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* Completely new design for BioRuby shell on Rails translated from
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  the 'DibdoltRed' theme on www.openwebdesign.org which is created by
  Darjan Panic and Brian Green as a public domain work.
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@ktym
ktym committed Jul 9, 2007
1 parent 333fc51 commit 7c15b25
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Showing 12 changed files with 181 additions and 64 deletions.
2 changes: 2 additions & 0 deletions lib/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/bioruby_generator.rb
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Expand Up @@ -20,6 +20,8 @@ def manifest
m.file 'bioruby.rhtml', 'app/views/layouts/bioruby.rhtml'
m.file 'bioruby.png', 'public/images/bioruby.png'
m.file 'bioruby.gif', 'public/images/bioruby.gif'
m.file 'bg.gif', 'public/images/bg.gif'
m.file 'console.png', 'public/images/console.png'
m.file 'bioruby.css', 'public/stylesheets/bioruby.css'
end
end
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2 changes: 2 additions & 0 deletions lib/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates/_classes.rhtml
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@@ -1,2 +1,4 @@
[ <%= @class %> ]
<div id="class_list">
<%= @classes.map{ |x| reference_link(x) }.join(" > ") %>
</div>
1 change: 0 additions & 1 deletion lib/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates/_log.rhtml
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@@ -1,5 +1,4 @@
<div id="log_<%= @number %>" class="log">
<hr class="log">
<div class="input">
Input: [<%= link_to_remote @number, :url => {:action => "reload_script", :number => @number} %>]
<pre class="script">
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8 changes: 5 additions & 3 deletions lib/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates/_methods.rhtml
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@@ -1,9 +1,11 @@
[ <%= @class %> ]
<table id="list_methods">
<div id="method_list">
<table>
<tr>
<%- step = @methods.size / 4 + 1 -%>
<%- 0.step(@methods.size, step) do |i| -%>
<td><%= @methods.sort[i, step].join("<br>") %></td>
<td><%= @methods[i, step].join("<br>") %></td>
<%- end -%>
</tr>
</table>
</table>
</div>
4 changes: 3 additions & 1 deletion lib/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates/_modules.rhtml
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@@ -1,2 +1,4 @@
[ <%= @class %> ]
<%= @modules.map {|x| reference_link(x) }.join(" | ") %>
<div id="module_list">
<%= @modules.map {|x| reference_link(x) }.sort.join("<br>") %>
</div>
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148 changes: 130 additions & 18 deletions lib/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates/bioruby.css
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@@ -1,15 +1,57 @@
/* body */

body {
color: #6e8377;
background-color: #ffffff;
font-family: verdana, arial, helvetica, sans-serif;
margin: 0;
color: #555555;
background: url("/images/bg.gif") repeat-y center;
font-family: "trebuchet ms", verdana, arial, helvetica, sans-serif;
font-size: 12px;
}

div#content {
width: 750px;
height: auto;
margin: 0 auto 0 auto;
text-align: left;
}

/* title */

div#title {
width: 550px;
padding-right: 200px;
margin-bottom: 20px;
text-align: left;
background: url("/images/bioruby.png") no-repeat left bottom;
}

div#title .titletop {
color: #736451;
font-size: 30px;
font-weight: normal;
text-align: left;
text-indent: 70px;
margin: 0;
padding: 0;
padding-top: 20px;
margin-bottom: 10px;
}

div#title .titlesub {
color: #000000;
font-size: 15px;
font-weight: normal;
text-align: left;
text-indent: 70px;
margin: 0;
padding: 0;
border-bottom: 1px solid #eeeeee;
}

/* main */

div#main {
width: 700px;
width: 550px;
background-color: #ffffff;
padding-top: 0px;
padding-left: 10px;
Expand All @@ -19,6 +61,7 @@ div#notice {
background-color: #fcc;
border: 1px solid #f00;
}

div#notice p {
margin: 0;
padding: 10px;
Expand All @@ -31,9 +74,17 @@ pre {
border-style: dashed;
border-width: 1px;
padding: 5px;
width: 500px;
overflow: auto;
}

div.log {
width: 500px;
margin-top: 15px;
padding-top: 5px;
border-top: 1px dotted #333333;
}

div.log div.input pre.script {
background-color: #ffffeb;
border-style: solid;
Expand Down Expand Up @@ -65,25 +116,55 @@ div.log div.output pre.output {
border-style: dashed;
}

div.log hr.result {
div.log hr.log {
border-style: dotted none none none;
border-top-width: 1px;
border-color: #6e8377;
width: 200px;
height: 1px;
}

/* side */

div#side {
width: 150px;
background-color: #ffffff;
position: absolute;
top: 10px;
left: 10px;
float: right;
margin-top: 20px;
text-align: left;
font-size: 12px;
color: #e44268;
}

div#side div.title {
font-weight: normal;
color: #e44268;
text-align: left;
border-width: 0px 0px 1px 0px;
border-bottom: 1px solid #e44268;
}

div#side a:link {
color: #ffffff;
text-decoration: none;
}

div#side a:visited {
color: #ffffff;
text-decoration: none;
}

div#side a:hover {
color: #cccccc;
text-decoration: underline;
}

div#side ol,ul {
margin: 10px;
padding-left: 10px;
}

div#side li {
color: #e44268;
}

div#side img {
Expand All @@ -92,7 +173,8 @@ div#side img {

/* history */

div#history {
div#history {
width: 500px;
}

div#history div.histtime {
Expand All @@ -107,13 +189,20 @@ div#history div.histline {
white-space: pre;
}

/* command */

div#command {
width: 500px;
}

/* image */

img {
/* centering */
display: block;
margin-left: auto;
margin-right: auto;
border: 0px;
}

/* em */
Expand Down Expand Up @@ -207,11 +296,6 @@ table {
border-collapse: collapse;
}

table#list_methods {
width: 680px;
border: none;
}

th {
vertical-align: top;
padding: 5px;
Expand All @@ -222,14 +306,42 @@ td {
padding: 5px;
}

div#method_list table {
border: none;
}


/* form */

input {
background-color: #FFFFFF;
padding: 2px;
font-size: 10px;
color: #666666;
border: 1px solid #611022;
margin-bottom: 2px;
}

input[type=submit] {
background-color: #FFFFFF;
padding: 2px;
font-size: 10px;
color: #ffffff;
border: 1px solid #611022;
background-color: #E44268;
margin-bottom: 2px;
}

/* textarea */

textarea {
background: url("/images/console.png") no-repeat center;
background-color: #eaedeb;
font-family: monospace;
font-size: 100%;
font-size: 12px;
overflow: auto;
width: 80%;
width: 500px;
padding: 5px;
}


Expand All @@ -251,7 +363,7 @@ blockquote {
}

@media screen {
div#main { margin-left: 150px; }
div#main { margin-left: 0px; }
div#side { display: block; }
}

54 changes: 30 additions & 24 deletions lib/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates/bioruby.rhtml
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@@ -1,41 +1,47 @@
<html>
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
<title>BioRuby shell on Rails</title>
<%= stylesheet_link_tag "bioruby.css" %>
<%= javascript_include_tag :defaults %>
</head>
<body>

<div id="side">
<img src="/images/bioruby.png">
<br>

<div class="title">Project</div>
<ul>
<li><%= link_to "#{File.basename(project_workdir)}", "file://#{project_workdir}" %>
</ul>
<body>

<div class="title">Functions</div>
<ul>
<li><%= link_to "Console", :action => "index" %></li>
<li><%= link_to "History", :action => "history" %></li>
<li><%= link_to "Commands", :action => "commands" %></li>
</ul>
<div id="content">

<div class="title">Local variables</div>
<%= render :partial => "variables" %>
<div id="side">
<div class="title">Project</div>
<ul>
<li><%= link_to "#{File.basename(project_workdir)}", "file://#{project_workdir}" %>
</ul>

<br>
<a href="http://bioruby.org/"><img src="/images/bioruby.gif" border=0></a>
</div>
<div class="title">Functions</div>
<ul>
<li><%= link_to "Console", :action => "index" %></li>
<li><%= link_to "History", :action => "history" %></li>
<li><%= link_to "Commands", :action => "commands" %></li>
</ul>

<div class="title">Local variables</div>
<%= render :partial => "variables" %>

<div id="main">
<br>
<a href="http://bioruby.org/"><img src="/images/bioruby.gif" border=0></a>
</div><!-- side -->

<h1>BioRuby shell on Rails</h1>
<div id="title">
<p class="titletop">BioRuby shell on Rails</p>
<p class="titlesub">Web interface for the BioRuby library</p>
</div><!-- title -->

<div id="main">
<%= yield %>
</div><!-- main -->

</div>
</div><!-- content -->

</body>

</html>
13 changes: 2 additions & 11 deletions ...bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates/bioruby_controller.rb
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Expand Up @@ -3,16 +3,7 @@ class BiorubyController < ApplicationController
HIDE_METHODS = Object.methods + [ "singleton_method_added" ]

HIDE_MODULES = [
ActiveSupport::CoreExtensions::String::Iterators,
ActiveSupport::CoreExtensions::String::StartsEndsWith,
ActiveSupport::CoreExtensions::String::Inflections,
ActiveSupport::CoreExtensions::String::Conversions,
ActiveSupport::CoreExtensions::String::Access,
ActiveSupport::CoreExtensions::String::Unicode,
ActiveSupport::CoreExtensions::Numeric::Bytes,
ActiveSupport::CoreExtensions::Numeric::Time,
Base64::Deprecated, Base64, PP::ObjectMixin,
Bio::Shell
Base64::Deprecated, Base64, PP::ObjectMixin, Bio::Shell,
]
HIDE_MODULES << WEBrick if defined?(WEBrick)

Expand Down Expand Up @@ -62,7 +53,7 @@ def list_methods

script, result, output = Bio::Shell.cache[:results].restore(number)
@class = result.class
@methods = result.methods - HIDE_METHODS
@methods = (result.methods - HIDE_METHODS).sort

render :update do |page|
page.replace_html "methods_#{number}", :partial => "methods"
Expand Down
3 changes: 2 additions & 1 deletion lib/bio/shell/rails/vendor/plugins/bioruby/generators/bioruby/templates/commands.rhtml
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@@ -1,7 +1,8 @@
<div id="command">
<h2>BioRuby shell commands</h2>
<ul>
<% @bioruby_commands.each do |cmd| %>
<li><%= cmd %></li>
<% end %>
</ul>

</div>
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