myexperiment-rest 0.2.6 → 0.2.7
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- data/CHANGES +6 -1
- data/README +3 -3
- data/Rakefile +3 -2
- data/bin/get_workflow_data.rb +3 -5
- data/doc/created.rid +1 -1
- data/doc/files/README.html +148 -0
- data/doc/fr_class_index.html +0 -5
- data/doc/fr_file_index.html +1 -3
- data/doc/fr_method_index.html +0 -6
- data/doc/index.html +1 -1
- data/doc/rdoc/created.rid +1 -1
- data/doc/rdoc/files/CHANGES.html +11 -2
- data/doc/rdoc/files/README.html +5 -7
- metadata +26 -7
data/CHANGES
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= Changes log for the MyExperiment via REST Gem
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== Version 0.2.7
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* Minor clean up of get_workflow_data.rb and documentation.
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* Added libxml-ruby dependency in gem specification.
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== Version 0.2.6
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* Added dependency in gem specification.
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* Added rest-client dependency version in gem specification.
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== Version 0.2.5
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data/README
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= MyExperiment Interaction via REST
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Authors:: Konstantinos Karasavvas
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Gem Version:: 0.2.
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Gem Version:: 0.2.7
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Contact:: mailto:kostas.karasavvas@nbic.nl
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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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== Installation
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[sudo] gem install myexperiment-rest
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[sudo] gem install myexperiment-rest
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== References
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myExperiment:: http://www.myexperiment.org
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myExperiment:: http://www.myexperiment.org
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data/Rakefile
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spec = Gem::Specification.new do |s|
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s.name = 'myexperiment-rest'
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s.version = '0.2.
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s.version = '0.2.7'
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s.extra_rdoc_files = ['README', 'LICENSE', 'CHANGES']
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s.summary = 'This is a simple library to access data on myExperiment via its REST API. Currently supports a subset of the workflow information available.'
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s.description = s.summary
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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 'rest-client'
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s.add_dependency 'rest-client', '>= 1.6.3'
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s.add_dependency 'libxml-ruby', '>= 2.0.5'
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end
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Rake::GemPackageTask.new(spec) do |p|
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data/bin/get_workflow_data.rb
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include MyExperimentREST
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wkf = Workflows.new.read(ARGV[0])
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end
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my_exp_workflow = ARGV[0] || "http://www.myexperiment.org/workflows/74/download/bioaid_proteindiscovery_221429.xml?version=3"
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wkf = Workflows.new.read(my_exp_workflow)
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puts wkf.input_type
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data/doc/created.rid
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Thu,
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Thu, 21 Jul 2011 18:40:11 +0200
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<?xml version="1.0" encoding="iso-8859-1"?>
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<!DOCTYPE html
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PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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"http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
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<head>
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<title>File: README</title>
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<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
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<meta http-equiv="Content-Script-Type" content="text/javascript" />
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<link rel="stylesheet" href=".././rdoc-style.css" type="text/css" media="screen" />
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<script type="text/javascript">
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// <![CDATA[
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function popupCode( url ) {
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window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
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}
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function toggleCode( id ) {
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else if ( document.all )
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else
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return false;
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elemStyle = elem.style;
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elemStyle.display = "block"
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} else {
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elemStyle.display = "none"
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}
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return true;
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}
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// Make codeblocks hidden by default
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document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }</style>" )
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// ]]>
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</script>
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</head>
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<body>
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<div id="fileHeader">
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<h1>README</h1>
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<table class="header-table">
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<tr class="top-aligned-row">
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<td><strong>Path:</strong></td>
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<td>README
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</td>
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</tr>
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<tr class="top-aligned-row">
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<td><strong>Last Update:</strong></td>
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<td>Wed Jul 20 19:31:37 +0200 2011</td>
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</tr>
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</table>
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</div>
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<!-- banner header -->
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<div id="bodyContent">
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<div id="contextContent">
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<div id="description">
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<h1>MyExperiment Interaction via REST</h1>
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<table>
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<tr><td valign="top">Authors:</td><td>Konstantinos Karasavvas
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</td></tr>
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<tr><td valign="top">Gem Version:</td><td>0.2.6
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</td></tr>
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<tr><td valign="top">Contact:</td><td><a href="mailto:kostas.karasavvas@nbic.nl">kostas.karasavvas@nbic.nl</a>
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</td></tr>
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<tr><td valign="top">Licence:</td><td>MIT (See LICENCE or <a
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href="http://www.opensource.org/licenses/mit-license">www.opensource.org/licenses/mit-license</a>)
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</td></tr>
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<tr><td valign="top">Copyright:</td><td>(c) 2010 Netherlands Bioinformatics Centre, The Netherlands
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</td></tr>
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</table>
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<h2>Description</h2>
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<p>
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This is a simple library to access data on myExperiment via its REST API.
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</p>
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<h2>Features/Problems</h2>
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<p>
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Only a subset of myExperiment workflow data can be currently accessed.
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</p>
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<h2>Usage</h2>
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<p>
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There is an example script inside the <tt>bin</tt> directory that
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demonstrates how you can use the library.
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</p>
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<h2>Installation</h2>
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<dl>
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<dt>sudo</dt><dd>gem install myexperiment-rest
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</dd>
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</dl>
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<h2>References</h2>
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<table>
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<tr><td valign="top">myExperiment:</td><td><a href="http://www.myexperiment.org">www.myexperiment.org</a>
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</table>
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<!-- if includes -->
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<!-- if method_list -->
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</div>
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<div id="validator-badges">
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<p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
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</div>
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</body>
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</html>
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data/doc/fr_class_index.html
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<div id="index">
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<h1 class="section-bar">Classes</h1>
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<div id="index-entries">
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<a href="classes/MyExperimentREST.html">MyExperimentREST</a><br />
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<a href="classes/MyExperimentREST/TavernaIOData.html">MyExperimentREST::TavernaIOData</a><br />
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<a href="classes/MyExperimentREST/TavernaWorkflow.html">MyExperimentREST::TavernaWorkflow</a><br />
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<a href="classes/MyExperimentREST/Workflows.html">MyExperimentREST::Workflows</a><br />
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<a href="classes/TestReadWorkflow.html">TestReadWorkflow</a><br />
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data/doc/fr_file_index.html
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<div id="index">
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<h1 class="section-bar">Files</h1>
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<div id="index-entries">
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<a href="files/
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<a href="files/lib/myexperiment-rest/myexperiment_rest_rb.html">lib/myexperiment-rest/myexperiment_rest.rb</a><br />
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<a href="files/README.html">README</a><br />
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data/doc/fr_method_index.html
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<div id="index">
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<a href="classes/MyExperimentREST/TavernaIOData.html#M000006">new (MyExperimentREST::TavernaIOData)</a><br />
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<a href="classes/MyExperimentREST/TavernaWorkflow.html#M000005">new (MyExperimentREST::TavernaWorkflow)</a><br />
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<a href="classes/MyExperimentREST/Workflows.html#M000004">read (MyExperimentREST::Workflows)</a><br />
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<a href="classes/TestReadWorkflow.html#M000001">setup (TestReadWorkflow)</a><br />
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<a href="classes/TestReadWorkflow.html#M000002">test_workflow_values (TestReadWorkflow)</a><br />
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<a href="classes/TestReadWorkflow.html#M000003">test_workflows_ios (TestReadWorkflow)</a><br />
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<frame src="fr_class_index.html" name="Classes" />
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Fri, 22 Jul 2011 12:32:40 +0200
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data/doc/rdoc/files/CHANGES.html
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<td>
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<td>Fri Jul 22 12:32:28 +0200 2011</td>
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<h2>Version 0.2.7</h2>
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<li>Minor clean up of get_workflow_data.rb and documentation.
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<h2>Version 0.2.6</h2>
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<td>Fri Jul 22 12:29:57 +0200 2011</td>
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</td></tr>
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<tr><td valign="top">Gem Version:</td><td>0.2.7
|
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78
78
|
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79
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|
</td></tr>
|
|
80
80
|
<tr><td valign="top">Contact:</td><td><a href="mailto:kostas.karasavvas@nbic.nl">kostas.karasavvas@nbic.nl</a>
|
|
@@ -102,11 +102,9 @@ There is an example script inside the <tt>bin</tt> directory that
|
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102
102
|
demonstrates how you can use the library.
|
|
103
103
|
</p>
|
|
104
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|
<h2>Installation</h2>
|
|
105
|
-
<
|
|
106
|
-
|
|
107
|
-
|
|
108
|
-
</dd>
|
|
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|
-
</dl>
|
|
105
|
+
<pre>
|
|
106
|
+
[sudo] gem install myexperiment-rest
|
|
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|
+
</pre>
|
|
110
108
|
<h2>References</h2>
|
|
111
109
|
<table>
|
|
112
110
|
<tr><td valign="top">myExperiment:</td><td><a href="http://www.myexperiment.org">www.myexperiment.org</a>
|
metadata
CHANGED
|
@@ -1,13 +1,13 @@
|
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
|
2
2
|
name: myexperiment-rest
|
|
3
3
|
version: !ruby/object:Gem::Version
|
|
4
|
-
hash:
|
|
4
|
+
hash: 25
|
|
5
5
|
prerelease:
|
|
6
6
|
segments:
|
|
7
7
|
- 0
|
|
8
8
|
- 2
|
|
9
|
-
-
|
|
10
|
-
version: 0.2.
|
|
9
|
+
- 7
|
|
10
|
+
version: 0.2.7
|
|
11
11
|
platform: ruby
|
|
12
12
|
authors:
|
|
13
13
|
- Konstantinos Karasavvas
|
|
@@ -15,7 +15,7 @@ autorequire:
|
|
|
15
15
|
bindir: bin
|
|
16
16
|
cert_chain: []
|
|
17
17
|
|
|
18
|
-
date: 2011-07-
|
|
18
|
+
date: 2011-07-22 00:00:00 Z
|
|
19
19
|
dependencies:
|
|
20
20
|
- !ruby/object:Gem::Dependency
|
|
21
21
|
name: rest-client
|
|
@@ -25,12 +25,30 @@ dependencies:
|
|
|
25
25
|
requirements:
|
|
26
26
|
- - ">="
|
|
27
27
|
- !ruby/object:Gem::Version
|
|
28
|
-
hash:
|
|
28
|
+
hash: 9
|
|
29
29
|
segments:
|
|
30
|
-
-
|
|
31
|
-
|
|
30
|
+
- 1
|
|
31
|
+
- 6
|
|
32
|
+
- 3
|
|
33
|
+
version: 1.6.3
|
|
32
34
|
type: :runtime
|
|
33
35
|
version_requirements: *id001
|
|
36
|
+
- !ruby/object:Gem::Dependency
|
|
37
|
+
name: libxml-ruby
|
|
38
|
+
prerelease: false
|
|
39
|
+
requirement: &id002 !ruby/object:Gem::Requirement
|
|
40
|
+
none: false
|
|
41
|
+
requirements:
|
|
42
|
+
- - ">="
|
|
43
|
+
- !ruby/object:Gem::Version
|
|
44
|
+
hash: 5
|
|
45
|
+
segments:
|
|
46
|
+
- 2
|
|
47
|
+
- 0
|
|
48
|
+
- 5
|
|
49
|
+
version: 2.0.5
|
|
50
|
+
type: :runtime
|
|
51
|
+
version_requirements: *id002
|
|
34
52
|
description: This is a simple library to access data on myExperiment via its REST API. Currently supports a subset of the workflow information available.
|
|
35
53
|
email: kostas.karasavvas@nbic.nl
|
|
36
54
|
executables:
|
|
@@ -76,6 +94,7 @@ files:
|
|
|
76
94
|
- doc/index.html
|
|
77
95
|
- doc/files/test/test_read_workflow_rb.html
|
|
78
96
|
- doc/files/bin/get_workflow_data_rb.html
|
|
97
|
+
- doc/files/README.html
|
|
79
98
|
- doc/files/lib/myexperiment-rest/my_experiment_rest_rb.html
|
|
80
99
|
- doc/files/lib/myexperiment-rest/myexperiment_rest_rb.html
|
|
81
100
|
- doc/files/lib/myexperiment-rest_rb.html
|