comparison hmmconvert.xml @ 3:b03487ad64c8 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hmmer3 commit fa7dec5f222510d58f566f4799a04e3731fa03f6

2:26e5bc72833f

<?xml version="1.0"?>
<tool id="hmmer_hmmconvert" name="hmmconvert" version="@WRAPPER_VERSION@.0">
  <description>convert profile file to a HMMER format</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements"/>
  <expand macro="stdio"/>
  <command><![CDATA[
hmmconvert
$format
$hmmfile > $output
      ]]></command>
  <inputs>
    <expand macro="input_hmm" />
    <param type="select" label="Output Format" name="format">
      <option value="-a" selected="true">output models in HMMER3 ASCII format</option>
      <!--<option value="-b">output models in HMMER3 binary format</option>-->
      <option value="-2">backward compatible HMMER2 ASCII format</option>
    </param>
  </inputs>
  <outputs>
    <data format="hmm3" name="output" label="$hmmfile.name">
      <change_format>
        <when input="format" value="-a" format="hmm3"/>
        <when input="format" value="-2" format="hmm2"/>
      </change_format>
    </data>
  </outputs>
  <tests>

By default, the input profile can be in any HMMER format, including
old/obsolete formats from HMMER2, ASCII or binary; the output profile is a
current HMMER3 ASCII format.

@ATTRIBUTION@
]]></help>
  <expand macro="citation"/>
</tool>

3:b03487ad64c8

<?xml version="1.0"?>
<tool id="hmmer_hmmconvert" name="hmmconvert" version="@TOOL_VERSION@">
  <description>convert profile file to a HMMER format</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements"/>
  <expand macro="stdio"/>
  <command><![CDATA[
hmmconvert
$format
'$hmmfile'
> '$output'
  ]]></command>
  <inputs>
    <expand macro="input_hmm" />
    <param name="format" type="select" label="Output Format">
      <option value="-a" selected="true">output models in HMMER3 ASCII format</option>
      <!--<option value="-b">output models in HMMER3 binary format</option>-->
      <option value="-2">backward compatible HMMER2 ASCII format</option>
    </param>
  </inputs>
  <outputs>
    <data name="output" format="hmm3" label="$hmmfile.name">
      <change_format>
        <when input="format" value="-2" format="hmm2"/>
      </change_format>
    </data>
  </outputs>
  <tests>

By default, the input profile can be in any HMMER format, including
old/obsolete formats from HMMER2, ASCII or binary; the output profile is a
current HMMER3 ASCII format.

@ATTRIBUTION@
  ]]></help>
  <expand macro="citation"/>
</tool>