workflow-to-galaxy 0.3.4 → 0.3.5

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
@@ -1,143 +1,171 @@
1
- <!DOCTYPE html>
2
-
3
- <html>
1
+ <?xml version="1.0" encoding="UTF-8"?>
2
+ <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN"
3
+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
4
+ <html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
4
5
  <head>
5
- <meta content="text/html; charset=UTF-8" http-equiv="Content-Type">
6
-
7
- <title>module WorkflowToGalaxy - workflow-to-galaxy Docs</title>
8
-
9
- <link type="text/css" media="screen" href="./rdoc.css" rel="stylesheet">
6
+ <meta content="text/html; charset=UTF-8" http-equiv="Content-Type" />
10
7
 
11
- <script type="text/javascript">
12
- var rdoc_rel_prefix = "./";
13
- </script>
8
+ <title>Module: WorkflowToGalaxy</title>
14
9
 
15
- <script type="text/javascript" charset="utf-8" src="./js/jquery.js"></script>
16
- <script type="text/javascript" charset="utf-8" src="./js/navigation.js"></script>
17
- <script type="text/javascript" charset="utf-8" src="./js/search_index.js"></script>
18
- <script type="text/javascript" charset="utf-8" src="./js/search.js"></script>
19
- <script type="text/javascript" charset="utf-8" src="./js/searcher.js"></script>
20
- <script type="text/javascript" charset="utf-8" src="./js/darkfish.js"></script>
10
+ <link rel="stylesheet" href="./rdoc.css" type="text/css" media="screen" />
21
11
 
12
+ <script src="./js/jquery.js" type="text/javascript" charset="utf-8"></script>
13
+ <script src="./js/thickbox-compressed.js" type="text/javascript" charset="utf-8"></script>
14
+ <script src="./js/quicksearch.js" type="text/javascript" charset="utf-8"></script>
15
+ <script src="./js/darkfish.js" type="text/javascript" charset="utf-8"></script>
22
16
 
17
+ </head>
23
18
  <body id="top" class="module">
24
- <nav id="metadata">
25
- <nav id="home-section" class="section">
26
- <h3 class="section-header">
27
- <a href="./index.html">Home</a>
28
- <a href="./table_of_contents.html#classes">Classes</a>
29
- <a href="./table_of_contents.html#methods">Methods</a>
30
- </h3>
31
- </nav>
32
-
33
-
34
- <nav id="search-section" class="section project-section" class="initially-hidden">
35
- <form action="#" method="get" accept-charset="utf-8">
36
- <h3 class="section-header">
37
- <input type="text" name="search" placeholder="Search" id="search-field"
38
- title="Type to search, Up and Down to navigate, Enter to load">
39
- </h3>
40
- </form>
41
-
42
- <ul id="search-results" class="initially-hidden"></ul>
43
- </nav>
44
-
45
-
46
- <div id="file-metadata">
47
- <nav id="file-list-section" class="section">
48
- <h3 class="section-header">Defined In</h3>
49
- <ul>
50
- <li>lib/workflow-to-galaxy.rb
51
- <li>lib/workflow-to-galaxy/galaxy.rb
52
- <li>lib/workflow-to-galaxy/constants.rb
53
- </ul>
54
- </nav>
55
19
 
56
-
20
+ <div id="metadata">
21
+ <div id="home-metadata">
22
+ <div id="home-section" class="section">
23
+ <h3 class="section-header">
24
+ <a href="./index.html">Home</a>
25
+ <a href="./index.html#classes">Classes</a>
26
+ <a href="./index.html#methods">Methods</a>
27
+ </h3>
28
+ </div>
29
+ </div>
30
+
31
+ <div id="file-metadata">
32
+ <div id="file-list-section" class="section">
33
+ <h3 class="section-header">In Files</h3>
34
+ <div class="section-body">
35
+ <ul>
36
+
37
+ <li><a href="./lib/workflow-to-galaxy_rb.html?TB_iframe=true&amp;height=550&amp;width=785"
38
+ class="thickbox" title="lib/workflow-to-galaxy.rb">lib/workflow-to-galaxy.rb</a></li>
39
+
40
+ <li><a href="./lib/workflow-to-galaxy/constants_rb.html?TB_iframe=true&amp;height=550&amp;width=785"
41
+ class="thickbox" title="lib/workflow-to-galaxy/constants.rb">lib/workflow-to-galaxy/constants.rb</a></li>
42
+
43
+ <li><a href="./lib/workflow-to-galaxy/galaxy_rb.html?TB_iframe=true&amp;height=550&amp;width=785"
44
+ class="thickbox" title="lib/workflow-to-galaxy/galaxy.rb">lib/workflow-to-galaxy/galaxy.rb</a></li>
45
+
46
+ </ul>
47
+ </div>
48
+ </div>
49
+
50
+
51
+ </div>
52
+
53
+ <div id="class-metadata">
54
+
55
+
56
+
57
+
58
+
59
+ <!-- Namespace Contents -->
60
+ <div id="namespace-list-section" class="section">
61
+ <h3 class="section-header">Namespace</h3>
62
+ <ul class="link-list">
63
+
64
+ <li><span class="type">MODULE</span> <a href="WorkflowToGalaxy/Workflows.html">WorkflowToGalaxy::Workflows</a></li>
65
+
66
+ <li><span class="type">CLASS</span> <a href="WorkflowToGalaxy/GalaxyTool.html">WorkflowToGalaxy::GalaxyTool</a></li>
67
+
68
+ </ul>
69
+ </div>
70
+
71
+
72
+
73
+
74
+
75
+ <!-- Included Modules -->
76
+ <div id="includes-section" class="section">
77
+ <h3 class="section-header">Included Modules</h3>
78
+ <ul class="link-list">
79
+
80
+
81
+ <li><span class="include">MyExperimentREST</span></li>
82
+
83
+
84
+ </ul>
85
+ </div>
86
+
87
+ </div>
88
+
89
+ <div id="project-metadata">
90
+
91
+
92
+ <div id="fileindex-section" class="section project-section">
93
+ <h3 class="section-header">Files</h3>
94
+ <ul>
95
+
96
+ <li class="file"><a href="./CHANGES.html">CHANGES</a></li>
97
+
98
+ <li class="file"><a href="./LICENSE.html">LICENSE</a></li>
99
+
100
+ <li class="file"><a href="./README.html">README</a></li>
101
+
102
+ </ul>
103
+ </div>
104
+
105
+
106
+ <div id="classindex-section" class="section project-section">
107
+ <h3 class="section-header">Class/Module Index
108
+ <span class="search-toggle"><img src="./images/find.png"
109
+ height="16" width="16" alt="[+]"
110
+ title="show/hide quicksearch" /></span></h3>
111
+ <form action="#" method="get" accept-charset="utf-8" class="initially-hidden">
112
+ <fieldset>
113
+ <legend>Quicksearch</legend>
114
+ <input type="text" name="quicksearch" value=""
115
+ class="quicksearch-field" />
116
+ </fieldset>
117
+ </form>
118
+
119
+ <ul class="link-list">
120
+
121
+ <li><a href="./WorkflowToGalaxy.html">WorkflowToGalaxy</a></li>
122
+
123
+ <li><a href="./WorkflowToGalaxy/GalaxyTool.html">WorkflowToGalaxy::GalaxyTool</a></li>
124
+
125
+ <li><a href="./WorkflowToGalaxy/Workflows.html">WorkflowToGalaxy::Workflows</a></li>
126
+
127
+ <li><a href="./String.html">String</a></li>
128
+
129
+ </ul>
130
+ <div id="no-class-search-results" style="display: none;">No matching classes.</div>
131
+ </div>
132
+
133
+
134
+ </div>
57
135
  </div>
58
136
 
59
- <div id="class-metadata">
60
-
61
-
62
- <!-- Included Modules -->
63
- <nav id="includes-section" class="section">
64
- <h3 class="section-header">Included Modules</h3>
137
+ <div id="documentation">
138
+ <h1 class="module">WorkflowToGalaxy</h1>
65
139
 
66
- <ul class="link-list">
67
-
68
-
69
- <li><span class="include">MyExperimentREST</span>
70
-
71
-
72
- </ul>
73
- </nav>
140
+ <div id="description" class="description">
141
+
142
+ </div><!-- description -->
74
143
 
75
144
 
76
- </div>
77
-
78
- <div id="project-metadata">
79
- <nav id="fileindex-section" class="section project-section">
80
- <h3 class="section-header">Pages</h3>
81
-
82
- <ul>
83
-
84
- <li class="file"><a href="./CHANGES.html">CHANGES</a>
85
-
86
- <li class="file"><a href="./LICENSE.html">LICENSE</a>
87
-
88
- <li class="file"><a href="./README.html">README</a>
89
-
90
- </ul>
91
- </nav>
92
-
93
- <nav id="classindex-section" class="section project-section">
94
- <h3 class="section-header">Class and Module Index</h3>
95
-
96
- <ul class="link-list">
97
-
98
- <li><a href="./WorkflowToGalaxy.html">WorkflowToGalaxy</a>
99
-
100
- <li><a href="./WorkflowToGalaxy/GalaxyTool.html">WorkflowToGalaxy::GalaxyTool</a>
101
-
102
- <li><a href="./WorkflowToGalaxy/Workflows.html">WorkflowToGalaxy::Workflows</a>
103
-
104
- <li><a href="./String.html">String</a>
105
-
106
- </ul>
107
- </nav>
108
-
109
- </div>
110
- </nav>
111
-
112
- <div id="documentation">
113
- <h1 class="module">module WorkflowToGalaxy</h1>
114
-
115
- <div id="description" class="description">
116
145
 
117
- </div><!-- description -->
118
-
119
-
120
-
121
-
122
- <section id="5Buntitled-5D" class="documentation-section">
123
146
 
147
+ <div id="5Buntitled-5D" class="documentation-section">
148
+
124
149
 
125
-
150
+
126
151
 
127
-
152
+
128
153
 
129
-
154
+
130
155
 
131
- <!-- Methods -->
132
-
133
- </section><!-- 5Buntitled-5D -->
156
+ <!-- Methods -->
157
+
158
+ </div><!-- 5Buntitled-5D -->
159
+
134
160
 
135
- </div><!-- documentation -->
161
+ </div><!-- documentation -->
136
162
 
163
+ <div id="validator-badges">
164
+ <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
165
+ <p><small>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish
166
+ Rdoc Generator</a> 2</small>.</p>
167
+ </div>
137
168
 
138
- <footer id="validator-badges">
139
- <p><a href="http://validator.w3.org/check/referer">[Validate]</a>
140
- <p>Generated by <a href="https://github.com/rdoc/rdoc">RDoc</a> 3.12.
141
- <p>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish Rdoc Generator</a> 3.
142
- </footer>
169
+ </body>
170
+ </html>
143
171
 
@@ -1,245 +1,268 @@
1
- <!DOCTYPE html>
2
-
3
- <html>
1
+ <?xml version="1.0" encoding="UTF-8"?>
2
+ <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN"
3
+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
4
+ <html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
4
5
  <head>
5
- <meta content="text/html; charset=UTF-8" http-equiv="Content-Type">
6
-
7
- <title>class WorkflowToGalaxy::GalaxyTool - workflow-to-galaxy Docs</title>
6
+ <meta content="text/html; charset=UTF-8" http-equiv="Content-Type" />
8
7
 
9
- <link type="text/css" media="screen" href="../rdoc.css" rel="stylesheet">
8
+ <title>Class: WorkflowToGalaxy::GalaxyTool</title>
10
9
 
11
- <script type="text/javascript">
12
- var rdoc_rel_prefix = "../";
13
- </script>
14
-
15
- <script type="text/javascript" charset="utf-8" src="../js/jquery.js"></script>
16
- <script type="text/javascript" charset="utf-8" src="../js/navigation.js"></script>
17
- <script type="text/javascript" charset="utf-8" src="../js/search_index.js"></script>
18
- <script type="text/javascript" charset="utf-8" src="../js/search.js"></script>
19
- <script type="text/javascript" charset="utf-8" src="../js/searcher.js"></script>
20
- <script type="text/javascript" charset="utf-8" src="../js/darkfish.js"></script>
10
+ <link rel="stylesheet" href="../rdoc.css" type="text/css" media="screen" />
21
11
 
12
+ <script src="../js/jquery.js" type="text/javascript" charset="utf-8"></script>
13
+ <script src="../js/thickbox-compressed.js" type="text/javascript" charset="utf-8"></script>
14
+ <script src="../js/quicksearch.js" type="text/javascript" charset="utf-8"></script>
15
+ <script src="../js/darkfish.js" type="text/javascript" charset="utf-8"></script>
22
16
 
17
+ </head>
23
18
  <body id="top" class="class">
24
- <nav id="metadata">
25
- <nav id="home-section" class="section">
26
- <h3 class="section-header">
27
- <a href="../index.html">Home</a>
28
- <a href="../table_of_contents.html#classes">Classes</a>
29
- <a href="../table_of_contents.html#methods">Methods</a>
30
- </h3>
31
- </nav>
32
-
33
-
34
- <nav id="search-section" class="section project-section" class="initially-hidden">
35
- <form action="#" method="get" accept-charset="utf-8">
36
- <h3 class="section-header">
37
- <input type="text" name="search" placeholder="Search" id="search-field"
38
- title="Type to search, Up and Down to navigate, Enter to load">
39
- </h3>
40
- </form>
41
-
42
- <ul id="search-results" class="initially-hidden"></ul>
43
- </nav>
44
-
45
-
46
- <div id="file-metadata">
47
- <nav id="file-list-section" class="section">
48
- <h3 class="section-header">Defined In</h3>
49
- <ul>
50
- <li>lib/workflow-to-galaxy/galaxy.rb
51
- </ul>
52
- </nav>
53
19
 
54
-
55
- </div>
20
+ <div id="metadata">
21
+ <div id="home-metadata">
22
+ <div id="home-section" class="section">
23
+ <h3 class="section-header">
24
+ <a href="../index.html">Home</a>
25
+ <a href="../index.html#classes">Classes</a>
26
+ <a href="../index.html#methods">Methods</a>
27
+ </h3>
28
+ </div>
29
+ </div>
56
30
 
57
- <div id="class-metadata">
58
-
59
- <nav id="parent-class-section" class="section">
60
- <h3 class="section-header">Parent</h3>
61
-
62
- <p class="link">Object
63
-
64
- </nav>
31
+ <div id="file-metadata">
32
+ <div id="file-list-section" class="section">
33
+ <h3 class="section-header">In Files</h3>
34
+ <div class="section-body">
35
+ <ul>
36
+
37
+ <li><a href="../lib/workflow-to-galaxy/galaxy_rb.html?TB_iframe=true&amp;height=550&amp;width=785"
38
+ class="thickbox" title="lib/workflow-to-galaxy/galaxy.rb">lib/workflow-to-galaxy/galaxy.rb</a></li>
39
+
40
+ </ul>
41
+ </div>
42
+ </div>
65
43
 
66
-
67
- <!-- Method Quickref -->
68
- <nav id="method-list-section" class="section">
69
- <h3 class="section-header">Methods</h3>
44
+
45
+ </div>
70
46
 
71
- <ul class="link-list">
72
-
73
- <li><a href="#method-c-new">::new</a>
74
-
75
- <li><a href="#method-i-generate">#generate</a>
76
-
77
- </ul>
78
- </nav>
47
+ <div id="class-metadata">
48
+
49
+ <!-- Parent Class -->
50
+ <div id="parent-class-section" class="section">
51
+ <h3 class="section-header">Parent</h3>
52
+
53
+ <p class="link">Object</p>
54
+
55
+ </div>
56
+
79
57
 
80
- </div>
58
+
81
59
 
82
- <div id="project-metadata">
83
- <nav id="fileindex-section" class="section project-section">
84
- <h3 class="section-header">Pages</h3>
60
+
85
61
 
86
- <ul>
87
-
88
- <li class="file"><a href="../CHANGES.html">CHANGES</a>
89
-
90
- <li class="file"><a href="../LICENSE.html">LICENSE</a>
91
-
92
- <li class="file"><a href="../README.html">README</a>
93
-
94
- </ul>
95
- </nav>
62
+
63
+ <!-- Method Quickref -->
64
+ <div id="method-list-section" class="section">
65
+ <h3 class="section-header">Methods</h3>
66
+ <ul class="link-list">
67
+
68
+ <li><a href="#method-c-new">::new</a></li>
69
+
70
+ <li><a href="#method-i-generate">#generate</a></li>
71
+
72
+ </ul>
73
+ </div>
74
+
96
75
 
97
- <nav id="classindex-section" class="section project-section">
98
- <h3 class="section-header">Class and Module Index</h3>
76
+
77
+ </div>
99
78
 
100
- <ul class="link-list">
101
-
102
- <li><a href="../WorkflowToGalaxy.html">WorkflowToGalaxy</a>
103
-
104
- <li><a href="../WorkflowToGalaxy/GalaxyTool.html">WorkflowToGalaxy::GalaxyTool</a>
105
-
106
- <li><a href="../WorkflowToGalaxy/Workflows.html">WorkflowToGalaxy::Workflows</a>
107
-
108
- <li><a href="../String.html">String</a>
109
-
110
- </ul>
111
- </nav>
79
+ <div id="project-metadata">
80
+
81
+
82
+ <div id="fileindex-section" class="section project-section">
83
+ <h3 class="section-header">Files</h3>
84
+ <ul>
85
+
86
+ <li class="file"><a href="../CHANGES.html">CHANGES</a></li>
87
+
88
+ <li class="file"><a href="../LICENSE.html">LICENSE</a></li>
89
+
90
+ <li class="file"><a href="../README.html">README</a></li>
91
+
92
+ </ul>
93
+ </div>
94
+
95
+
96
+ <div id="classindex-section" class="section project-section">
97
+ <h3 class="section-header">Class/Module Index
98
+ <span class="search-toggle"><img src="../images/find.png"
99
+ height="16" width="16" alt="[+]"
100
+ title="show/hide quicksearch" /></span></h3>
101
+ <form action="#" method="get" accept-charset="utf-8" class="initially-hidden">
102
+ <fieldset>
103
+ <legend>Quicksearch</legend>
104
+ <input type="text" name="quicksearch" value=""
105
+ class="quicksearch-field" />
106
+ </fieldset>
107
+ </form>
108
+
109
+ <ul class="link-list">
110
+
111
+ <li><a href="../WorkflowToGalaxy.html">WorkflowToGalaxy</a></li>
112
+
113
+ <li><a href="../WorkflowToGalaxy/GalaxyTool.html">WorkflowToGalaxy::GalaxyTool</a></li>
114
+
115
+ <li><a href="../WorkflowToGalaxy/Workflows.html">WorkflowToGalaxy::Workflows</a></li>
116
+
117
+ <li><a href="../String.html">String</a></li>
118
+
119
+ </ul>
120
+ <div id="no-class-search-results" style="display: none;">No matching classes.</div>
121
+ </div>
112
122
 
123
+
124
+ </div>
113
125
  </div>
114
- </nav>
115
126
 
116
- <div id="documentation">
117
- <h1 class="class">class WorkflowToGalaxy::GalaxyTool</h1>
127
+ <div id="documentation">
128
+ <h1 class="class">WorkflowToGalaxy::GalaxyTool</h1>
118
129
 
119
- <div id="description" class="description">
120
-
130
+ <div id="description" class="description">
131
+
121
132
  <p>The <em><a href="GalaxyTool.html">GalaxyTool</a></em> class contains a
122
- <code>generate</code> public method that generates the required files (XML
123
- and script) for a Galaxy tool.</p>
133
+ <tt>generate</tt> public method that generates the required files (XML and
134
+ script) for a Galaxy tool.</p>
124
135
 
125
- </div><!-- description -->
136
+ </div><!-- description -->
126
137
 
127
-
128
-
129
-
130
- <section id="5Buntitled-5D" class="documentation-section">
131
138
 
132
-
133
139
 
134
-
135
140
 
141
+ <div id="5Buntitled-5D" class="documentation-section">
142
+
136
143
 
137
-
138
- <!-- Attributes -->
139
- <section id="attribute-method-details" class="method-section section">
140
- <h3 class="section-header">Attributes</h3>
144
+
141
145
 
142
146
 
143
- <div id="attribute-i-config" class="method-detail">
144
- <div class="method-heading attribute-method-heading">
145
- <span class="method-name">config</span><span
146
- class="attribute-access-type">[RW]</span>
147
- </div>
148
147
 
149
- <div class="method-description">
150
-
151
- <p><code>config</code> contains data needed in relation to what the tool will
152
- do and <code>wkf_object</code> contains the workflow object that will be
153
- used to generate the galaxy tool</p>
154
-
155
- </div>
156
- </div>
157
148
 
158
- <div id="attribute-i-wkf_object" class="method-detail">
159
- <div class="method-heading attribute-method-heading">
160
- <span class="method-name">wkf_object</span><span
161
- class="attribute-access-type">[RW]</span>
162
- </div>
149
+ <!-- Attributes -->
150
+ <div id="attribute-method-details" class="method-section section">
151
+ <h3 class="section-header">Attributes</h3>
163
152
 
164
- <div class="method-description">
165
153
 
166
- <p><code>config</code> contains data needed in relation to what the tool will
167
- do and <code>wkf_object</code> contains the workflow object that will be
168
- used to generate the galaxy tool</p>
154
+ <div id="config-attribute-method" class="method-detail">
155
+ <a name="config"></a>
156
+
157
+ <a name="config="></a>
158
+
159
+ <div class="method-heading attribute-method-heading">
160
+ <span class="method-name">config</span><span
161
+ class="attribute-access-type">[RW]</span>
162
+ </div>
163
+
164
+ <div class="method-description">
165
+
166
+ <p><tt>config</tt> contains data needed in relation to what the tool will do
167
+ and <tt>wkf_object</tt> contains the workflow object that will be used to
168
+ generate the galaxy tool</p>
169
+
170
+ </div>
171
+ </div>
169
172
 
173
+ <div id="wkf_object-attribute-method" class="method-detail">
174
+ <a name="wkf_object"></a>
175
+
176
+ <a name="wkf_object="></a>
177
+
178
+ <div class="method-heading attribute-method-heading">
179
+ <span class="method-name">wkf_object</span><span
180
+ class="attribute-access-type">[RW]</span>
181
+ </div>
182
+
183
+ <div class="method-description">
184
+
185
+ <p><tt>config</tt> contains data needed in relation to what the tool will do
186
+ and <tt>wkf_object</tt> contains the workflow object that will be used to
187
+ generate the galaxy tool</p>
188
+
189
+ </div>
170
190
  </div>
171
- </div>
191
+
192
+ </div><!-- attribute-method-details -->
172
193
 
173
- </section><!-- attribute-method-details -->
174
-
175
194
 
176
- <!-- Methods -->
177
-
178
- <section id="public-class-5Buntitled-5D-method-details" class="method-section section">
179
- <h3 class="section-header">Public Class Methods</h3>
195
+ <!-- Methods -->
196
+
197
+ <div id="public-class-method-details" class="method-section section">
198
+ <h3 class="section-header">Public Class Methods</h3>
180
199
 
181
-
182
- <div id="method-c-new" class="method-detail ">
183
-
184
- <div class="method-heading">
185
- <span class="method-name">new</span><span
186
- class="method-args">(config)</span>
187
- <span class="method-click-advice">click to toggle source</span>
188
- </div>
189
-
200
+
201
+ <div id="new-method" class="method-detail ">
202
+ <a name="method-c-new"></a>
190
203
 
191
- <div class="method-description">
192
204
 
193
- <p>-</p>
205
+ <div class="method-heading">
206
+ <span class="method-name">new</span><span
207
+ class="method-args">(config)</span>
208
+ <span class="method-click-advice">click to toggle source</span>
209
+ </div>
210
+
211
+
212
+ <div class="method-description">
213
+
214
+ <p>-</p>
194
215
 
195
216
  <pre>TODO: does initialize appear in rdoc? -- these will go to README as well...</pre>
196
-
217
+
197
218
 
198
-
199
- <div class="method-source-code" id="new-source">
200
- <pre><span class="ruby-comment"># File lib/workflow-to-galaxy/galaxy.rb, line 40</span>
219
+
220
+ <div class="method-source-code" id="new-source">
221
+ <pre>
222
+ <span class="ruby-comment"># File lib/workflow-to-galaxy/galaxy.rb, line 40</span>
201
223
  <span class="ruby-keyword">def</span> <span class="ruby-identifier">initialize</span>(<span class="ruby-identifier">config</span>)
202
224
  <span class="ruby-ivar">@config</span> = <span class="ruby-identifier">config</span>
203
225
  <span class="ruby-keyword">end</span></pre>
204
- </div><!-- new-source -->
205
-
206
- </div>
226
+ </div><!-- new-source -->
227
+
228
+ </div>
207
229
 
208
-
230
+
209
231
 
210
-
211
- </div><!-- new-method -->
232
+
233
+ </div><!-- new-method -->
212
234
 
235
+
236
+ </div><!-- public-class-method-details -->
213
237
 
214
- </section><!-- public-class-method-details -->
215
-
216
- <section id="public-instance-5Buntitled-5D-method-details" class="method-section section">
217
- <h3 class="section-header">Public Instance Methods</h3>
238
+ <div id="public-instance-method-details" class="method-section section">
239
+ <h3 class="section-header">Public Instance Methods</h3>
240
+
241
+
242
+ <div id="generate-method" class="method-detail ">
243
+ <a name="method-i-generate"></a>
218
244
 
219
-
220
- <div id="method-i-generate" class="method-detail ">
221
-
222
-
223
- <div class="method-heading">
224
- <span class="method-callseq">
225
- generate() &rarr; nil
226
- </span>
227
245
 
228
- <span class="method-click-advice">click to toggle source</span>
229
246
 
230
- </div>
231
-
232
-
233
-
234
- <div class="method-description">
247
+ <div class="method-heading">
248
+ <span class="method-callseq">generate() &rarr; nil</span>
249
+
250
+ <span class="method-click-advice">click to toggle source</span>
251
+
252
+ </div>
235
253
 
236
- <p>Generates the two files needed for a Galaxy tool: a configuration file
237
- (XML) and a processing file (in our case a ruby script)</p>
238
254
 
239
255
 
240
-
241
- <div class="method-source-code" id="generate-source">
242
- <pre><span class="ruby-comment"># File lib/workflow-to-galaxy/galaxy.rb, line 582</span>
256
+ <div class="method-description">
257
+
258
+ <p>Generates the two files needed for a Galaxy tool: a configuration file
259
+ (XML) and a processing file (in our case a ruby script)</p>
260
+
261
+
262
+
263
+ <div class="method-source-code" id="generate-source">
264
+ <pre>
265
+ <span class="ruby-comment"># File lib/workflow-to-galaxy/galaxy.rb, line 582</span>
243
266
  <span class="ruby-keyword">def</span> <span class="ruby-identifier">generate</span>
244
267
 
245
268
  <span class="ruby-keyword">if</span>(<span class="ruby-identifier">config</span>[<span class="ruby-value">:params</span>][<span class="ruby-value">:response</span>])
@@ -296,26 +319,29 @@ used to generate the galaxy tool</p>
296
319
 
297
320
 
298
321
  <span class="ruby-keyword">end</span></pre>
299
- </div><!-- generate-source -->
300
-
301
- </div>
322
+ </div><!-- generate-source -->
323
+
324
+ </div>
302
325
 
303
-
326
+
304
327
 
305
-
306
- </div><!-- generate-method -->
328
+
329
+ </div><!-- generate-method -->
307
330
 
331
+
332
+ </div><!-- public-instance-method-details -->
308
333
 
309
- </section><!-- public-instance-method-details -->
334
+ </div><!-- 5Buntitled-5D -->
310
335
 
311
- </section><!-- 5Buntitled-5D -->
312
336
 
313
- </div><!-- documentation -->
337
+ </div><!-- documentation -->
314
338
 
339
+ <div id="validator-badges">
340
+ <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
341
+ <p><small>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish
342
+ Rdoc Generator</a> 2</small>.</p>
343
+ </div>
315
344
 
316
- <footer id="validator-badges">
317
- <p><a href="http://validator.w3.org/check/referer">[Validate]</a>
318
- <p>Generated by <a href="https://github.com/rdoc/rdoc">RDoc</a> 3.12.
319
- <p>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish Rdoc Generator</a> 3.
320
- </footer>
345
+ </body>
346
+ </html>
321
347