workflow-to-galaxy 0.3.3 → 0.3.4
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- data/CHANGES +3 -0
- data/README +3 -3
- data/Rakefile +4 -4
- data/doc/rdoc/CHANGES.html +93 -91
- data/doc/rdoc/LICENSE.html +81 -84
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- data/doc/rdoc/String.html +148 -161
- data/doc/rdoc/WorkflowToGalaxy.html +122 -148
- data/doc/rdoc/WorkflowToGalaxy/GalaxyTool.html +203 -229
- data/doc/rdoc/WorkflowToGalaxy/Workflows.html +115 -125
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- data/doc/rdoc/table_of_contents.html +103 -0
- metadata +44 -42
- data/doc/rdoc/Generator.html +0 -262
- data/doc/rdoc/Object.html +0 -161
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- data/doc/rdoc/js/thickbox-compressed.js +0 -10
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- data/doc/rdoc/lib/workflow-to-galaxy/galaxy_rb.html +0 -58
- data/doc/rdoc/lib/workflow-to-galaxy/generator_rb.html +0 -58
- data/doc/rdoc/lib/workflow-to-galaxy_rb.html +0 -56
- data/doc/rdoc/lib/workflow_to_galaxy_rb.html +0 -60
data/CHANGES
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data/README
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= workflow-to-galaxy tool generator
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Authors:: Konstantinos Karasavvas
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Gem Version:: 0.3.
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Contact:: mailto:
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Authors:: Konstantinos Karasavvas, Finn Bacall
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Gem Version:: 0.3.4
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Contact:: mailto:r.m.van_schouwen@lumc.nl, mailto:finn.bacall@cs.man.ac.uk
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Licence:: MIT (See LICENCE or http://www.opensource.org/licenses/mit-license)
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Copyright:: (c) 2010 Netherlands Bioinformatics Centre, The Netherlands
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data/Rakefile
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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 = '0.3.4'
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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.
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s.email =
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s.authors = ['Kostas Karasavvas', 'Finn Bacall']
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s.email = ["finn.bacall@cs.man.ac.uk", "R.M.van_Schouwen@lumc.nl"]
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s.executables = ['workflow_to_galaxy.rb']
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s.files = %w(LICENSE README CHANGES Rakefile) + Dir.glob("{bin,lib,doc,spec}/**/*")
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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', '~> 0.3.0'
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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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<title>CHANGES - workflow-to-galaxy Docs</title>
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<a href="./index.html">Home</a>
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<a href="./table_of_contents.html#classes">Classes</a>
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<a href="./table_of_contents.html#methods">Methods</a>
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title="Type to search, Up and Down to navigate, Enter to load">
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<h3 class="section-header">Pages</h3>
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<ul>
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<li class="file"><a href="./CHANGES.html">CHANGES</a>
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<li class="file"><a href="./LICENSE.html">LICENSE</a>
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<li class="file"><a href="./README.html">README</a>
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</nav>
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<nav id="classindex-section" class="section project-section">
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<h3 class="section-header">Class and Module Index</h3>
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<ul class="link-list">
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<li><a href="./WorkflowToGalaxy.html">WorkflowToGalaxy</a>
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<li><a href="./WorkflowToGalaxy/GalaxyTool.html">WorkflowToGalaxy::GalaxyTool</a>
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<li><a href="./WorkflowToGalaxy/Workflows.html">WorkflowToGalaxy::Workflows</a>
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<li><a href="./String.html">String</a>
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<h1>Changes log for the Taverna-Galaxy Gem</h1>
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<div id="documentation" class="description">
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<h1 id="label-Changes+log+for+the+Taverna-Galaxy+Gem">Changes log for the Taverna-Galaxy Gem</h1>
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<h2 id="label-Version+0.3.4">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>Version 0.3.3</h2>
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<h2 id="label-Version+0.3.3">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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<h2>Version 0.3.2</h2>
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<h2 id="label-Version+0.3.2">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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<h2>Version 0.3.1</h2>
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<h2 id="label-Version+0.3.1">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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<p>Extended workflow tests</p>
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<h2>Version 0.3.0</h2>
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<h2 id="label-Version+0.3.0">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>Version 0.2.9</h2>
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<h2 id="label-Version+0.2.9">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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<h2>Version 0.2.8</h2>
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<h2 id="label-Version+0.2.8">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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<p>Added rubyzip dependency to gemspec</p>
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<h2>Version 0.2.7</h2>
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<h2 id="label-Version+0.2.7">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><a href="http://validator.w3.org/check/referer">[Validate]</a>
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<p>Generated by <a href="https://github.com/rdoc/rdoc">RDoc</a> 3.12.
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<p>Generated with the <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish Rdoc Generator</a> 3.
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