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1 # -*- coding: utf-8 -*-
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2 require File.expand_path('../executor', File.dirname(__FILE__))
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3
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4 describe SPARQLExecutor, "は" do
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5 include GalaxyTool::Matcher
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6
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7 before do
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8 @tool = SPARQLExecutor.new
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9 end
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10
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11 it "SPARQLエンドポイント指定として '-e' オプションを受けつける" do
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12 @tool.should accept_option_with_argument(:endpoint, '-e')
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13 end
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14 it "SPARQLエンドポイント指定として '--endpoint' オプションを受けつける" do
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15 @tool.should accept_option_with_argument(:endpoint, '--endpoint')
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16 end
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17 it "'--endpoint' オプションを、前後空白を無視して受けつける" do
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18 @tool.should evaluate_option('--endpoint', " http://example.com/endpoint\n", "http://example.com/endpoint")
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19 end
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20 it "クエリ指定は必須である" do
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21 @tool.should require_option(:endpoint)
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22 end
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23
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24 it "クエリ指定として '-q' オプションを受けつける" do
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25 @tool.should accept_option_with_argument(:query, '-q')
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26 end
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27 it "クエリ指定として '--query' オプションを受けつける" do
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28 @tool.should accept_option_with_argument(:query, '--query')
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29 end
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30 it "クエリ指定として '--query-file' オプションを受けつける" do
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31 @tool.should accept_option_with_argument(:query, '--query-file')
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32 end
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33 it "'--query-file' オプションを、クエリが書かれたファイルのパスとして受けつける" do
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34 @tool.should evaluate_option('--query-file', stub_file("p53\n").path, 'p53')
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35 end
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36 it "クエリ指定は必須である" do
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37 @tool.should require_option(:query)
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38 end
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39
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40 it "出力先指定として '-o' オプションを受けつける" do
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41 @tool.should accept_option_with_argument(:output, '-o')
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42 end
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43 it "出力先指定として '--output' オプションを受けつける" do
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44 @tool.should accept_option_with_argument(:output, '--output')
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45 end
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46 it "出力先指定は必須である" do
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47 @tool.should require_option(:output)
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48 end
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49
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50 it "Info出力先指定として '--info' オプションを受けつける" do
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51 @tool.should accept_option_with_argument(:info, '--info')
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52 end
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53 it "Info出力先の規定値は標準出力である" do
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54 @tool.should set_default_option_value(:info, '/dev/stdout')
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55 end
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56
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57 describe "エンドポイント、クエリ、出力先を指定して実行すると" do
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58 before do
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59 @tool.should_receive(:search).and_return do |client, query|
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60 client.should_receive(:parsed_xml) do |parse|
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61 REXML::Document.new(<<-EOT).root
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62 <?xml version="1.0" ?>
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63 <sparql xmlns="http://www.w3.org/2005/sparql-results#" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.w3.org/2001/sw/DataAccess/rf1/result2.xsd">
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64 <head>
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65 <variable name="s"/>
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66 <variable name="p"/>
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67 <variable name="o"/>
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68 </head>
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69 <results distinct="false" ordered="true">
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70 <result>
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71 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn</uri></binding>
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72 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl</uri></binding>
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73 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (__id2in (^{tree}^))</literal></binding>
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74 </result>
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75 <result>
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76 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn</uri></binding>
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77 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl</uri></binding>
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78 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (^{tree}^)</literal></binding>
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79 </result>
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80 <result>
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81 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn</uri></binding>
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82 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl</uri></binding>
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83 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (^{tree}^)</literal></binding>
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84 </result>
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85 <result>
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86 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn</uri></binding>
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87 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl</uri></binding>
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88 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (__ro2sq /*l*/ (^{tree}^))</literal></binding>
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89 </result>
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90 <result>
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91 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-dt</uri></binding>
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92 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfSqlvalTmpl</uri></binding>
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93 <binding name="o"><literal> ^{sqlval-of-tree}^^{as-name-0}^^{comma-cut}^NULL^{as-name-1}^</literal></binding>
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94 </result>
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95 </results>
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96 </sparql>
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97 EOT
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98 end
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99
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100 client.query(query)
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101 end
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102
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103 @url = "http://www.semantic-systems-biology.org/biogateway/endpoint"
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104 @query = "select * where { ?s ?p ?o . } limit 5"
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105 @info = stub_stdout
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106 @output = stub_file
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107 @tool.run ["-q", @query, "-e", @url, "-o", @output.path]
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108 end
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109
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110 it "SPARQL検索を行い、ID、URL、タイトル、ランクをタブ区切りで表示する" do
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111 @output.should be_output(<<-EOT)
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112 ?s ?p ?o
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113 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl> " ^{custom-verbatim-1}^_INVERSE (__id2in (^{tree}^))"
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114 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl> " ^{custom-verbatim-1}^_INVERSE (^{tree}^)"
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115 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl> " ^{custom-verbatim-1}^_INVERSE (^{tree}^)"
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116 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl> " ^{custom-verbatim-1}^_INVERSE (__ro2sq /*l*/ (^{tree}^))"
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117 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-dt> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfSqlvalTmpl> " ^{sqlval-of-tree}^^{as-name-0}^^{comma-cut}^NULL^{as-name-1}^"
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118 EOT
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119 end
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120 end
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121
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122 describe "結果の途中に改行のテキストノードを含むレスポンスを得るようなエンドポイントに対するクエリだったとしても" do
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123 before do
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124 @tool.should_receive(:search).and_return do |client, query|
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125 client.should_receive(:parsed_xml) do |parse|
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126 REXML::Document.new(<<-EOT).root
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127 <?xml version="1.0" ?>
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128 <sparql xmlns="http://www.w3.org/2005/sparql-results#" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.w3.org/2001/sw/DataAccess/rf1/result2.xsd">
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129 <head>
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130 <variable name="s"/>
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131 <variable name="p"/>
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132 <variable name="o"/>
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133 </head>
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134 <results distinct="false" ordered="true">
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135 <result>
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136 <binding name="s">
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137 <uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn</uri>
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138 </binding>
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139 <binding name="p">
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140 <uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl</uri>
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141 </binding>
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142 <binding name="o">
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143 <literal> ^{custom-verbatim-1}^_INVERSE (__id2in (^{tree}^))</literal>
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144 </binding>
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145 </result>
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146 <result>
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147 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn</uri></binding>
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148 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl</uri></binding>
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149 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (^{tree}^)</literal></binding>
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150 </result>
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151 <result>
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152 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn</uri></binding>
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153 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl</uri></binding>
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154 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (^{tree}^)</literal></binding>
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155 </result>
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156 <result>
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157 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn</uri></binding>
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158 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl</uri></binding>
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159 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (__ro2sq /*l*/ (^{tree}^))</literal></binding>
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160 </result>
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161 <result>
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162 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-dt</uri></binding>
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163 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfSqlvalTmpl</uri></binding>
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164 <binding name="o"><literal> ^{sqlval-of-tree}^^{as-name-0}^^{comma-cut}^NULL^{as-name-1}^</literal></binding>
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165 </result>
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166 </results>
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167 </sparql>
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168 EOT
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169 end
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170
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171 client.query(query)
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172 end
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173
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174 @url = "http://www.semantic-systems-biology.org/biogateway/endpoint"
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175 @query = "select * where { ?s ?p ?o . } limit 5"
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176 @info = stub_stdout
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177 @output = stub_file
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178 @tool.run ["-q", @query, "-e", @url, "-o", @output.path]
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179 end
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180
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181 it "SPARQL検索を行い、ID、URL、タイトル、ランクをタブ区切りで表示する" do
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182 @output.should be_output(<<-EOT)
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183 ?s ?p ?o
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184 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl> " ^{custom-verbatim-1}^_INVERSE (__id2in (^{tree}^))"
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185 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl> " ^{custom-verbatim-1}^_INVERSE (^{tree}^)"
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186 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl> " ^{custom-verbatim-1}^_INVERSE (^{tree}^)"
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187 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl> " ^{custom-verbatim-1}^_INVERSE (__ro2sq /*l*/ (^{tree}^))"
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188 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-dt> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfSqlvalTmpl> " ^{sqlval-of-tree}^^{as-name-0}^^{comma-cut}^NULL^{as-name-1}^"
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189 EOT
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190 end
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191 end
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192
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193 describe "Blank Nodeを含むレスポンスとなるクエリだったとしても" do
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194 before do
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195 @tool.should_receive(:search).and_return do |client, query|
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196 client.should_receive(:parsed_xml) do |parse|
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197 REXML::Document.new(<<-EOT).root
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198 <?xml version="1.0" ?>
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199 <sparql xmlns="http://www.w3.org/2005/sparql-results#" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.w3.org/2001/sw/DataAccess/rf1/result2.xsd">
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200 <head>
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201 <variable name="s"/>
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202 <variable name="p"/>
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203 <variable name="o"/>
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204 </head>
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205 <results distinct="false" ordered="true">
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206 <result>
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207 <binding name="s">
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208 <bnode>nodeID://b196899188</bnode>
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209 </binding>
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210 <binding name="p">
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211 <uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl</uri>
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212 </binding>
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213 <binding name="o">
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214 <literal> ^{custom-verbatim-1}^_INVERSE (__id2in (^{tree}^))</literal>
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215 </binding>
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216 </result>
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217 <result>
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218 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn</uri></binding>
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219 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl</uri></binding>
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220 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (^{tree}^)</literal></binding>
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221 </result>
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222 <result>
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223 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn</uri></binding>
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224 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl</uri></binding>
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225 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (^{tree}^)</literal></binding>
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226 </result>
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227 <result>
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228 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn</uri></binding>
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229 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl</uri></binding>
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230 <binding name="o"><literal> ^{custom-verbatim-1}^_INVERSE (__ro2sq /*l*/ (^{tree}^))</literal></binding>
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231 </result>
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232 <result>
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233 <binding name="s"><uri>http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-dt</uri></binding>
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234 <binding name="p"><uri>http://www.openlinksw.com/schemas/virtrdf#qmfShortOfSqlvalTmpl</uri></binding>
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235 <binding name="o"><literal> ^{sqlval-of-tree}^^{as-name-0}^^{comma-cut}^NULL^{as-name-1}^</literal></binding>
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236 </result>
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237 </results>
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238 </sparql>
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239 EOT
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240 end
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241
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242 client.query(query)
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243 end
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244
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245 @url = "http://www.semantic-systems-biology.org/biogateway/endpoint"
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246 @query = "select * where { ?s ?p ?o . } limit 5"
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247 @info = stub_stdout
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248 @output = stub_file
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249 @tool.run ["-q", @query, "-e", @url, "-o", @output.path]
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250 end
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251
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252 it "SPARQL検索を行い、ID、URL、タイトル、ランクをタブ区切りで表示する" do
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253 @output.should be_output(<<-EOT)
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254 ?s ?p ?o
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255 _:nodeID://b196899188 <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl> " ^{custom-verbatim-1}^_INVERSE (__id2in (^{tree}^))"
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256 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-uri-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl> " ^{custom-verbatim-1}^_INVERSE (^{tree}^)"
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257 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfUriTmpl> " ^{custom-verbatim-1}^_INVERSE (^{tree}^)"
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258 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-literal-fn> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfLongTmpl> " ^{custom-verbatim-1}^_INVERSE (__ro2sq /*l*/ (^{tree}^))"
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259 <http://www.openlinksw.com/virtrdf-data-formats#sql-varchar-dt> <http://www.openlinksw.com/schemas/virtrdf#qmfShortOfSqlvalTmpl> " ^{sqlval-of-tree}^^{as-name-0}^^{comma-cut}^NULL^{as-name-1}^"
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260 EOT
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261 end
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262 end
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263
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264 end
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