view galaxy_stubs/ExtractProteinChains.xml @ 2:605370bc1def draft default tip

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<?xml version='1.0' encoding='UTF-8'?>
<!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
<!--Proposed Tool Section: [Preparation]-->
<tool id="ExtractProteinChains" name="ExtractProteinChains" version="1.1.0">
  <description>separate all chains of a pdb file into separate pdb files</description>
  <macros>
    <token name="@EXECUTABLE@">ExtractProteinChains</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command>ExtractProteinChains

#if $param_pdb:
  -pdb $param_pdb
#end if
#if $param_chain_id:
  -chain_id     "$param_chain_id"
#end if
#if $param_o:
  -o $param_o
#end if
#if $adv_opts.adv_opts_selector=='advanced':
    #if $adv_opts.param_o_id:
  -o_id     "$adv_opts.param_o_id"
#end if
    #if $adv_opts.param_o_dir:
  -o_dir     "$adv_opts.param_o_dir"
#end if
#end if
</command>
  <inputs>
    <param name="param_pdb" type="data" format="pdb" optional="False" value="&lt;class 'CTDopts.CTDopts._Null'&gt;" label="input pdb file" help="(-pdb) "/>
    <param name="param_chain_id" type="text" size="30" value="&lt;class 'CTDopts.CTDopts._Null'&gt;" label="chain to extract" help="(-chain_id) ">
      <sanitizer>
        <valid initial="string.printable">
          <remove value="'"/>
          <remove value="&quot;"/>
        </valid>
      </sanitizer>
    </param>
    <expand macro="advanced_options">
      <param name="param_o_id" type="text" size="30" value="$o.id" label="output id" help="(-o_id) ">
        <sanitizer>
          <valid initial="string.printable">
            <remove value="'"/>
            <remove value="&quot;"/>
          </valid>
        </sanitizer>
      </param>
      <param name="param_o_dir" type="text" size="30" value="$__new_file_path__" label="output directory for 2nd to last solution" help="(-o_dir) ">
        <sanitizer>
          <valid initial="string.printable">
            <remove value="'"/>
            <remove value="&quot;"/>
          </valid>
        </sanitizer>
      </param>
    </expand>
  </inputs>
  <outputs>
    <data name="param_o" format="pdb"/>
  </outputs>
  <help>This tool splits a pdb file into its chains.

</help>
</tool>