<?xml version="1.0" encoding="ISO-8859-1" ?>
<!DOCTYPE pise SYSTEM "PARSER/pise.dtd" [
<!ENTITY emboss_init SYSTEM "XMLDIR/emboss.xml">
]>

<pise>

<head>
<title>REDATA</title>
<description>Search REBASE for enzyme name, references, suppliers etc. (EMBOSS)</description>
<category>nucleic:restriction</category>
<doclink>http://bioweb.pasteur.fr/docs/EMBOSS/redata.html</doclink>
</head>

<command>redata</command>

<parameters>

&emboss_init;


<parameter type="Paragraph">
<paragraph>
<name>input</name>
	<prompt>Input section</prompt>

<parameters>
	<parameter type="String" ismandatory="1" issimple="1" ishidden="0">
	<name>enzyme</name>
	<attributes>
		<prompt>Restriction enzyme name (-enzyme)</prompt>
		<vdef>
			<value>BamHI</value>
		</vdef>
		<format>
			<language>perl</language>
			<code>" -enzyme=$value"</code>
		</format>
		<group>1</group>
		<comment>
			<value>Enter the name of the restrcition enzyme that you wish to get details of. The names often have a 'I' in them - this is a capital 'i', not a '1' or an 'l'. The names are case-indeppendent ('AaeI' is the same as 'aaei')</value>
		</comment>
	</attributes>
	</parameter>

	</parameters>
</paragraph>
</parameter>


<parameter type="Paragraph">
<paragraph>
<name>output</name>
	<prompt>Output section</prompt>

<parameters>
	<parameter type="Switch" ismandatory="0" issimple="0" ishidden="0">
	<name>isoschizomers</name>
	<attributes>
		<prompt>Show isoschizomers (-isoschizomers)</prompt>
		<vdef>
			<value>1</value>
		</vdef>
		<format>
			<language>perl</language>
			<code>($value)? "" : " -noisoschizomers"</code>
		</format>
		<group>2</group>
		<comment>
			<value>Show other enzymes with this specificity. (Isoschizomers)</value>
		</comment>
	</attributes>
	</parameter>

	<parameter type="Switch" ismandatory="0" issimple="0" ishidden="0">
	<name>references</name>
	<attributes>
		<prompt>Show references (-references)</prompt>
		<vdef>
			<value>1</value>
		</vdef>
		<format>
			<language>perl</language>
			<code>($value)? "" : " -noreferences"</code>
		</format>
		<group>3</group>
	</attributes>
	</parameter>

	<parameter type="Switch" ismandatory="0" issimple="0" ishidden="0">
	<name>suppliers</name>
	<attributes>
		<prompt>Show suppliers (-suppliers)</prompt>
		<vdef>
			<value>1</value>
		</vdef>
		<format>
			<language>perl</language>
			<code>($value)? "" : " -nosuppliers"</code>
		</format>
		<group>4</group>
	</attributes>
	</parameter>

	<parameter type="OutFile" ismandatory="1" issimple="1" ishidden="0">
	<name>outfile</name>
	<attributes>
		<prompt>outfile (-outfile)</prompt>
		<vdef><value>outfile.out</value></vdef>
		<format>
			<language>perl</language>
			<code>" -outfile=$value"</code>
		</format>
		<group>5</group>
	</attributes>
	</parameter>

	</parameters>
</paragraph>
</parameter>

<parameter type="String" ishidden="1">
<name>auto</name>
<attributes>
	<format>
		<language>perl</language>
		<code>" -auto -stdout"</code>
	</format>
	<group>6</group>
</attributes>
</parameter>

</parameters>
</pise>
