comparison glimmer_gbk_to_orf.xml @ 3:44dc09edd97b draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/glimmer commit a80e3e4aa3a40970af507bf9119cf7f1c2ffb336

2:04861c9bbf45

<tool id="glimmer_gbk_to_orf" name="Extract ORF" version="@WRAPPER_VERSION@">
    <description>from a GenBank file</description>
    <expand macro="bio_tools"/>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements"/>
    <command><![CDATA[
        python '$__tool_directory__/glimmer_gbk_to_orf.py'
            -g '$infile'
            -a '$aa_output'

    ]]></command>
    <inputs>
        <param name="infile" type='data' format="genbank" label="gene bank file"/>
    </inputs>
    <outputs>
        <data name="aa_output" format="fasta" />
        <data name="nc_output" format="fasta" />
    </outputs>
    <tests>
        <test>
            <param name="infile" value="test.gbk" />
            <output name="aa_output" file="orf_aa.fa" />

3:44dc09edd97b

<tool id="glimmer_gbk_to_orf" name="Extract ORF" version="@WRAPPER_VERSION@" profile="@PROFILE_VERSION@">
    <description>from a GenBank file</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="bio_tools"/>
    <expand macro="requirements"/>
    <command><![CDATA[
        python '$__tool_directory__/glimmer_gbk_to_orf.py'
            -g '$infile'
            -a '$aa_output'

    ]]></command>
    <inputs>
        <param name="infile" type='data' format="genbank" label="gene bank file"/>
    </inputs>
    <outputs>
        <data name="aa_output" format="fasta" label="${tool.name} on ${on_string}: Amino acids"/>
        <data name="nc_output" format="fasta" label="{tool.name} on ${on_string}: Nucleotides"/>
    </outputs>
    <tests>
        <test>
            <param name="infile" value="test.gbk" />
            <output name="aa_output" file="orf_aa.fa" />