<?xml version="1.0" encoding="ISO-8859-1" ?>
<!DOCTYPE pise SYSTEM "PARSER/pise.dtd">

<pise>

<head>
<title>SEQRETSET</title>
<description>Reads and writes (returns) a set of sequences all at once (EMBOSS)</description>
<category>reformatting</category>
<category>sequence display</category>
<doclink>http://www.sanger.ac.uk/Software/EMBOSS/Apps/seqretset.shtml</doclink>
</head>

<command>seqretset</command>

<parameters>

<parameter type="Sequence" ismandatory="1" issimple="1" ishidden="0">
<name>sequence</name>
<attributes>
	<prompt>sequence [set of sequences] (-sequence)</prompt>
	<format>
		<language>perl</language>
		<code>" -sequence=$value -sformat=fasta"</code>
	</format>
	<group>0</group>
	<seqfmt>
		<value>8</value>
	</seqfmt>
</attributes>
</parameter>

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

<parameter type="Excl" issimple="1">
<name>outseq_sformat</name>
<attributes>
	<prompt>Output format for: outseq</prompt>
	<vlist>
		<value>fasta</value>
		<label>fasta</label>
		<value>gcg</value>
		<label>gcg</label>
		<value>phylip</value>
		<label>phylip</label>
		<value>embl</value>
		<label>embl</label>
		<value>swiss</value>
		<label>swiss</label>
		<value>ncbi</value>
		<label>ncbi</label>
		<value>nbrf</value>
		<label>nbrf</label>
		<value>genbank</value>
		<label>genbank</label>
		<value>ig</value>
		<label>ig</label>
		<value>codata</value>
		<label>codata</label>
		<value>strider</value>
		<label>strider</label>
		<value>acedb</value>
		<label>acedb</label>
		<value>staden</value>
		<label>staden</label>
		<value>text</value>
		<label>text</label>
		<value>fitch</value>
		<label>fitch</label>
		<value>msf</value>
		<label>msf</label>
		<value>clustal</value>
		<label>clustal</label>
		<value>phylip</value>
		<label>phylip</label>
		<value>phylip3</value>
		<label>phylip3</label>
		<value>asn1</value>
		<label>asn1</label>
	</vlist>
	<vdef><value>fasta</value></vdef>
	<format>
		<language>perl</language>
		<code>" -osformat=$value"</code>
	</format>
	<group>2</group>
</attributes>
</parameter>
<parameter type="String" ishidden="1">
<name>auto</name>
<attributes>
	<format>
		<language>perl</language>
		<code>" -auto -stdout"</code>
	</format>
	<group>3</group>
</attributes>
</parameter>

</parameters>
</pise>
