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

<pise>

  <head>
    <title>STAMP</title>
    <version>4.2</version>
    <description>aconvert</description>
    <authors>Russel, Barton</authors>
  </head>

  <command>aconvert</command>

  <parameters>

    <parameter iscommand="1" ishidden="1" issimple="1" type="String">
      <name>aconvert</name>
      <attributes>
	<format>
	  <language>perl</language>
	  <code>"aconvert"</code>
	</format>
	<group>0</group>
      </attributes>
    </parameter>

    <parameter ismandatory="1" issimple="1" type="InFile">
      <name>blcfile</name>
      <attributes>
	<prompt>AMPS Block File (.blc)</prompt>
	<format>
	  <language>perl</language>
	  <code> " -f $value"</code>
	</format>
	<group>1</group>
	<pipe>
	  <pipetype>amps_blc_file</pipetype>
	  <language>perl</language>
	  <code>1</code>
	</pipe>
      </attributes>
    </parameter>

    <parameter issimple="1" type="Excl">
      <name>inseqformat</name>
      <attributes>
	<prompt>Input format (-in)</prompt>
	<format>
	  <language>perl</language>
	  <code>($value)?  " -in $value" : ""</code>
	</format>
	<vlist>
	  <value>m</value>
	  <label>m = MSF format</label>
	  <value>c</value>
	  <label>c = Clustal format</label>
	  <value>b</value>
	  <label>b = AMPS BLOCK format</label>
	  <value>f</value>
	  <label>f = FASTA format</label>
	  <value>p</value>
	  <label>p = PIR format</label>
	  <value>s</value>
	  <label>s = PFAM (Sanger) format</label>
	</vlist>
      </attributes>
    </parameter>

    <parameter issimple="1" type="Excl">
      <name>outseqformat</name>
      <attributes>
	<prompt>Output format (-out)</prompt>
	<format>
	  <language>perl</language>
	  <code>($value)?  " -out $value" : ""</code>
	</format>
	<vlist>
	  <value>m</value>
	  <label>m = MSF format</label>
	  <value>c</value>
	  <label>c = Clustal format</label>
	  <value>b</value>
	  <label>b = AMPS BLOCK format</label>
	  <value>f</value>
	  <label>f = FASTA format</label>
	  <value>p</value>
	  <label>p = PIR format</label>
	  <value>s</value>
	  <label>s = PFAM (Sanger) format</label>
	</vlist>
      </attributes>
    </parameter>

  </parameters>
</pise>
