    @gemspec.extend(Specification)
+    @gemspec.set_jeweler_defaults(base_dir, git_base_dir)
+
+    @base_dir       = base_dir
+    @repo           = Git.open(git_base_dir) if in_git_repo?
+    @version_helper = Jeweler::VersionHelper.new(base_dir)
+    @output         = $stdout
+    @commit         = true
+    @gemspec_helper = GemSpecHelper.new(gemspec, base_dir)
+  end
+
+  # Major version, as defined by the gemspec's Version module.
+  # For 1.5.3, this would return 1.
+  def major_version
+    @version_helper.major
+  end
+
+  # Minor version, as defined by the gemspec's Version module.
+  # For 1.5.3, this would return 5.
+  def minor_version
+    @version_helper.minor
+  end
+
+  # Patch version, as defined by the gemspec's Version module.
+  # For 1.5.3, this would return 5.
+  def patch_version
+    @version_helper.patch
+  end
+
+  # Human readable version, which is used in the gemspec.
+  def version
+    @gemspec.version || @version_helper.to_s
+  end
+
+  # Writes out the gemspec
+  def write_gemspec
+    Jeweler::Commands::WriteGemspec.build_for(self).run
+  end
+
+  # Validates the project's gemspec from disk in an environment similar to how 
+  # GitHub would build from it. See http://gist.github.com/16215
+  def validate_gemspec
+    Jeweler::Commands::ValidateGemspec.build_for(self).run
+  end
+
+  # is the project's gemspec from disk valid?
+  def valid_gemspec?
+    gemspec_helper.valid?
+  end
+
+  # Build a gem using the project's latest Gem::Specification
+  def build_gem
+    Jeweler::Commands::BuildGem.build_for(self).run
+  end
+
+  # Install a previously built gem
+  def install_gem
+    Jeweler::Commands::InstallGem.build_for(self).run
+  end
+
+  # Bumps the patch version.
+  #
+  # 1.5.1 -> 1.5.2
+  def bump_patch_version()
+    Jeweler::Commands::Version::BumpPatch.build_for(self).run
+  end
+
+  # Bumps the minor version.
+  #
+  # 1.5.1 -> 1.6.0
+  def bump_minor_version()
+    Jeweler::Commands::Version::BumpMinor.build_for(self).run
+  end
+
+  # Bumps the major version.
+  #
+  # 1.5.1 -> 2.0.0
+  def bump_major_version()
+    Jeweler::Commands::Version::BumpMajor.build_for(self).run
+  end
+
+  # Bumps the version, to the specific major/minor/patch version, writing out the appropriate version.rb, and then reloads it.
+  def write_version(major, minor, patch, build, options = {})
+    command = Jeweler::Commands::Version::Write.build_for(self)
+    command.major = major
+    command.minor = minor
+    command.patch = patch
+    command.build = build
+
+    command.run
+  end
+
+  def release_gemspec
+    Jeweler::Commands::ReleaseGemspec.build_for(self).run
+  end
+
+  def release_to_git
+    Jeweler::Commands::ReleaseToGit.build_for(self).run
+  end
+
+  def release_gem_to_rubygems
+    Jeweler::Commands::ReleaseToRubygems.build_for(self).run
+  end
+
+  def release_gem_to_rubyforge
+    # no-op
+  end
+
+  def setup_rubyforge
+    # no-op
+  end
+
+  def check_dependencies(type = nil)
+    command = Jeweler::Commands::CheckDependencies.build_for(self)
+    command.type = type
+
+    command.run
+  end
+
+  def git_base_dir(base_dir = nil)
+    if base_dir
+      base_dir = File.dirname(base_dir)
+    else
+      base_dir = File.expand_path(self.base_dir || ".")
+    end
+    return nil if base_dir==File.dirname("/")
+    return base_dir if File.exists?(File.join(base_dir, '.git'))
+    return git_base_dir(base_dir)
+  end    
+
+  def in_git_repo?
+    git_base_dir
+  end
+
+  def version_file_exists?
+    File.exists?(@version_helper.plaintext_path) || File.exists?(@version_helper.yaml_path)
+  end
+
+  def expects_version_file?
+    gemspec.version.nil?
+  end
+
+end