RubyGems - bio-graphics - Versions diffs - 1.0 - Mend

bio-graphics 1.0

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Files changed (63) hide show

data/doc/classes/Bio.html +135 -0
data/doc/classes/Bio/Graphics.html +247 -0
data/doc/classes/Bio/Graphics/Panel.html +344 -0
data/doc/classes/Bio/Graphics/Panel.src/M000005.html +29 -0
data/doc/classes/Bio/Graphics/Panel.src/M000006.html +19 -0
data/doc/classes/Bio/Graphics/Panel.src/M000007.html +67 -0
data/doc/classes/Bio/Graphics/Panel/Ruler.html +238 -0
data/doc/classes/Bio/Graphics/Panel/Ruler.src/M000008.html +20 -0
data/doc/classes/Bio/Graphics/Panel/Ruler.src/M000009.html +28 -0
data/doc/classes/Bio/Graphics/Panel/Ruler.src/M000010.html +54 -0
data/doc/classes/Bio/Graphics/Panel/Ruler.src/M000013.html +20 -0
data/doc/classes/Bio/Graphics/Panel/Ruler.src/M000014.html +28 -0
data/doc/classes/Bio/Graphics/Panel/Ruler.src/M000015.html +59 -0
data/doc/classes/Bio/Graphics/Panel/Track.html +342 -0
data/doc/classes/Bio/Graphics/Panel/Track.src/M000008.html +23 -0
data/doc/classes/Bio/Graphics/Panel/Track.src/M000009.html +42 -0
data/doc/classes/Bio/Graphics/Panel/Track.src/M000010.html +285 -0
data/doc/classes/Bio/Graphics/Panel/Track.src/M000011.html +23 -0
data/doc/classes/Bio/Graphics/Panel/Track.src/M000012.html +43 -0
data/doc/classes/Bio/Graphics/Panel/Track.src/M000013.html +259 -0
data/doc/classes/Bio/Graphics/Panel/Track/Feature.html +292 -0
data/doc/classes/Bio/Graphics/Panel/Track/Feature.src/M000011.html +65 -0
data/doc/classes/Bio/Graphics/Panel/Track/Feature.src/M000014.html +65 -0
data/doc/classes/Bio/Graphics/Panel/Track/Feature/PixelRange.html +155 -0
data/doc/classes/Bio/Graphics/Panel/Track/Feature/PixelRange.src/M000012.html +18 -0
data/doc/classes/Bio/Graphics/Panel/Track/Feature/PixelRange.src/M000015.html +18 -0
data/doc/classes/ImageMap.html +185 -0
data/doc/classes/ImageMap.src/M000001.html +18 -0
data/doc/classes/ImageMap.src/M000002.html +24 -0
data/doc/classes/ImageMap/ImageMapElement.html +187 -0
data/doc/classes/ImageMap/ImageMapElement.src/M000003.html +19 -0
data/doc/classes/ImageMap/ImageMapElement.src/M000004.html +20 -0
data/doc/created.rid +1 -0
data/doc/files/README_DEV.html +432 -0
data/doc/files/TUTORIAL.html +358 -0
data/doc/files/lib/bio-graphics_rb.html +121 -0
data/doc/files/lib/bio/graphics/feature_rb.html +113 -0
data/doc/files/lib/bio/graphics/image_map_rb.html +113 -0
data/doc/files/lib/bio/graphics/panel_rb.html +113 -0
data/doc/files/lib/bio/graphics/ruler_rb.html +113 -0
data/doc/files/lib/bio/graphics/track_rb.html +113 -0
data/doc/fr_class_index.html +35 -0
data/doc/fr_file_index.html +34 -0
data/doc/fr_method_index.html +41 -0
data/doc/images/example.png +0 -0
data/doc/images/glyph_showcase.png +0 -0
data/doc/images/terms.png +0 -0
data/doc/images/terms.svg +166 -0
data/doc/index.html +24 -0
data/images/example.png +0 -0
data/images/glyph_showcase.png +0 -0
data/images/terms.png +0 -0
data/images/terms.svg +166 -0
data/lib/bio-graphics.rb +18 -0
data/lib/bio/graphics/feature.rb +136 -0
data/lib/bio/graphics/image_map.rb +37 -0
data/lib/bio/graphics/panel.rb +205 -0
data/lib/bio/graphics/ruler.rb +96 -0
data/lib/bio/graphics/track.rb +387 -0
data/samples/arkdb_features.rb +37 -0
data/samples/data.txt +32 -0
data/samples/glyph_showcase.rb +29 -0
metadata +137 -0

data/doc/classes/Bio.html ADDED

@@ -0,0 +1,135 @@
+<?xml version="1.0" encoding="iso-8859-1"?>
+<!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" xml:lang="en" lang="en">
+<head>
+  <title>Module: Bio</title>
+  <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
+  <meta http-equiv="Content-Script-Type" content="text/javascript" />
+  <link rel="stylesheet" href=".././rdoc-style.css" type="text/css" media="screen" />
+  <script type="text/javascript">
+  // <![CDATA[
+  function popupCode( url ) {
+    window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
+  }
+  function toggleCode( id ) {
+    if ( document.getElementById )
+      elem = document.getElementById( id );
+    else if ( document.all )
+      elem = eval( "document.all." + id );
+    else
+      return false;
+    elemStyle = elem.style;
+    if ( elemStyle.display != "block" ) {
+      elemStyle.display = "block"
+    } else {
+      elemStyle.display = "none"
+    }
+    return true;
+  }
+  // Make codeblocks hidden by default
+  document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }</style>" )
+  // ]]>
+  </script>
+</head>
+<body>
+    <div id="classHeader">
+        <table class="header-table">
+        <tr class="top-aligned-row">
+          <td><strong>Module</strong></td>
+          <td class="class-name-in-header">Bio</td>
+        </tr>
+        <tr class="top-aligned-row">
+            <td><strong>In:</strong></td>
+            <td>
+                <a href="../files/lib/bio/graphics/panel_rb.html">
+                lib/bio/graphics/panel.rb
+                </a>
+        <br />
+                <a href="../files/lib/bio/graphics/ruler_rb.html">
+                lib/bio/graphics/ruler.rb
+                </a>
+        <br />
+                <a href="../files/lib/bio/graphics/feature_rb.html">
+                lib/bio/graphics/feature.rb
+                </a>
+        <br />
+                <a href="../files/lib/bio/graphics/track_rb.html">
+                lib/bio/graphics/track.rb
+                </a>
+        <br />
+            </td>
+        </tr>
+        </table>
+    </div>
+  <!-- banner header -->
+  <div id="bodyContent">
+  <div id="contextContent">
+    <div id="description">
+      <h1>bio/graphics/track - track class</h1>
+<table>
+<tr><td valign="top">Copyright:</td><td>Copyright (C) 2007 Jan Aerts &lt;jan.aerts@bbsrc.ac.uk&gt;
+</td></tr>
+<tr><td valign="top">License:</td><td>The Ruby License
+</td></tr>
+</table>
+    </div>
+   </div>
+  </div>
+    <!-- if includes -->
+    <div id="section">
+    <div id="class-list">
+      <h3 class="section-bar">Classes and Modules</h3>
+      Module <a href="Bio/Graphics.html" class="link">Bio::Graphics</a><br />
+    </div>
+    <!-- if method_list -->
+  </div>
+<div id="validator-badges">
+  <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
+</div>
+</body>
+</html>

data/doc/classes/Bio/Graphics.html ADDED

@@ -0,0 +1,247 @@
+<?xml version="1.0" encoding="iso-8859-1"?>
+<!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" xml:lang="en" lang="en">
+<head>
+  <title>Module: Bio::Graphics</title>
+  <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
+  <meta http-equiv="Content-Script-Type" content="text/javascript" />
+  <link rel="stylesheet" href="../.././rdoc-style.css" type="text/css" media="screen" />
+  <script type="text/javascript">
+  // <![CDATA[
+  function popupCode( url ) {
+    window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
+  }
+  function toggleCode( id ) {
+    if ( document.getElementById )
+      elem = document.getElementById( id );
+    else if ( document.all )
+      elem = eval( "document.all." + id );
+    else
+      return false;
+    elemStyle = elem.style;
+    if ( elemStyle.display != "block" ) {
+      elemStyle.display = "block"
+    } else {
+      elemStyle.display = "none"
+    }
+    return true;
+  }
+  // Make codeblocks hidden by default
+  document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }</style>" )
+  // ]]>
+  </script>
+</head>
+<body>
+    <div id="classHeader">
+        <table class="header-table">
+        <tr class="top-aligned-row">
+          <td><strong>Module</strong></td>
+          <td class="class-name-in-header">Bio::Graphics</td>
+        </tr>
+        <tr class="top-aligned-row">
+            <td><strong>In:</strong></td>
+            <td>
+                <a href="../../files/lib/bio/graphics/panel_rb.html">
+                lib/bio/graphics/panel.rb
+                </a>
+        <br />
+                <a href="../../files/lib/bio/graphics/ruler_rb.html">
+                lib/bio/graphics/ruler.rb
+                </a>
+        <br />
+                <a href="../../files/lib/bio/graphics/feature_rb.html">
+                lib/bio/graphics/feature.rb
+                </a>
+        <br />
+                <a href="../../files/lib/bio/graphics/track_rb.html">
+                lib/bio/graphics/track.rb
+                </a>
+        <br />
+            </td>
+        </tr>
+        </table>
+    </div>
+  <!-- banner header -->
+  <div id="bodyContent">
+  <div id="contextContent">
+    <div id="description">
+      <h1>DESCRIPTION</h1>
+<p>
+The <a href="Graphics.html">Bio::Graphics</a> set of objects allow for
+creating simple images that display features on a linear map. A picture
+consists of:
+</p>
+<ul>
+<li>one <b>panel</b>: container of all tracks
+</li>
+<li>one or more <b>tracks</b>: container of the features. Multiple tracks can
+exist in the same graphic to allow for differential visualization of
+different feature types (e.g. genes as blue rectangles and polymorphisms as
+red triangles)
+</li>
+<li>one or more <b>features</b> in each track: these are the actual features
+that you want to display (e.g. &#8216;gene 1&#8217;, &#8216;SNP
+123445&#8217;)
+</li>
+<li>a <b>ruler</b> on top of the panel: is added automatically
+</li>
+</ul>
+<p>
+Schematically:
+</p>
+<pre>
+ panel
+   +-&gt; track 1
+   |     +-&gt; feature 1
+   |     +-&gt; feature 2
+   |     +-&gt; feature 3
+   +-&gt; track 2
+   |     +-&gt; feature 4
+   |     +-&gt; feature 5
+   +-&gt; ruler
+</pre>
+<h1>USAGE</h1>
+<pre>
+  # Create a panel for something with a length of 653. This could be a
+  # sequence of 653 bp, but also a genetic map of 653 cM.
+  g = Bio::Graphics::Panel.new(653)
+  # Add the first track (e.g. 'genes')
+  track1 = g.add_track('genes')
+  # And put features in that track
+  track1.add_feature('gene1',250,375)
+  track1.add_feature('gene2',54,124)
+  track1.add_feature('gene3',100,500)
+  # Add a second track (e.g. 'polymorphisms')
+  track2 = g.add_track('polymorphisms','red','triangle')
+  # And put features on this one
+  track2.add_feature('polymorphism 1',56,56)
+  track2.add_feature('polymorphism 2',103,103)
+  # Create the actual image as SVG text
+  g.draw('my_picture.png')
+</pre>
+<h1>FUTURE PROSPECTS</h1>
+<p>
+Any help from other developers is welcomed to work on these features:
+</p>
+<ul>
+<li>Would be nice if this module would be easily accessible from any object
+that implements bioruby&#8216;s Bio::Map::ActsAsMap.
+</li>
+</ul>
+    </div>
+   </div>
+  </div>
+    <!-- if includes -->
+    <div id="section">
+    <div id="class-list">
+      <h3 class="section-bar">Classes and Modules</h3>
+      Class <a href="Graphics/Panel.html" class="link">Bio::Graphics::Panel</a><br />
+    </div>
+    <div id="constants-list">
+      <h3 class="section-bar">Constants</h3>
+      <div class="name-list">
+        <table summary="Constants">
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">DEFAULT_PANEL_WIDTH</td>
+          <td>=</td>
+          <td class="context-item-value">800</td>
+          <td width="3em">&nbsp;</td>
+          <td class="context-item-desc">
+The defaults
+</td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">TRACK_HEADER_HEIGHT</td>
+          <td>=</td>
+          <td class="context-item-value">12</td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">FEATURE_HEIGHT</td>
+          <td>=</td>
+          <td class="context-item-value">10</td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">FEATURE_V_DISTANCE</td>
+          <td>=</td>
+          <td class="context-item-value">5</td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">FEATURE_ARROW_LENGTH</td>
+          <td>=</td>
+          <td class="context-item-value">5</td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">RULER_TEXT_HEIGHT</td>
+          <td>=</td>
+          <td class="context-item-value">10</td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">RULER_MIN_DISTANCE_TICKS_PIXEL</td>
+          <td>=</td>
+          <td class="context-item-value">5</td>
+        </tr>
+        </table>
+      </div>
+    </div>
+    <!-- if method_list -->
+  </div>
+<div id="validator-badges">
+  <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
+</div>
+</body>
+</html>

data/doc/classes/Bio/Graphics/Panel.html ADDED

@@ -0,0 +1,344 @@
+<?xml version="1.0" encoding="iso-8859-1"?>
+<!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" xml:lang="en" lang="en">
+<head>
+  <title>Class: Bio::Graphics::Panel</title>
+  <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
+  <meta http-equiv="Content-Script-Type" content="text/javascript" />
+  <link rel="stylesheet" href="../../.././rdoc-style.css" type="text/css" media="screen" />
+  <script type="text/javascript">
+  // <![CDATA[
+  function popupCode( url ) {
+    window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
+  }
+  function toggleCode( id ) {
+    if ( document.getElementById )
+      elem = document.getElementById( id );
+    else if ( document.all )
+      elem = eval( "document.all." + id );
+    else
+      return false;
+    elemStyle = elem.style;
+    if ( elemStyle.display != "block" ) {
+      elemStyle.display = "block"
+    } else {
+      elemStyle.display = "none"
+    }
+    return true;
+  }
+  // Make codeblocks hidden by default
+  document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }</style>" )
+  // ]]>
+  </script>
+</head>
+<body>
+    <div id="classHeader">
+        <table class="header-table">
+        <tr class="top-aligned-row">
+          <td><strong>Class</strong></td>
+          <td class="class-name-in-header">Bio::Graphics::Panel</td>
+        </tr>
+        <tr class="top-aligned-row">
+            <td><strong>In:</strong></td>
+            <td>
+                <a href="../../../files/lib/bio/graphics/panel_rb.html">
+                lib/bio/graphics/panel.rb
+                </a>
+        <br />
+                <a href="../../../files/lib/bio/graphics/ruler_rb.html">
+                lib/bio/graphics/ruler.rb
+                </a>
+        <br />
+                <a href="../../../files/lib/bio/graphics/feature_rb.html">
+                lib/bio/graphics/feature.rb
+                </a>
+        <br />
+                <a href="../../../files/lib/bio/graphics/track_rb.html">
+                lib/bio/graphics/track.rb
+                </a>
+        <br />
+            </td>
+        </tr>
+        <tr class="top-aligned-row">
+            <td><strong>Parent:</strong></td>
+            <td>
+                Object
+            </td>
+        </tr>
+        </table>
+    </div>
+  <!-- banner header -->
+  <div id="bodyContent">
+  <div id="contextContent">
+    <div id="description">
+      <p>
+The <a href="Panel.html">Bio::Graphics::Panel</a> class describes the
+complete graph and contains all tracks. See <a
+href="../Graphics.html">Bio::Graphics</a> documentation for explanation of
+interplay between different classes.
+</p>
+    </div>
+   </div>
+    <div id="method-list">
+      <h3 class="section-bar">Methods</h3>
+      <div class="name-list">
+      <a href="#M000006">add_track</a>&nbsp;&nbsp;
+      <a href="#M000007">draw</a>&nbsp;&nbsp;
+      <a href="#M000005">new</a>&nbsp;&nbsp;
+      </div>
+    </div>
+  </div>
+    <!-- if includes -->
+    <div id="section">
+    <div id="class-list">
+      <h3 class="section-bar">Classes and Modules</h3>
+      Class <a href="Panel/Ruler.html" class="link">Bio::Graphics::Panel::Ruler</a><br />
+Class <a href="Panel/Track.html" class="link">Bio::Graphics::Panel::Track</a><br />
+    </div>
+    <div id="attribute-list">
+      <h3 class="section-bar">Attributes</h3>
+      <div class="name-list">
+        <table>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">clickable</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">display_start</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">display_stop</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">height</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">image_map</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">length</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">number_of_times_bumped</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">rescale_factor</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">tracks</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">width</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        </table>
+      </div>
+    </div>
+    <!-- if method_list -->
+    <div id="methods">
+      <h3 class="section-bar">Public Class methods</h3>
+      <div id="method-M000005" class="method-detail">
+        <a name="M000005"></a>
+        <div class="method-heading">
+          <a href="Panel.src/M000005.html" target="Code" class="method-signature"
+            onclick="popupCode('Panel.src/M000005.html');return false;">
+          <span class="method-name">new</span><span class="method-args">(length, width = DEFAULT_PANEL_WIDTH, clickable = false, display_start = nil, display_stop = nil)</span>
+          </a>
+        </div>
+        <div class="method-description">
+          <p>
+Create a <a href="Panel.html#M000005">new</a> <a
+href="Panel.html">Bio::Graphics::Panel</a> object
+</p>
+<pre>
+  g = Bio::Graphics::Panel.new(456)
+</pre>
+<p>
+The height of the image is calculated automatically depending on how many
+tracks and features it contains. The width of the image defaults to 800 pt
+but can be set manually by using a second argument:
+</p>
+<pre>
+  g = Bio::Graphics::Panel.new(456, 400)
+</pre>
+<p>
+See also: Bio::Graphics::Track, BioExt::Graphics::Feature
+</p>
+<hr size="1"></hr><p>
+<b>Arguments</b>:
+</p>
+<ul>
+<li><em>length</em> :: length of the thing you want to visualize, e.g for
+visualizing a sequence that is 3.24 kb long, use 324.
+</li>
+<li><em>width</em> :: width of the resulting image in pt. This should be a
+string and not an integer. Default = &#8216;800&#8217; (Notice the
+quotes&#8230;).
+</li>
+<li><em>clickable</em> :: whether the picture should have clickable glyphs or
+not (default: false) If set to true, a html file will be created with the
+map.
+</li>
+<li><em>display_start</em> :: start coordinate to be displayed (default: 1)
+</li>
+<li><em>display_stop</em> :: stop coordinate to be displayed (default: length
+of sequence)
+</li>
+</ul>
+<table>
+<tr><td valign="top"><b>Returns</b>:</td><td><a href="Panel.html">Bio::Graphics::Panel</a> object
+</td></tr>
+</table>
+        </div>
+      </div>
+      <h3 class="section-bar">Public Instance methods</h3>
+      <div id="method-M000006" class="method-detail">
+        <a name="M000006"></a>
+        <div class="method-heading">
+          <a href="Panel.src/M000006.html" target="Code" class="method-signature"
+            onclick="popupCode('Panel.src/M000006.html');return false;">
+          <span class="method-name">add_track</span><span class="method-args">(name, feature_colour = [0,0,1], feature_glyph = 'generic')</span>
+          </a>
+        </div>
+        <div class="method-description">
+          <p>
+Adds a Bio::Graphics::Track container to this panel. A panel contains a
+logical grouping of features, e.g. (for sequence annotation:) genes,
+polymorphisms, ESTs, etc.
+</p>
+<pre>
+ est_track = g.add_track('ESTs')
+ gene_track = g.add_track('genes')
+</pre>
+<hr size="1"></hr><p>
+<b>Arguments</b>:
+</p>
+<ul>
+<li><em>name</em> (required) :: Name of the track to be displayed (e.g.
+&#8216;genes&#8217;)
+</li>
+<li><em>colour</em> :: Colour to be used to <a
+href="Panel.html#M000007">draw</a> the features within the track. Default =
+&#8216;blue&#8216;
+</li>
+<li><em>glyph</em> :: Glyph to use for drawing the features. Options are:
+&#8216;generic&#8217;, &#8216;directed_generic&#8217;,
+&#8216;spliced&#8217;, &#8216;directed_spliced&#8217; and
+&#8216;triangle&#8217;. Triangles can be used for features whose start and
+stop positions are the same (e.g. SNPs). If you try to <a
+href="Panel.html#M000007">draw</a> a feature that is longer with triangles,
+an error will be shown.
+</li>
+</ul>
+<table>
+<tr><td valign="top"><b>Returns</b>:</td><td>Bio::Graphics::Track object that has just been created
+</td></tr>
+</table>
+        </div>
+      </div>
+      <div id="method-M000007" class="method-detail">
+        <a name="M000007"></a>
+        <div class="method-heading">
+          <a href="Panel.src/M000007.html" target="Code" class="method-signature"
+            onclick="popupCode('Panel.src/M000007.html');return false;">
+          <span class="method-name">draw</span><span class="method-args">(file_name)</span>
+          </a>
+        </div>
+        <div class="method-description">
+          <p>
+Create the drawing
+</p>
+        </div>
+      </div>
+    </div>
+  </div>
+<div id="validator-badges">
+  <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
+</div>
+</body>
+</html>