rbbt-views 1.0.0 → 1.0.1
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- data/lib/rbbt/workflow/rest.rb +150 -7
- data/lib/rbbt/workflow/rest/auth.rb +4 -4
- data/lib/rbbt/workflow/rest/entity.rb +115 -17
- data/lib/rbbt/workflow/rest/helpers.rb +49 -0
- data/lib/rbbt/workflow/rest/render.rb +64 -73
- data/lib/rbbt/workflow/rest/util.rb +124 -11
- data/share/views/compass/form.sass +0 -1
- data/share/views/compass/layout.sass +93 -2
- data/share/views/edit_list.haml +39 -0
- data/share/views/entity/GenomicMutation.haml +11 -1
- data/share/views/entity/KeggPathway.haml +4 -2
- data/share/views/entity/MutatedIsoform.haml +5 -33
- data/share/views/entity/MutatedIsoform/marked_svg.haml +3 -0
- data/share/views/entity/MutatedIsoform/pdbs.haml +33 -0
- data/share/views/entity/NCIBioCartaPathway.haml +11 -0
- data/share/views/entity/NCINaturePathway.haml +11 -0
- data/share/views/entity/NCIReactomePathway.haml +11 -0
- data/share/views/entity/Protein.haml +5 -0
- data/share/views/entity_list/Default.haml +1 -10
- data/share/views/js/app.js +336 -39
- data/share/views/layout.haml +20 -1
- data/share/views/partials/_form.haml +3 -1
- data/share/views/partials/_result_table.haml +4 -1
- data/share/views/public/plugins/jquery/js/jquery.cookie.js +47 -0
- data/share/views/user_lists.haml +10 -0
- metadata +14 -10
- data/share/views/entity/NCIBioCartaPathways.haml +0 -9
- data/share/views/entity/NCINaturePathways.haml +0 -9
- data/share/views/entity/NCIReactomePathways.haml +0 -9
data/share/views/layout.haml
CHANGED
@@ -9,7 +9,7 @@
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- if defined? step and Step === step
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- title = "#{step.task.name} [#{step.status}]"
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- else
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-
- title = "Workflow Explorer"
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+
- title = $title || "Workflow Explorer"
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%title
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= title
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%link{:rel => "shortcut icon", :type => "image/png", :href => "/favicon.gif"}/
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@@ -24,6 +24,7 @@
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%script{:src => '/plugins/jquery/js/jquery-1.6.2.min.js', :type => 'text/javascript'}
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%script{:src => '/plugins/jquery/js/jquery.form.js', :type => 'text/javascript'}
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+
%script{:src => '/plugins/jquery/js/jquery.cookie.js', :type => 'text/javascript'}
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%script{:src => '/plugins/jmol/Jmol.js', :type => 'text/javascript'}
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-# %link{:href=>"/plugins/jquery-ui/css/custom-theme/jquery-ui-1.8.14.custom.css", :rel=>"stylesheet", :type=>"text/css"}/
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@@ -43,6 +44,8 @@
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- else
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Not logged in
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%a(href="/login") login
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+
%span.list_dropdown
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+
%a(href='#lists') Loaded Entity Lists
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- unless $nomenu
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#menu
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@@ -77,6 +80,8 @@
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%a.button(href="#" id="back_details") back
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#details
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+
#lists
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+
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:javascript
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$('h3.workflow_title').click(function(){
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@@ -93,3 +98,17 @@
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$('#back_details').click(back_details);
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var details_history = [];
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+
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$('span.list_dropdown > a').click(function(){ $('#lists').toggle(); return false})
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var _saved_lists = saved_lists();
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if (_saved_lists == null){ _saved_lists = []; }
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+
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update_list_viewer();
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$.each(_saved_lists, function(type, lists){
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$.each(lists, function(id, list){
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add_entity_list(type, list)
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})
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})
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@@ -9,6 +9,7 @@
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- action ||= ''
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- klass ||= ''
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- enctype = method == 'post' ? "multipart/form-data" : ""
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- id ||= ""
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%form(class=klass action=action method=method id=id enctype=enctype)
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- if inputs.empty?
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@@ -20,8 +21,9 @@
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- default = input_defaults[name]
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- value = values[name] || default
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- description = input_descriptions[name]
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- select_options = defined?(input_options)? input_options[name] : nil
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- hide = hide_inputs.include? name
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-
= input(input_type, name, :id => input_id, :value => value, :default => default, :description => description, :default => default, :hide => hide)
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= input(input_type, name, :id => input_id, :value => value, :default => default, :description => description, :select_options => select_options, :default => default, :hide => hide)
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%div.submit_job
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- if jobname
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@@ -6,8 +6,11 @@
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- header = result.fields
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- else
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- header = result.all_fields
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-
-
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+
- case
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- when rows.type == :single
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- rows = rows.collect{|k,v| [k, NamedArray.setup([k].push(v), header, k, result.namespace)]}
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- when rows.type == :flat
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- rows = rows.collect{|k,v| [k, NamedArray.setup([k].push([v]), header, k, result.namespace)]}
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- else
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- rows = rows.collect{|k,v| [k, NamedArray.setup([k].concat(v), header, k, result.namespace)]}
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@@ -0,0 +1,47 @@
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/**
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* jQuery Cookie plugin
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*
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* Copyright (c) 2010 Klaus Hartl (stilbuero.de)
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* Dual licensed under the MIT and GPL licenses:
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* http://www.opensource.org/licenses/mit-license.php
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* http://www.gnu.org/licenses/gpl.html
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*
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*/
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(function($) {
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$.cookie = function(key, value, options) {
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// key and at least value given, set cookie...
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if (arguments.length > 1 && (!/Object/.test(Object.prototype.toString.call(value)) || value === null || value === undefined)) {
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options = $.extend({}, options);
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if (value === null || value === undefined) {
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options.expires = -1;
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}
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if (typeof options.expires === 'number') {
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var days = options.expires, t = options.expires = new Date();
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t.setDate(t.getDate() + days);
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}
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value = String(value);
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return (document.cookie = [
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encodeURIComponent(key), '=', options.raw ? value : encodeURIComponent(value),
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options.expires ? '; expires=' + options.expires.toUTCString() : '', // use expires attribute, max-age is not supported by IE
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options.path ? '; path=' + options.path : '',
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options.domain ? '; domain=' + options.domain : '',
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options.secure ? '; secure' : ''
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].join(''));
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}
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// key and possibly options given, get cookie...
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options = value || {};
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var decode = options.raw ? function(s) { return s; } : decodeURIComponent;
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var pairs = document.cookie.split('; ');
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for (var i = 0, pair; pair = pairs[i] && pairs[i].split('='); i++) {
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if (decode(pair[0]) === key) return decode(pair[1] || ''); // IE saves cookies with empty string as "c; ", e.g. without "=" as opposed to EOMB, thus pair[1] may be undefined
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}
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return null;
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};
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})(jQuery);
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metadata
CHANGED
@@ -1,13 +1,13 @@
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--- !ruby/object:Gem::Specification
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name: rbbt-views
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version: !ruby/object:Gem::Version
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-
hash:
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hash: 21
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prerelease:
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segments:
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- 1
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- 0
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-
-
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version: 1.0.
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- 1
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version: 1.0.1
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platform: ruby
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authors:
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- Miguel Vazquez
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@@ -15,8 +15,7 @@ autorequire:
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bindir: bin
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cert_chain: []
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date: 2012-01-
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default_executable:
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date: 2012-01-31 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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@@ -127,15 +126,19 @@ files:
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- share/views/compass/main.sass
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- share/views/compass/screen.sass
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- share/views/dependencies.haml
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+
- share/views/edit_list.haml
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- share/views/entity/GOTerm.haml
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- share/views/entity/Gene.haml
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- share/views/entity/GenomicMutation.haml
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- share/views/entity/KeggPathway.haml
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- share/views/entity/MutatedIsoform.haml
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-
- share/views/entity/
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- share/views/entity/
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-
- share/views/entity/
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- share/views/entity/MutatedIsoform/marked_svg.haml
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- share/views/entity/MutatedIsoform/pdbs.haml
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- share/views/entity/NCIBioCartaPathway.haml
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- share/views/entity/NCINaturePathway.haml
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- share/views/entity/NCIReactomePathway.haml
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- share/views/entity/PfamDomain.haml
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- share/views/entity/Protein.haml
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- share/views/entity_list/Default.haml
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- share/views/error.haml
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- share/views/files.haml
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@@ -787,14 +790,15 @@ files:
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- share/views/public/plugins/jquery-ui/js/jquery-1.5.1.min.js
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- share/views/public/plugins/jquery-ui/js/jquery-ui-1.8.14.custom.min.js
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- share/views/public/plugins/jquery/js/jquery-1.6.2.min.js
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- share/views/public/plugins/jquery/js/jquery.cookie.js
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- share/views/public/plugins/jquery/js/jquery.form.js
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- share/views/result.haml
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- share/views/task_list.haml
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- share/views/user_lists.haml
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- share/views/wait.haml
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- LICENSE
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- test/test_helper.rb
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- test/rbbt/workflow/rest/test_client.rb
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has_rdoc: true
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homepage: http://github.com/mikisvaz/rbbt-views
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licenses: []
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@@ -824,7 +828,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
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requirements: []
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rubyforge_project:
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rubygems_version: 1.
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rubygems_version: 1.8.10
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signing_key:
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specification_version: 3
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summary: Rest and HTML interface
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