You are viewing a plain text version of this content. The canonical link for it is here.
Posted to commits@taverna.apache.org by bu...@apache.org on 2015/03/09 14:37:19 UTC
svn commit: r943015 - in /websites/staging/taverna/trunk: cgi-bin/ content/
content/documentation/scufl2/processors.html
Author: buildbot
Date: Mon Mar 9 13:37:19 2015
New Revision: 943015
Log:
Staging update by buildbot for taverna
Added:
websites/staging/taverna/trunk/content/documentation/scufl2/processors.html
Modified:
websites/staging/taverna/trunk/cgi-bin/ (props changed)
websites/staging/taverna/trunk/content/ (props changed)
Propchange: websites/staging/taverna/trunk/cgi-bin/
------------------------------------------------------------------------------
--- cms:source-revision (original)
+++ cms:source-revision Mon Mar 9 13:37:19 2015
@@ -1 +1 @@
-1665221
+1665230
Propchange: websites/staging/taverna/trunk/content/
------------------------------------------------------------------------------
--- cms:source-revision (original)
+++ cms:source-revision Mon Mar 9 13:37:19 2015
@@ -1 +1 @@
-1665221
+1665230
Added: websites/staging/taverna/trunk/content/documentation/scufl2/processors.html
==============================================================================
--- websites/staging/taverna/trunk/content/documentation/scufl2/processors.html (added)
+++ websites/staging/taverna/trunk/content/documentation/scufl2/processors.html Mon Mar 9 13:37:19 2015
@@ -0,0 +1,274 @@
+<!DOCTYPE html>
+<html lang="en">
+ <head>
+ <meta charset="utf-8">
+ <meta http-equiv="X-UA-Compatible" content="IE=edge">
+ <meta name="viewport" content="width=device-width, initial-scale=1">
+ <title>Apache Taverna - Scufl2-Processors</title>
+
+ <meta http-equiv="Content-Type" content="text/html;charset=UTF-8">
+ <meta property="og:image" content="/img/taverna-logo-145x134.png" />
+
+ <link rel="shortcut icon" href="/favicon.ico">
+ <link rel="icon" type="image/png" sizes="145x134" href="/img/taverna-logo-145x134.png">
+ <link rel="apple-touch-icon" sizes="145x134" href="/img/taverna-logo-145x134.png">
+
+ <link rel="stylesheet" href="/lib/bootstrap/css/bootstrap.min.css">
+ <link rel="stylesheet" href="/lib/bootstrap/css/bootstrap-theme.min.css">
+ <link rel="stylesheet" href="/css/sticky-footer-navbar.css">
+ <link rel="stylesheet" href="/css/taverna.css">
+ <link rel="stylesheet" href="/css/pygments.css">
+
+
+
+
+ <!-- Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to you under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at . http://www.apache.org/licenses/LICENSE-2.0 . Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License. -->
+
+ <!-- JSON-LD markup for Google Structured Data -->
+
+ <!-- generic JSON-LD for this page -->
+ <script type="application/ld+json">
+ {
+ "@context" : "http://schema.org",
+ "@type" : ["CreativeWork"],
+ "@id": "",
+ "name" : "Scufl2-Processors",
+ "publisher" : {
+ "@type" : "Organization",
+ "url" : "http://www.apache.org/",
+ "name" : "The Apache Software Foundation (ASF)"
+ },
+ "license": {
+ "@type": "CreativeWork",
+ "@id": "http://www.apache.org/licenses/LICENSE-2.0",
+ "url": "http://www.apache.org/licenses/LICENSE-2.0",
+ "name": "Apache License, Version 2.0"
+ }
+ }
+</script>
+
+ </head>
+
+
+ <body>
+
+ <!-- Static navbar -->
+ <nav class="navbar navbar-default" role="navigation">
+ <div class="container">
+ <div class="navbar-header">
+ <button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false" aria-controls="navbar">
+ <span class="sr-only">Toggle navigation</span>
+ <span class="icon-bar"></span>
+ <span class="icon-bar"></span>
+ <span class="icon-bar"></span>
+ </button>
+ <a class="navbar-brand" href="/"><img src="/img/taverna-logo-145x134.png" alt="">Apache Taverna</a>
+
+ </div>
+ <div id="navbar" class="navbar-collapse collapse">
+ <ul class="nav navbar-nav">
+ <li class="dropdown">
+ <a href="/introduction" data-toggle="dropdown" role="button" aria-expanded="false">Introduction<span class="caret"></span></a>
+ <ul class="dropdown-menu" role="menu">
+ <li><a href="/introduction/taverna-features">Taverna features</a></li>
+ <li><a href="/introduction/why-use-workflows">Why use workflows?</a></li>
+ <li><a href="/introduction/what-is-in-silico-experimentation">What is âin silicoâ experimentation?</a></li>
+ <li><a href="/introduction/what-is-a-workflow-management-system">What is a Workflow Management System?</a></li>
+ <li><a href="/introduction/how-can-taverna-help-me">How can Taverna help me?</a></li>
+ <li><a href="/introduction/services-in-taverna">Services in Taverna</a></li>
+ <li><a href="/introduction/related-projects">Related projects</a></li>
+ <li><a href="/introduction/chemistry-web-services">Chemistry-web-services</a></li>
+ <li><a href="/introduction/taverna-in-use">Taverna in use</a></li>
+ <li><a href="/introduction/works-with">Works with...</a></li>
+ <li><a href="/introduction/roadmap">Raod Map</a></li>
+ </ul>
+ </li>
+ <li class="dropdown">
+ <a href="/documentation" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Documentation<span class="caret"></span></a>
+ <ul class="dropdown-menu" role="menu">
+ <li><a href="/documentation/glossary">Glossary</a></li>
+ <li><a href="/documentation/quick-start-guide">Quick start guide</a></li>
+ <li><a href="/documentation/components">Components</a></li>
+ <li><a href="/documentation/interaction">Interactions</a></li>
+ <li><a href="/documentation/tutorials">Tutorials</a></li>
+ <li><a href="/documentation/videos">Videos</a></li>
+ <li><a href="/documentation/example-workflows">Example workflows</a></li>
+ <li><a href="/documentation/service-sets">Service sets</a></li>
+ <li><a href="/documentation/provenance">Provenance management</a></li>
+ <li><a href="/documentation/command-line">command-line</a></li>
+ <li><a href="/documentation/server">Taverna Server</a></li>
+ <li><a href="/documentation/taverna-player">Taverna Player</a></li>
+ <li><a href="/documentation/plugins">Plugins</a></li>
+ <li><a href="/documentation/training-and-workshops">Training and workshops</a></li>
+ <li><a href="/documentation/web-service-developers">Web service developers</a></li>
+ <li><a href="/documentation/#tools">Tools and Services</a></li>
+ </ul>
+ </li>
+ <li class="dropdown">
+ <a href="/download" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Download<span class="caret"></span></a>
+ <ul class="dropdown-menu" role="menu">
+ <li><a href="/download">Which Taverna to use</a></li>
+ <li><a href="/download/workbench">TavernaWorkbench</a></li>
+ <li><a href="/download/language">Taverna's SCUFL2 Language</a></li>
+ <li><a href="/download/command-line-tool">Taverna Command Line</a></li>
+ <li><a href="/download/server">Taverna Server</a></li>
+ <li><a href="/documentation/plugins">Plugins</a></li>
+ <li><a href="/download/code">Source Code</a></li>
+ <li><a href="/download/maven">Maven Repository</a></li>
+ <li><a href="/download/system-requirements">System Requirements</a></li>
+ <li><a href="/download/pre-apache">Taverna 2.x (Pre-Apache)</a></li>
+ </ul>
+ </li>
+ <li class="dropdown">
+ <a href="/community" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Community<span class="caret"></span></a>
+ <ul class="dropdown-menu" role="menu">
+ <li><a href="/community/lists">Mailing Lists</a></li>
+ <li><a href="/community/irc">IRC chat</a></li>
+ <li><a href="/community#contribute">Contribute</a></li>
+ <li><a href="/community#reportbugs">Report a Bug</a></li>
+ <li><a href="/community/edit">Edit website</a></li>
+ </ul>
+ </li>
+ </ul>
+
+ <form >
+
+
+ <!--<input type="submit" id="submit" value="Search">-->
+ </form>
+
+ <form class="navbar-form navbar-right" role="search"
+ name="search" id="search" action="http://www.google.com/search" method="get">
+ <input value="taverna.incubator.apache.org" name="sitesearch" type="hidden"/>
+ <div class="form-group input-group">
+ <input type="text" name="q" id="query" placeholder="Search" class="form-control">
+ <span class="input-group-btn">
+ <button type="submit" class="btn btn-default">Search</button>
+ </span>
+ </div>
+ </form>
+
+ <ul class="nav navbar-nav navbar-right">
+ <li class="dropdown">
+ <a href="http://www.apache.org/" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">ASF<span class="caret"></span></a>
+ <ul class="dropdown-menu" role="menu">
+ <li><a href="http://www.apache.org/">Apache Software Foundation</a></li>
+ <li><a href="http://www.apache.org/foundation/how-it-works.html">How it works</a></li>
+ <li><a href="http://www.apache.org/foundation/thanks.html">Thanks</a></li>
+ <li><a href="http://www.apache.org/foundation/sponsorship.html">Become a Sponsor</a></li>
+ <li><a href="http://incubator.apache.org/projects/taverna.html">Taverna Incubation Status</a></li>
+ </ul>
+ </li>
+ </ul>
+ </div><!--/.nav-collapse -->
+ </div><!--/.container-->
+ </nav>
+
+
+ <div id="page" class="container">
+ <h1>Scufl2-Processors</h1>
+ <div class="alert alert-info" role="alert"><p><span class="glyphicon glyphicon-info-sign" aria-hidden="true"></span>
+
+Taverna is transitioning to the Apache Incubator.
+This webpage reflects material not yet released under Apache Incubator.
+Instead it shows <a class="alert-link" href="http://www.taverna.org.uk/">taverna2</a> material that is expected to become part of the Apache Incubator project in the future.
+</div>
+
+
+ <div id="content"><p>The definition of a processor.</p>
+<ul>
+<li>Bundle path: <code>/workflow/\$workflowName.n3</code></li>
+</ul>
+<p>Processors should be described in the same file as their containing
+ <a href="/documentation/scufl2/workflow">workflow</a>.</p>
+<h2 id="identifier">Identifier</h2>
+<p>Each processor <strong>must</strong> have a <strong>scufl2:name</strong>, which uniquely identifies this processor within its owning workflow.</p>
+<p>Processors are globally identified as
+ <code><http://ns.taverna.org.uk/2010/researchObject/$researchId/workflow/$workflowName/processor/$processorName/></code> -
+ for instance<br />
+<code><http://ns.taverna.org.uk/2010/researchObject/28f7c554-4f35-401f-b34b-516e9a0ef731/workflow/Helloworld/processor/Hello/></code>.</p>
+<p>Within the workflow bundle the processors should be linked to relatively, for instance <code><processor/Hello></code>
+ within a workflow file, or <code><workflow/Helloworld/processor/Hello></code> within a profile file.</p>
+<h2 id="example">Example</h2>
+<p>workflow/Helloworld.n3: (Outdated)</p>
+<div class="codehilite"><pre><span class="p">@</span><span class="n">base</span> <span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">workflow</span><span class="o">/</span><span class="n">Helloworld</span><span class="o">/&</span><span class="n">gt</span><span class="p">;</span>
+<span class="p">@</span><span class="n">prefix</span> <span class="n">scufl2</span><span class="p">:</span> <span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">http</span><span class="p">:</span><span class="o">//</span><span class="n">ns</span><span class="p">.</span><span class="n">taverna</span><span class="p">.</span><span class="n">org</span><span class="p">.</span><span class="n">uk</span><span class="o">/</span>2010<span class="o">/</span><span class="n">scufl2</span><span class="o">/</span><span class="n">ontology</span><span class="o">/&</span><span class="n">gt</span><span class="p">;</span> <span class="p">.</span>
+
+<span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">processor</span><span class="o">/</span><span class="n">Hello</span><span class="o">&</span><span class="n">gt</span><span class="p">;</span> <span class="n">a</span> <span class="n">scufl2</span><span class="p">:</span><span class="n">Processor</span> <span class="p">;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">name</span> <span class="o">&</span><span class="n">quot</span><span class="p">;</span><span class="n">Hello</span><span class="o">&</span><span class="n">quot</span><span class="p">;</span> <span class="p">;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">inputProcessorPort</span> <span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">processor</span><span class="o">/</span><span class="n">Hello</span><span class="o">/</span><span class="n">in</span><span class="o">/</span><span class="n">name</span><span class="o">&</span><span class="n">gt</span><span class="p">;</span> <span class="p">;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">outputProcessorPort</span> <span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">processor</span><span class="o">/</span><span class="n">Hello</span><span class="o">/</span><span class="n">out</span><span class="o">/</span><span class="n">greeting</span><span class="o">&</span><span class="n">gt</span><span class="p">;</span> <span class="p">;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">dispatchStack</span> <span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">http</span><span class="p">:</span><span class="o">//</span><span class="n">ns</span><span class="p">.</span><span class="n">taverna</span><span class="p">.</span><span class="n">org</span><span class="p">.</span><span class="n">uk</span><span class="o">/</span>2010<span class="o">/</span><span class="n">scufl2</span><span class="o">/</span><span class="n">taverna</span>#<span class="n">defaultDispatchStack</span><span class="o">&</span><span class="n">gt</span><span class="p">;</span> <span class="p">;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">iterationStrategyStack</span> <span class="p">(</span><span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">processor</span><span class="o">/</span><span class="n">Hello</span><span class="o">/</span><span class="n">iterationStrategy</span><span class="o">/</span>0<span class="o">&</span><span class="n">gt</span><span class="p">;)</span> <span class="p">.</span>
+
+<span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">processor</span><span class="o">/</span><span class="n">Hello</span><span class="o">/</span><span class="n">in</span><span class="o">/</span><span class="n">name</span><span class="o">&</span><span class="n">gt</span><span class="p">;</span> <span class="n">a</span> <span class="n">scufl2</span><span class="p">:</span><span class="n">InputProcessorPort</span> <span class="p">;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">name</span> <span class="o">&</span><span class="n">quot</span><span class="p">;</span><span class="n">name</span><span class="o">&</span><span class="n">quot</span><span class="p">;;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">portDepth</span> 0 <span class="p">;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">granularPortDepth</span> 0 <span class="p">.</span>
+
+<span class="o">&</span><span class="n">lt</span><span class="p">;</span><span class="n">processor</span><span class="o">/</span><span class="n">Hello</span><span class="o">/</span><span class="n">out</span><span class="o">/</span><span class="n">greeting</span><span class="o">&</span><span class="n">gt</span><span class="p">;</span> <span class="n">a</span> <span class="n">scufl2</span><span class="p">:</span><span class="n">OutputProcessorPort</span> <span class="p">;</span>
+ <span class="n">scufl2</span><span class="p">:</span><span class="n">name</span> <span class="o">&</span><span class="n">quot</span><span class="p">;</span><span class="n">greeting</span><span class="o">&</span><span class="n">quot</span><span class="p">;</span> <span class="p">.</span>
+<span class="p">]]</span><span class="o">></span>
+</pre></div>
+
+
+<p>This example defines the processor "Hello" in the workflow "Helloworld".
+It contains one processor input port "name" and one processor output port "greeting".
+Additionally the processor has a dispatch stack and an iteration strategy stack.</p>
+<p>The nested resources for this workflow, such as InputProcessorPort, OutputProcessorPort, DispatchStack,
+ IterationStrategyStack and their children <strong>should</strong> be described in the same file as owning workflow itself.
+Additional metadata should be added to an <code>/annotations/</code> file.</p>
+<h2 id="properties">Properties</h2>
+<ul>
+<li><strong>scufl2:name</strong> (required) gives the programmatic short-name for this processor within this particular workflow.
+ This must be unique among the other processors.</li>
+<li><strong>scufl2:inputProcessorPort</strong> (optional) All processor input ports defined for this processor.</li>
+<li><strong>scufl2:outputProcessorPort</strong> (optional) All processor output ports defined for this processor.</li>
+<li><strong>scufl2:dispatchStack</strong> (optional) The dispatch stack for this processor.</li>
+<li><strong>scufl2:iterationStrategyStack</strong> (optional) The IterationStrategyStack, required if more than 1 input is connected</li>
+</ul>
+<h2 id="bundle-linkswzxhzdk1">Bundle links</h2></h2>
+<p>All nested processor resources should also be defined in the same archive file as this workflow.
+Their URIs <strong>must</strong> be relative to this processor, their type and <strong>scufl2:name</strong>.
+So for instance <processor/Hello/out/greeting> is a <strong>scufl2:OutputProcessorPort</strong> in <processor/Hello>,
+ and has a <strong>scufl2:name</strong> "greeting".</p></div>
+
+ </div>
+
+ <footer class="footer">
+ <div class="container">
+ <p id="copyright" class="text-muted">
+ Copyright © 2014-2015 The Apache Software Foundation, Licensed under the
+ <a href="http://www.apache.org/licenses/LICENSE-2.0">Apache License, Version 2.0</a>.
+ Apache and the Apache feather logo are trademarks of The Apache Software Foundation.
+ </p>
+ </div>
+ </footer>
+
+
+
+ <script src="/lib/jquery/jquery-1.11.1.min.js"></script>
+<script src="/lib/bootstrap/js/bootstrap.min.js"></script>
+
+<script>
+ jQuery(function($) {
+ if($(window).width()>769){
+ $('.navbar .dropdown').hover(function() {
+ $(this).find('.dropdown-menu').first().stop(true, true).delay(250).slideDown();
+
+ }, function() {
+ $(this).find('.dropdown-menu').first().stop(true, true).delay(100).slideUp();
+
+ });
+
+ $('.navbar .dropdown > a').click(function(){
+ location.href = this.href;
+ });
+
+ }
+ });
+</script>
+
+
+ </body>
+</html>
\ No newline at end of file