search_biomodel 0.1.2 → 1.0.0

data/search_biomodel/ruby/1.8/gems/nokogiri-1.4.6/test/files/valid_bar.xml

@@ -0,0 +1,2 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<bar />

data/search_biomodel/ruby/1.8/gems/nokogiri-1.4.6/test/helper.rb

@@ -0,0 +1,171 @@
+#Process.setrlimit(Process::RLIMIT_CORE, Process::RLIM_INFINITY) unless RUBY_PLATFORM =~ /(java|mswin|mingw)/i
+$VERBOSE = true
+require 'minitest/autorun'
+require 'fileutils'
+require 'tempfile'
+require 'pp'
+
+require 'nokogiri'
+
+warn "#{__FILE__}:#{__LINE__}: libxml version info: #{Nokogiri::VERSION_INFO.inspect}"
+
+module Nokogiri
+  class TestCase < MiniTest::Spec
+    ASSETS_DIR      = File.expand_path File.join(File.dirname(__FILE__), 'files')
+    XML_FILE        = File.join(ASSETS_DIR, 'staff.xml')
+    XSLT_FILE       = File.join(ASSETS_DIR, 'staff.xslt')
+    EXSLT_FILE      = File.join(ASSETS_DIR, 'exslt.xslt')
+    EXML_FILE       = File.join(ASSETS_DIR, 'exslt.xml')
+    HTML_FILE       = File.join(ASSETS_DIR, 'tlm.html')
+    NICH_FILE       = File.join(ASSETS_DIR, '2ch.html')
+    SHIFT_JIS_XML   = File.join(ASSETS_DIR, 'shift_jis.xml')
+    SHIFT_JIS_HTML  = File.join(ASSETS_DIR, 'shift_jis.html')
+    ENCODING_XHTML_FILE = File.join(ASSETS_DIR, 'encoding.xhtml')
+    ENCODING_HTML_FILE  = File.join(ASSETS_DIR, 'encoding.html')
+    PO_XML_FILE     = File.join(ASSETS_DIR, 'po.xml')
+    PO_SCHEMA_FILE  = File.join(ASSETS_DIR, 'po.xsd')
+    ADDRESS_SCHEMA_FILE = File.join(ASSETS_DIR, 'address_book.rlx')
+    ADDRESS_XML_FILE = File.join(ASSETS_DIR, 'address_book.xml')
+    SNUGGLES_FILE   = File.join(ASSETS_DIR, 'snuggles.xml')
+
+    def teardown
+      if ENV['NOKOGIRI_GC']
+        STDOUT.putc '!'
+        if RUBY_PLATFORM =~ /java/
+          require 'java'
+          java.lang.System.gc
+        else
+          GC.start
+        end
+      end
+    end
+
+    def assert_indent amount, doc, message = nil
+      nodes = []
+      doc.traverse do |node|
+        nodes << node if node.text? && node.blank?
+      end
+      assert nodes.length > 0
+      nodes.each do |node|
+        len = node.content.gsub(/[\r\n]/, '').length
+        assert_equal(0, len % amount, message)
+      end
+    end
+
+    def util_decorate(document, decorator_module)
+      document.decorators(XML::Node) << decorator_module
+      document.decorators(XML::NodeSet) << decorator_module
+      document.decorate!
+    end
+
+    #
+    #  Test::Unit backwards compatibility section
+    #
+    alias :assert_no_match      :refute_match
+    alias :assert_not_nil       :refute_nil
+    alias :assert_raise         :assert_raises
+    alias :assert_not_equal     :refute_equal
+
+    def assert_nothing_raised(*args)
+      self._assertions += 1
+      if Module === args.last
+        msg = nil
+      else
+        msg = args.pop
+      end
+      begin
+        line = __LINE__; yield
+      rescue Exception => e
+        bt = e.backtrace
+        as = e.instance_of?(MiniTest::Assertion)
+        if as
+          ans = /\A#{Regexp.quote(__FILE__)}:#{line}:in /o
+          bt.reject! {|ln| ans =~ ln}
+        end
+        if ((args.empty? && !as) ||
+            args.any? {|a| a.instance_of?(Module) ? e.is_a?(a) : e.class == a })
+          msg = message(msg) { "Exception raised:\n<#{mu_pp(e)}>" }
+          raise MiniTest::Assertion, msg.call, bt
+        else
+          raise
+        end
+      end
+      nil
+    end
+  end
+
+  module SAX
+    class TestCase < Nokogiri::TestCase
+      class Doc < XML::SAX::Document
+        attr_reader :start_elements, :start_document_called
+        attr_reader :end_elements, :end_document_called
+        attr_reader :data, :comments, :cdata_blocks, :start_elements_namespace
+        attr_reader :errors, :warnings, :end_elements_namespace
+        attr_reader :xmldecls
+
+        def xmldecl version, encoding, standalone
+          @xmldecls = [version, encoding, standalone].compact
+          super
+        end
+
+        def start_document
+          @start_document_called = true
+          super
+        end
+
+        def end_document
+          @end_document_called = true
+          super
+        end
+
+        def error error
+          (@errors ||= []) << error
+          super
+        end
+
+        def warning warning
+          (@warning ||= []) << warning
+          super
+        end
+
+        def start_element *args
+          (@start_elements ||= []) << args
+          super
+        end
+
+        def start_element_namespace *args
+          (@start_elements_namespace ||= []) << args
+          super
+        end
+
+        def end_element *args
+          (@end_elements ||= []) << args
+          super
+        end
+
+        def end_element_namespace *args
+          (@end_elements_namespace ||= []) << args
+          super
+        end
+
+        def characters string
+          @data ||= []
+          @data += [string]
+          super
+        end
+
+        def comment string
+          @comments ||= []
+          @comments += [string]
+          super
+        end
+
+        def cdata_block string
+          @cdata_blocks ||= []
+          @cdata_blocks += [string]
+          super
+        end
+      end
+    end
+  end
+end

data/search_biomodel/ruby/1.8/gems/nokogiri-1.4.6/test/html/sax/test_parser.rb

@@ -0,0 +1,119 @@
+# -*- coding: utf-8 -*-
+require "helper"
+
+module Nokogiri
+  module HTML
+    module SAX
+      class TestParser < Nokogiri::SAX::TestCase
+        def setup
+          super
+          @parser = HTML::SAX::Parser.new(Doc.new)
+        end
+
+        def test_parse_empty_document
+          # This caused a segfault in libxml 2.6.x
+          assert_nothing_raised { @parser.parse '' }
+        end
+
+        def test_parse_empty_file
+          # Make sure empty files don't break stuff
+          empty_file_name =  File.join(Dir.tmpdir, 'bogus.xml')
+          FileUtils.touch empty_file_name
+          assert_nothing_raised { @parser.parse_file empty_file_name }
+        end
+
+        def test_parse_file
+          @parser.parse_file(HTML_FILE)
+          assert_equal 1110, @parser.document.end_elements.length
+        end
+
+        def test_parse_file_nil_argument
+          assert_raises(ArgumentError) {
+            @parser.parse_file(nil)
+          }
+        end
+
+        def test_parse_file_non_existant
+          assert_raise Errno::ENOENT do
+            @parser.parse_file('there_is_no_reasonable_way_this_file_exists')
+          end
+        end
+
+        def test_parse_file_with_dir
+          assert_raise Errno::EISDIR do
+            @parser.parse_file(File.dirname(__FILE__))
+          end
+        end
+
+        def test_parse_memory_nil
+          assert_raise ArgumentError do
+            @parser.parse_memory(nil)
+          end
+        end
+
+        def test_parse_force_encoding
+          @parser.parse_memory(<<-HTML, 'UTF-8')
+          <meta http-equiv="Content-Type" content="text/html; charset=windows-1251">
+          Информация
+          HTML
+          assert_equal("Информация",
+                       @parser.document.data.join.strip)
+        end
+
+        def test_parse_document
+          @parser.parse_memory(<<-eoxml)
+            <p>Paragraph 1</p>
+            <p>Paragraph 2</p>
+          eoxml
+          assert_equal([["html", []], ["body", []], ["p", []], ["p", []]],
+                       @parser.document.start_elements)
+        end
+
+        def test_parser_attributes
+          html = <<-eohtml
+<html>
+  <head>
+    <title>hello</title>
+  </head>
+<body>
+  <img src="face.jpg" title="daddy &amp; me">
+  <hr noshade size="2">
+</body>
+</html>
+          eohtml
+
+          block_called = false
+          @parser.parse(html) { |ctx|
+            block_called = true
+            ctx.replace_entities = true
+          }
+
+          assert block_called
+
+          noshade_value = if Nokogiri.uses_libxml? && Nokogiri::VERSION_INFO['libxml']['loaded'] < '2.7.7'
+                            ['noshade', 'noshade']
+                          elsif Nokogiri.jruby?
+                            ['noshade', '']
+                          else
+                            ['noshade', nil]
+                          end
+
+          assert_equal [
+            ['html', []],
+            ['head', []],
+            ['title', []],
+            ['body', []],
+            ['img', [
+                ['src', 'face.jpg'],
+                ['title', 'daddy & me']
+              ]],
+            ['hr', [
+                noshade_value,
+                ['size', '2']
+              ]]
+          ], @parser.document.start_elements
+        end
+      end
+    end
+  end
+end

data/search_biomodel/ruby/1.8/gems/nokogiri-1.4.6/test/html/sax/test_parser_context.rb

@@ -0,0 +1,48 @@
+# -*- coding: utf-8 -*-
+
+require "helper"
+
+module Nokogiri
+  module HTML
+    module SAX
+      class TestParserContext < Nokogiri::SAX::TestCase
+        def test_from_io
+          assert_nothing_raised do
+            ParserContext.new StringIO.new('fo'), 'UTF-8'
+          end
+        end
+
+        def test_from_string
+          assert_nothing_raised do
+            ParserContext.new 'blah blah'
+          end
+        end
+
+        def test_parse_with
+          ctx = ParserContext.new 'blah'
+          assert_raises ArgumentError do
+            ctx.parse_with nil
+          end
+        end
+
+        def test_parse_with_sax_parser
+          assert_nothing_raised do
+            xml = "<root />"
+            ctx = ParserContext.new xml
+            parser = Parser.new Doc.new
+            ctx.parse_with parser
+          end
+        end
+
+        def test_from_file
+          assert_nothing_raised do
+            ctx = ParserContext.file HTML_FILE, 'UTF-8'
+            parser = Parser.new Doc.new
+            ctx.parse_with parser
+          end
+        end
+      end
+    end
+  end
+end
+

data/search_biomodel/ruby/1.8/gems/nokogiri-1.4.6/test/html/test_builder.rb

@@ -0,0 +1,164 @@
+require "helper"
+
+module Nokogiri
+  module HTML
+    class TestBuilder < Nokogiri::TestCase
+      def test_top_level_function_builds
+        foo = nil
+        Nokogiri() { |xml| foo = xml }
+        assert_instance_of Nokogiri::HTML::Builder, foo
+      end
+
+      def test_builder_with_explicit_tags
+        html_doc = Nokogiri::HTML::Builder.new {
+          div.slide(:class => 'another_class') {
+            node = Nokogiri::XML::Node.new("id", doc)
+            node.content = "hello"
+            insert(node)
+          }
+        }.doc
+        assert_equal 1, html_doc.css('div.slide > id').length
+        assert_equal 'hello', html_doc.at('div.slide > id').content
+      end
+
+      def test_hash_as_attributes_for_attribute_method
+        html = Nokogiri::HTML::Builder.new { ||
+          div.slide(:class => 'another_class') {
+            span 'Slide 1'
+          }
+        }.to_html
+        assert_match 'class="slide another_class"', html
+      end
+
+      def test_hash_as_attributes
+        builder = Nokogiri::HTML::Builder.new do
+          div(:id => 'awesome') {
+            h1 "america"
+          }
+        end
+        assert_equal('<div id="awesome"><h1>america</h1></div>',
+                     builder.doc.root.to_html.gsub(/\n/, '').gsub(/>\s*</, '><'))
+      end
+
+      def test_href_with_attributes
+        uri = 'http://tenderlovemaking.com/'
+        built = Nokogiri::XML::Builder.new {
+          div {
+            a('King Khan & The Shrines', :href => uri)
+          }
+        }
+        assert_equal 'http://tenderlovemaking.com/',
+          built.doc.at('a')[:href]
+      end
+
+      def test_tag_nesting
+        builder = Nokogiri::HTML::Builder.new do
+          body {
+            span.left ''
+            span.middle {
+              div.icon ''
+            }
+            span.right ''
+          }
+        end
+        assert node = builder.doc.css('span.right').first
+        assert_equal 'middle', node.previous_sibling['class']
+      end
+
+      def test_has_ampersand
+        builder = Nokogiri::HTML::Builder.new do
+          div.rad.thing! {
+            text "<awe&some>"
+            b "hello & world"
+          }
+        end
+        assert_equal(
+          '<div class="rad" id="thing">&lt;awe&amp;some&gt;<b>hello &amp; world</b></div>',
+                     builder.doc.root.to_html.gsub(/\n/, ''))
+      end
+
+      def test_multi_tags
+        builder = Nokogiri::HTML::Builder.new do
+          div.rad.thing! {
+            text "<awesome>"
+            b "hello"
+          }
+        end
+        assert_equal(
+          '<div class="rad" id="thing">&lt;awesome&gt;<b>hello</b></div>',
+                     builder.doc.root.to_html.gsub(/\n/, ''))
+      end
+
+      def test_attributes_plus_block
+        builder = Nokogiri::HTML::Builder.new do
+          div.rad.thing! {
+            text "<awesome>"
+          }
+        end
+        assert_equal('<div class="rad" id="thing">&lt;awesome&gt;</div>',
+                     builder.doc.root.to_html.chomp)
+      end
+
+      def test_builder_adds_attributes
+        builder = Nokogiri::HTML::Builder.new do
+          div.rad.thing! "tender div"
+        end
+        assert_equal('<div class="rad" id="thing">tender div</div>',
+                     builder.doc.root.to_html.chomp)
+      end
+
+      def test_bold_tag
+        builder = Nokogiri::HTML::Builder.new do
+          b "bold tag"
+        end
+        assert_equal('<b>bold tag</b>', builder.doc.root.to_html.chomp)
+      end
+
+      def test_html_then_body_tag
+        builder = Nokogiri::HTML::Builder.new do
+          html {
+            body {
+              b "bold tag"
+            }
+          }
+        end
+        assert_equal('<html><body><b>bold tag</b></body></html>',
+                     builder.doc.root.to_html.chomp.gsub(/>\s*</, '><'))
+      end
+
+      def test_instance_eval_with_delegation_to_block_context
+        class << self
+          def foo
+            "foo!"
+          end
+        end
+
+        builder = Nokogiri::HTML::Builder.new { text foo }
+        assert builder.to_html.include?("foo!")
+      end
+
+      def test_builder_with_param
+        doc = Nokogiri::HTML::Builder.new { |html|
+          html.body {
+            html.p "hello world"
+          }
+        }.doc
+
+        assert node = doc.xpath('//body/p').first
+        assert_equal 'hello world', node.content
+      end
+
+      def test_builder_with_id
+        text = "hello world"
+        doc = Nokogiri::HTML::Builder.new { |html|
+          html.body {
+            html.id_ text
+          }
+        }.doc
+
+        assert node = doc.xpath('//body/id').first
+        assert_equal text, node.content
+      end
+    end
+  end
+end