<?xml version="1.0" encoding="ascii"?>
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
"DTD/xhtml1-transitional.dtd">
<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
<head>
<title>Bio.Restriction.PrintFormat.PrintFormat</title>
<link rel="stylesheet" href="epydoc.css" type="text/css" />
<script type="text/javascript" src="epydoc.js"></script>
</head>
<body bgcolor="white" text="black" link="blue" vlink="#204080"
alink="#204080">
<!-- ==================== NAVIGATION BAR ==================== -->
<table class="navbar" border="0" width="100%" cellpadding="0"
bgcolor="#a0c0ff" cellspacing="0">
<tr valign="middle">
<!-- Tree link -->
<th> <a
href="module-tree.html">Trees</a> </th>
<!-- Index link -->
<th> <a
href="identifier-index.html">Indices</a> </th>
<!-- Help link -->
<th> <a
href="help.html">Help</a> </th>
<th class="navbar" width="100%"></th>
</tr>
</table>
<table width="100%" cellpadding="0" cellspacing="0">
<tr valign="top">
<td width="100%">
<span class="breadcrumbs">
<a href="Bio-module.html">Package Bio</a> ::
<a href="Bio.Restriction-module.html">Package Restriction</a> ::
<a href="Bio.Restriction.PrintFormat-module.html">Module PrintFormat</a> ::
Class PrintFormat
</span>
</td>
<td>
<table cellpadding="0" cellspacing="0">
<!-- hide/show private -->
<tr><td align="right"><span class="options">[<a href="javascript:void(0);" class="privatelink"
onclick="toggle_private();">hide private</a>]</span></td></tr>
<tr><td align="right"><span class="options"
>[<a href="frames.html" target="_top">frames</a
>] | <a href="Bio.Restriction.PrintFormat.PrintFormat-class.html"
target="_top">no frames</a>]</span></td></tr>
</table>
</td>
</tr>
</table>
<!-- ==================== CLASS DESCRIPTION ==================== -->
<h1 class="epydoc">Class PrintFormat</h1><p class="nomargin-top"><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat">source code</a></span></p>
<pre class="base-tree">
object --+
|
<strong class="uidshort">PrintFormat</strong>
</pre>
<hr />
<p>PrintFormat allow the printing of results of restriction analysis.</p>
<!-- ==================== INSTANCE METHODS ==================== -->
<a name="section-InstanceMethods"></a>
<table class="summary" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr bgcolor="#70b0f0" class="table-header">
<td colspan="2" class="table-header">
<table border="0" cellpadding="0" cellspacing="0" width="100%">
<tr valign="top">
<td align="left"><span class="table-header">Instance Methods</span></td>
<td align="right" valign="top"
><span class="options">[<a href="#section-InstanceMethods"
class="privatelink" onclick="toggle_private();"
>hide private</a>]</span></td>
</tr>
</table>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">new PrintFormat Instance</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#__init__" class="summary-sig-name">__init__</a>()</span><br />
x.__init__(...) initializes x; see x.__class__.__doc__ for signature</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.__init__">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">print the results as specified</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#print_as" class="summary-sig-name">print_as</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">what</span>=<span class="summary-sig-default">'list'</span>)</span><br />
Valid format are :
'list' -> alphabetical order
'number' -> number of sites in the sequence
'map' -> a map representation of the sequence with the sites.</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.print_as">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type"> </span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#print_that" class="summary-sig-name">print_that</a>(<span class="summary-sig-arg">self</span>,
<span class="summary-sig-arg">dct</span>,
<span class="summary-sig-arg">title</span>=<span class="summary-sig-default">''</span>,
<span class="summary-sig-arg">s1</span>=<span class="summary-sig-default">''</span>)</span><br />
PF.print_that(dct, [title[, s1]]) -> Print dct nicely formatted.</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.print_that">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#make_format" class="summary-sig-name">make_format</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">cut</span>,
<span class="summary-sig-arg">nc</span>=<span class="summary-sig-default">[]</span>,
<span class="summary-sig-arg">title</span>=<span class="summary-sig-default">''</span>,
<span class="summary-sig-arg">s</span>=<span class="summary-sig-default">[]</span>)</span><br />
Virtual method.</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.make_format">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#_make_list" class="summary-sig-name" onclick="show_private();">_make_list</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">ls</span>,
<span class="summary-sig-arg">title</span>,
<span class="summary-sig-arg">nc</span>,
<span class="summary-sig-arg">s1</span>)</span><br />
return a string of form :</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_list">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#_make_map" class="summary-sig-name" onclick="show_private();">_make_map</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">ls</span>,
<span class="summary-sig-arg">title</span>,
<span class="summary-sig-arg">nc</span>,
<span class="summary-sig-arg">s1</span>)</span><br />
return a string of form :</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_map">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#_make_number" class="summary-sig-name" onclick="show_private();">_make_number</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">ls</span>,
<span class="summary-sig-arg">title</span>,
<span class="summary-sig-arg">nc</span>,
<span class="summary-sig-arg">s1</span>)</span><br />
title.</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_number">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#_make_nocut" class="summary-sig-name" onclick="show_private();">_make_nocut</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">ls</span>,
<span class="summary-sig-arg">title</span>,
<span class="summary-sig-arg">nc</span>,
<span class="summary-sig-arg">s1</span>)</span><br />
return a formatted string of the non cutting enzymes.</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_nocut">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#_make_nocut_only" class="summary-sig-name" onclick="show_private();">_make_nocut_only</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">nc</span>,
<span class="summary-sig-arg">s1</span>)</span><br />
return a formatted string of the non cutting enzymes.</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_nocut_only">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#_make_list_only" class="summary-sig-name" onclick="show_private();">_make_list_only</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">ls</span>,
<span class="summary-sig-arg">title</span>)</span><br />
return a string of form :</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_list_only">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#_make_number_only" class="summary-sig-name" onclick="show_private();">_make_number_only</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">ls</span>,
<span class="summary-sig-arg">title</span>)</span><br />
return a string of form :</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_number_only">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#_make_map_only" class="summary-sig-name" onclick="show_private();">_make_map_only</a>(<span class="summary-sig-arg">PF</span>,
<span class="summary-sig-arg">ls</span>,
<span class="summary-sig-arg">title</span>)</span><br />
return a string of form :</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_map_only">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr class="private">
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type">string</span>
</td><td class="summary">
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr>
<td><span class="summary-sig"><a href="Bio.Restriction.PrintFormat.PrintFormat-class.html#__next_section" class="summary-sig-name" onclick="show_private();">__next_section</a>(<span class="summary-sig-arg">FP</span>,
<span class="summary-sig-arg">ls</span>,
<span class="summary-sig-arg">into</span>)</span><br />
ls is a list of tuple (string, [int, int]).</td>
<td align="right" valign="top">
<span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.__next_section">source code</a></span>
</td>
</tr>
</table>
</td>
</tr>
<tr>
<td colspan="2" class="summary">
<p class="indent-wrapped-lines"><b>Inherited from <code>object</code></b>:
<code>__delattr__</code>,
<code>__getattribute__</code>,
<code>__hash__</code>,
<code>__new__</code>,
<code>__reduce__</code>,
<code>__reduce_ex__</code>,
<code>__repr__</code>,
<code>__setattr__</code>,
<code>__str__</code>
</p>
</td>
</tr>
</table>
<!-- ==================== CLASS VARIABLES ==================== -->
<a name="section-ClassVariables"></a>
<table class="summary" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr bgcolor="#70b0f0" class="table-header">
<td colspan="2" class="table-header">
<table border="0" cellpadding="0" cellspacing="0" width="100%">
<tr valign="top">
<td align="left"><span class="table-header">Class Variables</span></td>
<td align="right" valign="top"
><span class="options">[<a href="#section-ClassVariables"
class="privatelink" onclick="toggle_private();"
>hide private</a>]</span></td>
</tr>
</table>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type"> </span>
</td><td class="summary">
<a name="ConsoleWidth"></a><span class="summary-name">ConsoleWidth</span> = <code title="80">80</code>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type"> </span>
</td><td class="summary">
<a name="NameWidth"></a><span class="summary-name">NameWidth</span> = <code title="10">10</code>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type"> </span>
</td><td class="summary">
<a name="MaxSize"></a><span class="summary-name">MaxSize</span> = <code title="6">6</code>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type"> </span>
</td><td class="summary">
<a name="Cmodulo"></a><span class="summary-name">Cmodulo</span> = <code title="ConsoleWidth % NameWidth">ConsoleWidth % NameWidth</code>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type"> </span>
</td><td class="summary">
<a name="PrefWidth"></a><span class="summary-name">PrefWidth</span> = <code title="ConsoleWidth-Cmodulo">ConsoleWidth-Cmodulo</code>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type"> </span>
</td><td class="summary">
<a name="Indent"></a><span class="summary-name">Indent</span> = <code title="4">4</code>
</td>
</tr>
<tr>
<td width="15%" align="right" valign="top" class="summary">
<span class="summary-type"> </span>
</td><td class="summary">
<a name="linesize"></a><span class="summary-name">linesize</span> = <code title="PrefWidth-NameWidth">PrefWidth-NameWidth</code>
</td>
</tr>
</table>
<!-- ==================== PROPERTIES ==================== -->
<a name="section-Properties"></a>
<table class="summary" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr bgcolor="#70b0f0" class="table-header">
<td colspan="2" class="table-header">
<table border="0" cellpadding="0" cellspacing="0" width="100%">
<tr valign="top">
<td align="left"><span class="table-header">Properties</span></td>
<td align="right" valign="top"
><span class="options">[<a href="#section-Properties"
class="privatelink" onclick="toggle_private();"
>hide private</a>]</span></td>
</tr>
</table>
</td>
</tr>
<tr>
<td colspan="2" class="summary">
<p class="indent-wrapped-lines"><b>Inherited from <code>object</code></b>:
<code>__class__</code>
</p>
</td>
</tr>
</table>
<!-- ==================== METHOD DETAILS ==================== -->
<a name="section-MethodDetails"></a>
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr bgcolor="#70b0f0" class="table-header">
<td colspan="2" class="table-header">
<table border="0" cellpadding="0" cellspacing="0" width="100%">
<tr valign="top">
<td align="left"><span class="table-header">Method Details</span></td>
<td align="right" valign="top"
><span class="options">[<a href="#section-MethodDetails"
class="privatelink" onclick="toggle_private();"
>hide private</a>]</span></td>
</tr>
</table>
</td>
</tr>
</table>
<a name="__init__"></a>
<div>
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">__init__</span>()</span>
<br /><em class="fname">(Constructor)</em>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.__init__">source code</a></span>
</td>
</tr></table>
<p>x.__init__(...) initializes x; see x.__class__.__doc__ for
signature</p>
<dl class="fields">
<dt>Returns: new PrintFormat Instance</dt>
<dt>Overrides:
object.__init__
</dt>
</dl>
</td></tr></table>
</div>
<a name="print_as"></a>
<div>
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">print_as</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">what</span>=<span class="sig-default">'list'</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.print_as">source code</a></span>
</td>
</tr></table>
<pre class="literalblock">
Valid format are :
'list' -> alphabetical order
'number' -> number of sites in the sequence
'map' -> a map representation of the sequence with the sites.
If you want more flexibility over-ride the virtual method make_format.
</pre>
<dl class="fields">
<dt>Returns: print the results as specified</dt>
</dl>
</td></tr></table>
</div>
<a name="print_that"></a>
<div>
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">print_that</span>(<span class="sig-arg">self</span>,
<span class="sig-arg">dct</span>,
<span class="sig-arg">title</span>=<span class="sig-default">''</span>,
<span class="sig-arg">s1</span>=<span class="sig-default">''</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.print_that">source code</a></span>
</td>
</tr></table>
<p>PF.print_that(dct, [title[, s1]]) -> Print dct nicely
formatted.</p>
<p>dct is a dictionary as returned by a RestrictionBatch.search()</p>
<p>title is the title of the map. It must be a formated string, i.e. you
must include the line break.</p>
<p>s1 is the title separating the list of enzymes that have sites from
those without sites. s1 must be a formatted string as well.</p>
<p>The format of print_that is a list.</p>
<dl class="fields">
</dl>
</td></tr></table>
</div>
<a name="make_format"></a>
<div>
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">make_format</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">cut</span>,
<span class="sig-arg">nc</span>=<span class="sig-default">[]</span>,
<span class="sig-arg">title</span>=<span class="sig-default">''</span>,
<span class="sig-arg">s</span>=<span class="sig-default">[]</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.make_format">source code</a></span>
</td>
</tr></table>
<p>Virtual method. Here to be pointed to one of the _make_* methods. You
can as well create a new method and point make_format to it.</p>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="_make_list"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">_make_list</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">ls</span>,
<span class="sig-arg">title</span>,
<span class="sig-arg">nc</span>,
<span class="sig-arg">s1</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_list">source code</a></span>
</td>
</tr></table>
<p>return a string of form :</p>
<p>title.</p>
<p>enzyme1 : position1, position2. enzyme2 : position1,
position2, position3.</p>
<p>ls is a list of cutting enzymes. title is the title. nc is a list of
non cutting enzymes. s1 is the sentence before the non cutting
enzymes.</p>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="_make_map"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">_make_map</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">ls</span>,
<span class="sig-arg">title</span>,
<span class="sig-arg">nc</span>,
<span class="sig-arg">s1</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_map">source code</a></span>
</td>
</tr></table>
<pre class="literalblock">
return a string of form :
title.
enzyme1, position
|
AAAAAAAAAAAAAAAAAAAAA...
|||||||||||||||||||||
TTTTTTTTTTTTTTTTTTTTT...
ls is a list of cutting enzymes.
title is the title.
nc is a list of non cutting enzymes.
s1 is the sentence before the non cutting enzymes.
</pre>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="_make_number"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">_make_number</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">ls</span>,
<span class="sig-arg">title</span>,
<span class="sig-arg">nc</span>,
<span class="sig-arg">s1</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_number">source code</a></span>
</td>
</tr></table>
<p>title.</p>
<p>enzyme which cut 1 time :</p>
<p>enzyme1 : position1.</p>
<p>enzyme which cut 2 times :</p>
<p>enzyme2 : position1, position2. ...</p>
<p>ls is a list of cutting enzymes. title is the title. nc is a list of
non cutting enzymes. s1 is the sentence before the non cutting
enzymes.</p>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="_make_nocut"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">_make_nocut</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">ls</span>,
<span class="sig-arg">title</span>,
<span class="sig-arg">nc</span>,
<span class="sig-arg">s1</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_nocut">source code</a></span>
</td>
</tr></table>
<p>return a formatted string of the non cutting enzymes.</p>
<p>ls is a list of cutting enzymes -> will not be used. Here for
compatibility with make_format.</p>
<p>title is the title. nc is a list of non cutting enzymes. s1 is the
sentence before the non cutting enzymes.</p>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="_make_nocut_only"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">_make_nocut_only</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">nc</span>,
<span class="sig-arg">s1</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_nocut_only">source code</a></span>
</td>
</tr></table>
<p>return a formatted string of the non cutting enzymes.</p>
<p>nc is a list of non cutting enzymes. s1 is the sentence before the non
cutting enzymes.</p>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="_make_list_only"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">_make_list_only</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">ls</span>,
<span class="sig-arg">title</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_list_only">source code</a></span>
</td>
</tr></table>
<p>return a string of form :</p>
<p>title.</p>
<p>enzyme1 : position1, position2. enzyme2 : position1,
position2, position3. ...</p>
<p>ls is a list of results. title is a string. Non cutting enzymes are
not included.</p>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="_make_number_only"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">_make_number_only</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">ls</span>,
<span class="sig-arg">title</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_number_only">source code</a></span>
</td>
</tr></table>
<p>return a string of form :</p>
<p>title.</p>
<p>enzyme which cut 1 time :</p>
<p>enzyme1 : position1.</p>
<p>enzyme which cut 2 times :</p>
<p>enzyme2 : position1, position2. ...</p>
<p>ls is a list of results. title is a string. Non cutting enzymes are
not included.</p>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="_make_map_only"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">_make_map_only</span>(<span class="sig-arg">PF</span>,
<span class="sig-arg">ls</span>,
<span class="sig-arg">title</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat._make_map_only">source code</a></span>
</td>
</tr></table>
<pre class="literalblock">
return a string of form :
title.
enzyme1, position
|
AAAAAAAAAAAAAAAAAAAAA...
|||||||||||||||||||||
TTTTTTTTTTTTTTTTTTTTT...
ls is a list of results.
title is a string.
Non cutting enzymes are not included.
</pre>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<a name="__next_section"></a>
<div class="private">
<table class="details" border="1" cellpadding="3"
cellspacing="0" width="100%" bgcolor="white">
<tr><td>
<table width="100%" cellpadding="0" cellspacing="0" border="0">
<tr valign="top"><td>
<h3 class="epydoc"><span class="sig"><span class="sig-name">__next_section</span>(<span class="sig-arg">FP</span>,
<span class="sig-arg">ls</span>,
<span class="sig-arg">into</span>)</span>
</h3>
</td><td align="right" valign="top"
><span class="codelink"><a href="Bio.Restriction.PrintFormat-pysrc.html#PrintFormat.__next_section">source code</a></span>
</td>
</tr></table>
<p>ls is a list of tuple (string, [int, int]). into is a string to which
the formatted ls will be added.</p>
<p>Format ls as a string of lines : The form is :</p>
<p>enzyme1 : position1. enzyme2 : position2, position3.</p>
<p>then add the formatted ls to tot return tot.</p>
<dl class="fields">
<dt>Returns: string</dt>
</dl>
</td></tr></table>
</div>
<br />
<!-- ==================== NAVIGATION BAR ==================== -->
<table class="navbar" border="0" width="100%" cellpadding="0"
bgcolor="#a0c0ff" cellspacing="0">
<tr valign="middle">
<!-- Tree link -->
<th> <a
href="module-tree.html">Trees</a> </th>
<!-- Index link -->
<th> <a
href="identifier-index.html">Indices</a> </th>
<!-- Help link -->
<th> <a
href="help.html">Help</a> </th>
<th class="navbar" width="100%"></th>
</tr>
</table>
<table border="0" cellpadding="0" cellspacing="0" width="100%%">
<tr>
<td align="left" class="footer">
Generated by Epydoc 3.0.1 on Mon Sep 15 09:26:37 2008
</td>
<td align="right" class="footer">
<a target="mainFrame" href="http://epydoc.sourceforge.net"
>http://epydoc.sourceforge.net</a>
</td>
</tr>
</table>
<script type="text/javascript">
<!--
// Private objects are initially displayed (because if
// javascript is turned off then we want them to be
// visible); but by default, we want to hide them. So hide
// them unless we have a cookie that says to show them.
checkCookie();
// -->
</script>
</body>
</html>
