doc/domagi-paths.dbk


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<?xml version="1.0" encoding="utf-8"?>
<refentry xmlns="http://docbook.org/ns/docbook"
          xmlns:xi="http://www.w3.org/2001/XInclude">
  <xi:include href="gen-refentry-paths.xml" />
  <refsection>
    <title>Description</title>
    <para>Interrogate paths in the pangenome. Nothing is output unless one of the relevant options are specified.</para>
    <variablelist>
      <title>Options</title>
      <xi:include href="input-db-argument.dbk" />
      <varlistentry>
        <term><option>-L</option></term>
        <term><option>--list-paths</option></term>
        <listitem><para>Print the names of paths in the pangenome, one per line.</para></listitem>
      </varlistentry>
      <varlistentry>
        <term><option>-f</option></term>
        <term><option>--fasta</option></term>
        <listitem><para>Print paths in FASTA format.</para></listitem>
      </varlistentry>
      <xi:include href="threads-argument.dbk" />
      <xi:include href="help-option.dbk" />
    </variablelist>
  </refsection>
</refentry>