comparison prokka.xml @ 15:3a0bd09a41dd draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/prokka/ commit f64c36610e6ca2240e4d745a5708d0d02ba4a16d"

14:eaee459f3d69

<tool id="prokka" name="Prokka" version="1.13">
    <description>Prokaryotic genome annotation</description>
    <requirements>
        <requirement type="package" version="1.13">prokka</requirement>
    </requirements>

    <tests>
        <test>
            <param name="input" ftype="fasta" value="phiX174.fasta" />
            <param name="outputs" value="gff,gbk,fna,faa,ffn,sqn,fsa,tbl,tsv,err,txt" />
            <output name="out_gff" file="out.gff" />
            <output name="out_gbk" file="out.gbk" lines_diff="14" />
            <output name="out_fna" file="out.fna" />
            <output name="out_faa" file="out.faa" />
            <output name="out_ffn" file="out.ffn" />
            <output name="out_sqn" file="out.sqn" lines_diff="84" />
            <output name="out_fsa" file="out.fsa" />
            <output name="out_tbl" file="out.tbl" />
            <output name="out_tsv" file="out.tsv" />
            <output name="out_err" file="out.err" />
            <output name="out_txt" file="out.txt" />
            <output name="out_log">
                <assert_contents>
                    <has_text text="Type 'prokka --citation' for more details." />
                </assert_contents>

15:3a0bd09a41dd

<tool id="prokka" name="Prokka" version="1.13+galaxy1">
    <description>Prokaryotic genome annotation</description>
    <requirements>
        <requirement type="package" version="1.13">prokka</requirement>
    </requirements>

    <tests>
        <test>
            <param name="input" ftype="fasta" value="phiX174.fasta" />
            <param name="outputs" value="gff,gbk,fna,faa,ffn,sqn,fsa,tbl,tsv,err,txt" />
            <output name="out_gff" file="out.gff" />
            <output name="out_gbk" >
                <assert_contents>
                    <has_text_matching expression="LOCUS" />
                    <has_text_matching expression="//" />
                </assert_contents>
            </output>
            <output name="out_fna" file="out.fna" />
            <output name="out_faa" file="out.faa" />
            <output name="out_ffn" file="out.ffn" />
            <output name="out_sqn" >
                <assert_contents>
                    <has_text_matching expression="Seq-entry" />
                    <has_text_matching expression="contig2" />
                </assert_contents>
            </output>
            <output name="out_fsa" file="out.fsa" />
            <output name="out_tbl" file="out.tbl" />
            <output name="out_tsv" file="out.tsv" />
            <output name="out_err" file="out.err" lines_diff="14" />
            <output name="out_txt" file="out.txt" />
            <output name="out_log">
                <assert_contents>
                    <has_text text="Type 'prokka --citation' for more details." />
                </assert_contents>