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<?xml version="1.0" ?>
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<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<title>SWISS::TextFunc</title>
<meta http-equiv="content-type" content="text/html; charset=utf-8" />
<link rev="made" href="mailto:operations@isb-sib.ch" />
</head>
<body style="background-color: white">
<!-- INDEX BEGIN -->
<div name="index">
<p><a name="__index__"></a></p>
<ul>
<li><a href="#name">NAME</a></li>
<li><a href="#description">DESCRIPTION</a></li>
</ul>
<hr name="index" />
</div>
<!-- INDEX END -->
<p>
</p>
<h1><a name="name">NAME</a></h1>
<p>SWISS::TextFunc</p>
<p>
</p>
<hr />
<h1><a name="description">DESCRIPTION</a></h1>
<p>This module is designed to be a repository of functions that are
repeatedly used during parsing and formatting of SWISS-PROT/TREMBL lines.
If more than two line types need to do aproximately the same thing
then it is probably in here.</p>
<p>All functions expect to be called as package->function(param list)</p>
<dl>
<dt><strong><a name="listfromtext" class="item">listFromText</a></strong></dt>
<dd>
<p>Takes a piece of text, a seperator regex and a seperator that may appear at the end.
Returns an array of items that were seperated in the text by that seperator. Takes care of
null items (looses them for you).</p>
</dd>
<dt><strong><a name="textfromlist" class="item">textFromList</a></strong></dt>
<dd>
<p>Takes an array of items, a separator, a terminating string, and a line width.
Returns an array of strings, each ending with the separator or the terminator with
a width less than or equal to the width specified.</p>
<p>Seems to do the wrong thing for references - not sure why.
Don't use it for that.</p>
</dd>
<dt><strong><a name="wraptext" class="item">wrapText</a></strong></dt>
<dd>
<p>Takes a string and a length. Returns an array of strings which are shorter or equal
in length to length, spliting the string on white space.</p>
</dd>
<dt><strong><a name="wrapon" class="item">wrapOn ($firstLinePrefix, $linePrefix, $colums, $text[, @separators])</a></strong></dt>
<dd>
<p>Wraps $text into lines with at most $colums colums. Prepends the
prefixes to the lines. @separators is a list of expressions on which
to wrap. The expression itself is part of the upper line.</p>
<p>If no @separators are provided, the $text is wrapped at whitespace
except in EC/TC numbers or at dashes that separate words.</p>
<p>First tries to wrap on the first item of @separators, then the next
etc. If no wrap on any element of @separators or whitespaces is
possible, wraps into lines of exactly length $colums.</p>
<p>A special case is that the first item of @separators may be a reference
to an array. This is used internally for wrapping FT VARIANT-like lines.</p>
<p>Example:</p>
<pre>
wrapOn('DE ', 'DE ', 40,
'14-3-3 PROTEIN BETA/ALPHA (PROTEIN KINASE C INHIBITOR PROTEIN-1)',
'\s+')
returns ['14-3-3 PROTEIN BETA/ALPHA (PROTEIN ',
'KINASE C INHIBITOR PROTEIN-1)']
wrapOn('DE ', 'DE ', 40,
'14-3-3 PROTEIN BETA/ALPHA (PROTEIN KINASE C INHIBITOR PROTEIN-1)',
' (?=\()', '\s+')
returns ['14-3-3 PROTEIN BETA/ALPHA ',
'(PROTEIN KINASE C INHIBITOR PROTEIN-1)']</pre>
</dd>
<dt><strong><a name="cleanline" class="item">cleanLine</a></strong></dt>
<dd>
<p>Remove the leading line Identifier and three blanks and trailing spaces from an SP line.</p>
</dd>
<dt><strong><a name="joinwith" class="item">joinWith ($text, $with, $noAddAfter, @list)</a></strong></dt>
<dd>
<p>Concatenates $text and @list into one string. Adds $with between the
original elements, unless the postfix of the current string is $noAddAfter.
This is used to avoid inserting blanks after hyphens during concatenation.
So unpleasant strings like 'CALMODULIN- DEPENDENT' are avoided. Unfortunately
a correct reassembly of strings like 'CARBON-DIOXIDE' is not done.</p>
</dd>
<dt><strong><a name="insertlinegroup" class="item">insertLineGroup ($textRef, $text, $pattern)</a></strong></dt>
<dd>
<p>Inserts text block $text into the text referred to by $textRef. $text will replace the text block in $textRef matched by $pattern.</p>
</dd>
<dt><strong><a name="uniquelist" class="item">uniqueList (@list)</a></strong></dt>
<dd>
<p>Returns a list in which all duplicates from @list have been removed.</p>
</dd>
<dt><strong><a name="currentspdate" class="item">currentSpDate</a></strong></dt>
<dd>
<p>returns the current date in SWISS-PROT format</p>
</dd>
<dt><strong><a name="tomixedcase" class="item">toMixedCase($text, @regexps)</a></strong></dt>
<dd>
<p>Convert a text to mixed case, according to one or more regular expressions.
In scalar context, returns the new text; in array context, also returns
the regexp with which the change was performed, or undef on failure.
See corresponding item in SWISS::GN for more details.</p>
</dd>
</dl>
</body>
</html>
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