comparison jbrowse.xml @ 41:8774b28235bb draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 8556ea066463f5e112b6ded2c1527011ab1e3b38"

40:17359b808b01

<tool id="jbrowse" name="JBrowse" version="@TOOL_VERSION@+@WRAPPER_VERSION@">
  <description>genome browser</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements"/>
  <version_command>python '${__tool_directory__}/jbrowse.py' --version</version_command>
  <command detect_errors="aggressive"><![CDATA[
#if $action.action_select == "create":
    mkdir -p $output.files_path &&
#else:

  <outputs>
      <data format="html" name="output" label="JBrowse on $on_string - $standalone"/>
  </outputs>
  <tests>
    <test>
      <!-- gencode -->
      <param name="reference_genome|genome_type_select" value="history"/>
      <param name="reference_genome|genome" value="merlin.fa"/>
      <param name="gencode" value="1" />
      <param name="standalone" value="data" />
      <param name="uglyTestingHack" value="enabled" />

41:8774b28235bb

<tool id="jbrowse" name="JBrowse" version="@TOOL_VERSION@+@WRAPPER_VERSION@">
  <description>genome browser</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <xrefs>
    <xref type="bio.tools">jbrowse</xref>
  </xrefs>
  <expand macro="requirements"/>
  <edam_operations>
    <edam_operation>operation_0573</edam_operation>
    <edam_operation>operation_0564</edam_operation>
  </edam_operations>
  <edam_topics>
    <edam_topic>topic_3307</edam_topic>
    <edam_topic>topic_0092</edam_topic>
  </edam_topics>
  <version_command>python '${__tool_directory__}/jbrowse.py' --version</version_command>
  <command detect_errors="aggressive"><![CDATA[
#if $action.action_select == "create":
    mkdir -p $output.files_path &&
#else:

  <outputs>
      <data format="html" name="output" label="JBrowse on $on_string - $standalone"/>
  </outputs>
  <tests>
    <test>
      <param name="reference_genome|genome_type_select" value="history"/>
      <param name="reference_genome|genome" value="merlin.fa"/>
      <param name="gencode" value="1" />
      <param name="standalone" value="data" />
      <param name="uglyTestingHack" value="enabled" />