t2-web 0.1.1 → 0.1.2
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- data/CHANGES +3 -1
- data/README +3 -3
- data/Rakefile +1 -1
- data/bin/t2_webapp.rb +5 -5
- data/public/{css → t2web/css}/form.css +0 -0
- data/public/t2web/css/results.css +29 -0
- data/public/{css → t2web/css}/results_header.css +0 -0
- data/public/{css → t2web/css}/results_navigation.css +0 -0
- data/public/{css → t2web/css}/tipsy.css +0 -0
- data/public/{images → t2web/images}/bullet_go.png +0 -0
- data/public/{images → t2web/images}/lumc_logo2.png +0 -0
- data/public/{images → t2web/images}/nbic_logo.gif +0 -0
- data/public/{images → t2web/images}/snake_transparent.gif +0 -0
- data/public/{images → t2web/images}/tipsy.gif +0 -0
- data/public/{scripts → t2web/scripts}/form.js +0 -0
- data/public/{scripts → t2web/scripts}/jquery-1.6.1.js +0 -0
- data/public/{scripts → t2web/scripts}/jquery.tipsy.js +0 -0
- data/public/{scripts → t2web/scripts}/results.js +0 -0
- data/views/form.haml +9 -9
- data/views/results.haml +3 -3
- metadata +19 -112
- data/doc/classes/WebT2App.html +0 -1123
- data/doc/classes/WebT2App.src/M000001.html +0 -18
- data/doc/classes/WebT2App.src/M000002.html +0 -25
- data/doc/classes/WebT2App.src/M000003.html +0 -22
- data/doc/classes/WebT2App.src/M000004.html +0 -18
- data/doc/classes/WebT2App.src/M000005.html +0 -18
- data/doc/classes/WebT2App.src/M000006.html +0 -18
- data/doc/classes/WebT2App.src/M000007.html +0 -18
- data/doc/classes/WebT2App.src/M000008.html +0 -32
- data/doc/classes/WebT2App.src/M000009.html +0 -27
- data/doc/classes/WebT2App.src/M000010.html +0 -18
- data/doc/classes/WebT2App.src/M000011.html +0 -21
- data/doc/classes/WebT2App.src/M000012.html +0 -25
- data/doc/classes/WebT2App.src/M000013.html +0 -22
- data/doc/classes/WebT2App.src/M000014.html +0 -23
- data/doc/classes/WebT2App.src/M000015.html +0 -32
- data/doc/classes/WebT2App.src/M000016.html +0 -27
- data/doc/classes/WebT2App.src/M000017.html +0 -18
- data/doc/classes/WebT2App.src/M000018.html +0 -25
- data/doc/classes/WebT2App.src/M000019.html +0 -22
- data/doc/classes/WebT2App.src/M000020.html +0 -18
- data/doc/classes/WebT2App.src/M000021.html +0 -18
- data/doc/classes/WebT2App.src/M000022.html +0 -18
- data/doc/classes/WebT2App.src/M000023.html +0 -18
- data/doc/classes/WebT2App.src/M000024.html +0 -32
- data/doc/classes/WebT2App.src/M000025.html +0 -27
- data/doc/classes/WebT2App.src/M000026.html +0 -18
- data/doc/classes/WebT2App.src/M000027.html +0 -21
- data/doc/classes/WebT2App.src/M000028.html +0 -25
- data/doc/classes/WebT2App.src/M000029.html +0 -22
- data/doc/classes/WebT2App.src/M000030.html +0 -23
- data/doc/classes/WebT2App.src/M000031.html +0 -32
- data/doc/classes/WebT2App.src/M000032.html +0 -27
- data/doc/classes/WebT2App.src/M000033.html +0 -18
- data/doc/classes/WebT2App.src/M000034.html +0 -25
- data/doc/classes/WebT2App.src/M000035.html +0 -22
- data/doc/classes/WebT2App.src/M000036.html +0 -18
- data/doc/classes/WebT2App.src/M000037.html +0 -18
- data/doc/classes/WebT2App.src/M000038.html +0 -18
- data/doc/classes/WebT2App.src/M000039.html +0 -18
- data/doc/classes/WebT2App.src/M000040.html +0 -32
- data/doc/classes/WebT2App.src/M000041.html +0 -27
- data/doc/classes/WebT2App.src/M000042.html +0 -18
- data/doc/classes/WebT2App.src/M000043.html +0 -25
- data/doc/classes/WebT2App.src/M000044.html +0 -22
- data/doc/classes/WebT2App.src/M000045.html +0 -18
- data/doc/classes/WebT2App.src/M000046.html +0 -18
- data/doc/classes/WebT2App.src/M000047.html +0 -18
- data/doc/classes/WebT2App.src/M000048.html +0 -18
- data/doc/classes/WebT2App.src/M000049.html +0 -32
- data/doc/classes/WebT2App.src/M000050.html +0 -27
- data/doc/created.rid +0 -1
- data/doc/files/bin/t2_webapp_rb.html +0 -115
- data/doc/files/pkg/t2-web-0_0_2/bin/web_t2_service_rb.html +0 -114
- data/doc/files/pkg/t2-web-0_0_3/bin/t2_webapp_rb.html +0 -115
- data/doc/files/pkg/t2-web-0_0_3/bin/web_t2_service_rb.html +0 -114
- data/doc/files/pkg/t2-web-0_0_4/bin/t2_webapp_rb.html +0 -115
- data/doc/files/pkg/t2-web-0_0_5/bin/t2_webapp_rb.html +0 -115
- data/doc/fr_class_index.html +0 -27
- data/doc/fr_file_index.html +0 -32
- data/doc/fr_method_index.html +0 -76
- data/doc/index.html +0 -24
- data/doc/rdoc/CHANGES.html +0 -170
- data/doc/rdoc/LICENSE.html +0 -111
- data/doc/rdoc/README.html +0 -142
- data/doc/rdoc/created.rid +0 -4
- data/doc/rdoc/images/brick.png +0 -0
- data/doc/rdoc/images/brick_link.png +0 -0
- data/doc/rdoc/images/bug.png +0 -0
- data/doc/rdoc/images/bullet_black.png +0 -0
- data/doc/rdoc/images/bullet_toggle_minus.png +0 -0
- data/doc/rdoc/images/bullet_toggle_plus.png +0 -0
- data/doc/rdoc/images/date.png +0 -0
- data/doc/rdoc/images/find.png +0 -0
- data/doc/rdoc/images/loadingAnimation.gif +0 -0
- data/doc/rdoc/images/macFFBgHack.png +0 -0
- data/doc/rdoc/images/package.png +0 -0
- data/doc/rdoc/images/page_green.png +0 -0
- data/doc/rdoc/images/page_white_text.png +0 -0
- data/doc/rdoc/images/page_white_width.png +0 -0
- data/doc/rdoc/images/plugin.png +0 -0
- data/doc/rdoc/images/ruby.png +0 -0
- data/doc/rdoc/images/tag_green.png +0 -0
- data/doc/rdoc/images/wrench.png +0 -0
- data/doc/rdoc/images/wrench_orange.png +0 -0
- data/doc/rdoc/images/zoom.png +0 -0
- data/doc/rdoc/index.html +0 -115
- data/doc/rdoc/js/darkfish.js +0 -116
- data/doc/rdoc/js/jquery.js +0 -32
- data/doc/rdoc/js/quicksearch.js +0 -114
- data/doc/rdoc/js/thickbox-compressed.js +0 -10
- data/doc/rdoc/rdoc.css +0 -763
- data/doc/rdoc-style.css +0 -208
- data/public/images/info.png +0 -0
data/CHANGES
CHANGED
@@ -1,7 +1,9 @@
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= Changes log for the Taverna via the Web Gem
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== Version 0.1.2
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* Moved everything in /public into /public/t2web to be able to redirect from apache et al.
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== Version 0.1.1
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-
* Added config.ru to gem
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* Removed t2_webap from executables
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== Version 0.1.0
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data/README
CHANGED
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Authors:: Konstantinos Karasavvas
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-
Gem Version:: 0.1.
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+
Gem Version:: 0.1.2
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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) 2012 Netherlands Bioinformatics Centre, The Netherlands
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@@ -23,9 +23,9 @@ description provided in the workflow itself in myExperiment.
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== Usage
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-
rackup -p 9494
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+
rackup -p 9494
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-
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Run the above from the webapp's root directory to start the web application at port 9494 and wait for incoming requests. Uses rack's config.ru file.
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data/Rakefile
CHANGED
@@ -12,7 +12,7 @@ require 'rdoc/task'
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spec = Gem::Specification.new do |s|
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s.name = 't2-web'
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-
s.version = '0.1.
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+
s.version = '0.1.2'
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s.extra_rdoc_files = ['README', 'LICENSE', 'CHANGES']
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s.summary = 'Web application that generates a Web UI form for a Taverna2 workflow, given its myExperiment id, for ease of execution. The only requirement for the user is a web browser.'
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s.description = s.summary
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data/bin/t2_webapp.rb
CHANGED
@@ -63,7 +63,7 @@ class WebT2App < Sinatra::Base
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def generate_header_frame(my_exp_wkf, my_exp_usr)
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<<END
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<html>
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-
<head><link href='/css/form.css' rel='stylesheet'/></head>
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+
<head><link href='/t2web/css/form.css' rel='stylesheet'/></head>
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<body>
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#{generate_header_table(my_exp_wkf, my_exp_usr)}
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</body>
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@@ -79,7 +79,7 @@ END
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<table class='header'>
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<tr>
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<td class='left'>
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-
<img alt='NBIC logo' src='/images/nbic_logo.gif' />
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+
<img alt='NBIC logo' src='/t2web/images/nbic_logo.gif' />
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</td>
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<td>
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<table class='header-title'>
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@@ -92,7 +92,7 @@ END
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</table>
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</td>
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<td>
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-
<img alt='LUMC logo' class='right' src='/images/lumc_logo2.png' />
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+
<img alt='LUMC logo' class='right' src='/t2web/images/lumc_logo2.png' />
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</td>
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</tr>
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</table>
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@@ -120,7 +120,7 @@ END
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# Generates the contents of the data-navigation frame
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def generate_data_navigation_frame(my_exp_wkf, uuid, wid, wkf_version, t2_server, finished_execution)
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-
data_navigation_frame = "<html><head><link href='/css/results_navigation.css' rel='stylesheet'/></head><body><table>"
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+
data_navigation_frame = "<html><head><link href='/t2web/css/results_navigation.css' rel='stylesheet'/></head><body><table>"
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if my_exp_wkf.outputs.size >=1
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my_exp_wkf.outputs.each do |output|
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data_navigation_frame << "<tr>"
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@@ -129,7 +129,7 @@ END
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data_navigation_frame << "<td><a href='javascript:void(0);' onclick='parent.readTmpOutput(\\\"#{t2_server}\\\", \\\"#{uuid}\\\", " <<
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"\\\"#{output.name}\\\", \\\"#{wid}\\\", \\\"#{wkf_version}\\\");'>#{output.name}</a></td><td></td>"
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else
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-
data_navigation_frame << "<td>#{output.name}</td><td><img src='/images/snake_transparent.gif' alt='Loading Content...'></td>"
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+
data_navigation_frame << "<td>#{output.name}</td><td><img src='/t2web/images/snake_transparent.gif' alt='Loading Content...'></td>"
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end
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data_navigation_frame << "</tr>"
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end
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File without changes
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@@ -0,0 +1,29 @@
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body{
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background-color: mintcream;
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}
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#header{
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text-align: center;
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margin: 0px;
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height: 50px;
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border-bottom: blue 2px solid;
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}
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#results{
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position: relative;
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height: 100%;
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}
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#data-navigation{
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float: left;
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padding-left: 1em;
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padding-top: 1em;
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width: 10em;
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height: 100%;
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}
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#data-display{
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margin-left: 11em;
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padding-top: 1em;
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text-align: left;
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}
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data/views/form.haml
CHANGED
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%html
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%head
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%title Workflow: #{@my_exp_wkf.title}
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%link(rel="stylesheet" href="/css/form.css")
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-
%link(rel="stylesheet" href="/css/tipsy.css")
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%script{:type => "text/javascript", :src => "/scripts/jquery-1.6.1.js"}
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%script{:type => "text/javascript", :src => "/scripts/jquery.tipsy.js"}
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%script{:type => "text/javascript", :src => "/scripts/form.js"}
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%link(rel="stylesheet" href="/t2web/css/form.css")
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%link(rel="stylesheet" href="/t2web/css/tipsy.css")
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%script{:type => "text/javascript", :src => "/t2web/scripts/jquery-1.6.1.js"}
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%script{:type => "text/javascript", :src => "/t2web/scripts/jquery.tipsy.js"}
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%script{:type => "text/javascript", :src => "/t2web/scripts/form.js"}
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%body
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@@ -106,24 +106,24 @@
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%th.inputs
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%tr
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%td.inputs
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-
%img{:src => "/images/bullet_go.png", :alt => "Important!" }
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%img{:src => "/t2web/images/bullet_go.png", :alt => "Important!" }
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%td.inputs
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Some workflows are not up-to-date or have dependencies that cannot be met by the specific Taverna server that you specified during generation of this tool. You can make sure that the workflow is valid by running it in the Taverna Workbench first to confirm that it works before running it via the Web.
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%tr
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%td.inputs
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%img{:src => "/images/bullet_go.png", :alt => "Important!" }
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+
%img{:src => "/t2web/images/bullet_go.png", :alt => "Important!" }
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%td.inputs
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There might be some repetitions in the workflow description in some of the generated workflows. This is due to a backwards compatibility issue on the myExperiment repository which keeps the old descriptions to make sure that no information is lost.
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%tr
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%td.inputs
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-
%img{:src => "/images/bullet_go.png", :alt => "Important!" }
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+
%img{:src => "/t2web/images/bullet_go.png", :alt => "Important!" }
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%td.inputs
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For more information on this workflow please visit the
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%a{ :href => "http://www.myExperiment.org/workflows/#{@wid}", :target => "_blank" } myExperiment website
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-# if #{@my_exp_wkf.user.email}
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%tr
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%td.inputs
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%img{:src => "/images/bullet_go.png", :alt => "Important!" }
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%img{:src => "/t2web/images/bullet_go.png", :alt => "Important!" }
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%td.inputs
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For questions/comments you can also contact the workflow creator at:
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%a{ :href => "mailto:#{@my_exp_usr.email}" } #{@my_exp_usr.email}
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data/views/results.haml
CHANGED
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%html
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%head
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%title Results:
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%link(rel="stylesheet" href="/css/results.css")
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%script{:type => "text/javascript", :src => "/scripts/jquery-1.6.1.js"}
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%link(rel="stylesheet" href="/t2web/css/results.css")
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%script{:type => "text/javascript", :src => "/t2web/scripts/jquery-1.6.1.js"}
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%script{:type => "text/javascript"}
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:plain
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var runStatusIntervalId = 0;
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runStatusIntervalId = window.setInterval( "checkRunStatus('#{@t2_server}', '#{@run_uuid}')", 5000);
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//checkRunStatus("#{@t2_server}", "#{@run_uuid}");
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});
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-
%script{:type => "text/javascript", :src => "/scripts/results.js"}
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%script{:type => "text/javascript", :src => "/t2web/scripts/results.js"}
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-# we use border for FF and framespacing for IE
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%frameset{ :rows => "113px, *", :border => "1", :framespacing => "1" }
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metadata
CHANGED
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--- !ruby/object:Gem::Specification
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name: t2-web
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version: !ruby/object:Gem::Version
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hash:
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hash: 31
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prerelease:
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segments:
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- 0
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- 1
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version: 0.1.
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- 2
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version: 0.1.2
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platform: ruby
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authors:
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- Kostas Karasavvas
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@@ -15,7 +15,7 @@ autorequire:
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bindir: bin
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cert_chain: []
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date: 2012-04-
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date: 2012-04-12 00:00:00 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: sinatra
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- Rakefile
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- bin/config.ru
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- bin/t2_webapp.rb
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homepage:
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summary: Web application that generates a Web UI form for a Taverna2 workflow, given its myExperiment id, for ease of execution. The only requirement for the user is a web browser.
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