workflow-to-galaxy 0.3.4 → 0.3.5
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- data/Rakefile +2 -2
- data/doc/rdoc/CHANGES.html +92 -89
- data/doc/rdoc/LICENSE.html +91 -89
- data/doc/rdoc/README.html +110 -107
- data/doc/rdoc/String.html +163 -148
- data/doc/rdoc/WorkflowToGalaxy.html +149 -121
- data/doc/rdoc/WorkflowToGalaxy/GalaxyTool.html +227 -201
- data/doc/rdoc/WorkflowToGalaxy/Workflows.html +127 -115
- data/doc/rdoc/created.rid +7 -7
- data/doc/rdoc/index.html +87 -104
- data/doc/rdoc/js/darkfish.js +62 -99
- data/doc/rdoc/js/jquery.js +29 -15
- data/doc/rdoc/rdoc.css +339 -119
- metadata +101 -116
data/Rakefile
CHANGED
@@ -7,7 +7,7 @@ require 'rdoc/task'
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spec = Gem::Specification.new do |s|
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s.name = 'workflow-to-galaxy'
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s.version = '0.3.
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s.version = '0.3.5'
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s.extra_rdoc_files = ['README', 'LICENSE', 'CHANGES']
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s.summary = 'This script acquires information for a taverna 2 workflow from myExperiment (or from a file) and generates a Galaxy tool (.xml and .rb files).'
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s.description = s.summary
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s.require_path = "lib"
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s.bindir = "bin"
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s.add_dependency 'myexperiment-rest', '~> 0.3.0'
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s.add_dependency 'taverna-t2flow', '~> 0.
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s.add_dependency 'taverna-t2flow', '~> 0.4.0'
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s.add_dependency 't2-server', '~> 0.6.1'
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s.add_dependency 'rubyzip', '~> 0.9.4'
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end
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data/doc/rdoc/CHANGES.html
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<title>File: CHANGES [workflow-to-galaxy Docs]</title>
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<div id="home-section" class="section">
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<h3 class="section-header">
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<a href="./index.html">Home</a>
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<a href="./index.html#classes">Classes</a>
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<a href="./index.html#methods">Methods</a>
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</h3>
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<h3 class="section-header">Files</h3>
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<ul>
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<li class="file"><a href="./CHANGES.html">CHANGES</a></li>
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<li class="file"><a href="./LICENSE.html">LICENSE</a></li>
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<li class="file"><a href="./README.html">README</a></li>
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</ul>
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</div>
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<h3 class="section-header">Class Index
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<span class="search-toggle"><img src="./images/find.png"
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height="16" width="16" alt="[+]"
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title="show/hide quicksearch" /></span></h3>
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<form action="#" method="get" accept-charset="utf-8" class="initially-hidden">
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<fieldset>
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<legend>Quicksearch</legend>
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<input type="text" name="quicksearch" value=""
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class="quicksearch-field" />
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</fieldset>
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</form>
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<ul class="link-list">
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<li><a href="./WorkflowToGalaxy.html">WorkflowToGalaxy</a></li>
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<li><a href="./WorkflowToGalaxy/GalaxyTool.html">WorkflowToGalaxy::GalaxyTool</a></li>
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<li><a href="./WorkflowToGalaxy/Workflows.html">WorkflowToGalaxy::Workflows</a></li>
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<li><a href="./String.html">String</a></li>
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</ul>
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<div id="no-class-search-results" style="display: none;">No matching classes.</div>
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</div>
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</div>
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</div>
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</nav>
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<div id="documentation"
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<h1
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<div id="documentation">
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<h1>Changes log for the Taverna-Galaxy Gem</h1>
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<h2
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<h2>Version 0.3.4</h2>
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<ul><li>
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<p>Updated taverna-t2flow dependency to 0.3.0</p>
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</li></ul>
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<h2
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<h2>Version 0.3.3</h2>
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<ul><li>
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<p>Multiline output examples are now displayed better in HTML/Galaxy (similar
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to inputs)</p>
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</li></ul>
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</li></ul>
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<h2
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<h2>Version 0.3.2</h2>
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<ul><li>
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<p>Automatic filename creation is more robust (all special chars are removed)</p>
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</li><li>
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<p>More workflow tests</p>
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</li></ul>
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<h2
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<h2>Version 0.3.1</h2>
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<ul><li>
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<p>Used semver formally (taged: v0.3.1 semver)</p>
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</li><li>
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<p>Extended workflow tests</p>
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</li></ul>
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<h2
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<h2>Version 0.3.0</h2>
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<ul><li>
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<p>Updated to newer myexperiment-rest lib (0.3.0).</p>
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</li><li>
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<p>Restructured, now more modular and extensible.</p>
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</li></ul>
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<h2
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<h2>Version 0.2.9</h2>
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<ul><li>
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<p>Fixed minor bug when workflow had empty description</p>
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</li><li>
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<p>Added instructions to generated scripts on how to run them without Galaxy.</p>
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</li></ul>
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<h2>Version 0.2.8</h2>
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<ul><li>
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<p>Clean up of documentation</p>
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</li><li>
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<p>Added rubyzip dependency to gemspec</p>
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<h2
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<h2>Version 0.2.7</h2>
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<ul><li>
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<p>A Galaxy tool can now also be created by providing a t2flow file with the
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–t2flow flag.</p>
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<p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
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<p><small>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish
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Rdoc Generator</a> 2</small>.</p>
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</div>
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</body>
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</html>
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data/doc/rdoc/LICENSE.html
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<title>File: LICENSE [workflow-to-galaxy Docs]</title>
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<a href="./index.html">Home</a>
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<ul>
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