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

<pise>

  <head>
    <title>HMMER</title>
    <version>2.2g</version>
    <description>seqstat - show statistics and format for a sequence file</description>
    <authors>S. Eddy</authors>
    <category>information</category>
  </head>

  <command>seqstat</command>
  
  <parameters>

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

    <parameter ismandatory="1" type="Sequence">
      <name>seqfile</name>
      <attributes>
	<prompt>Sequences file</prompt>
	<format>
	  <language>perl</language>
	  <code>" $value"</code>
	</format>
	<group>2</group>
	<seqfmt>
	  <value>2</value>
	  <value>4</value>
	  <value>5</value>
	  <value>8</value>
	  <value>15</value>
	</seqfmt>
      </attributes>
    </parameter>

    <parameter type="Switch">
      <name>verbose</name>
      <attributes>
	<prompt>Show additional verbose information (-a)</prompt>
	<format>
	  <language>perl</language>
	  <code>($value) ? " -a " : ""</code>
	</format>
	<group>1</group>
	<comment>
	  <value>a table with one line per sequence showing name, length, and description line. These lines are prefixed with a * character to enable easily grep'ing them out and sorting them.</value>
	  <value>seqfile</value>
	  <value>perl</value>
	  <value>1</value>
	</comment>
      </attributes>
    </parameter>
    
  </parameters>
</pise>
