comparison lofreq_indelqual.xml @ 6:971e07ca4456 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lofreq commit 3751719cd03b8380954e2231cf91496c863056e2

5:426d707dfc47

<tool id="lofreq_indelqual" name="Insert indel qualities" version="@TOOL_VERSION@+galaxy0" profile="18.01">
    <description>into a BAM file</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements" />

        <test>
            <param name="reads" ftype="bam" value="lofreq-in1.bam" />
            <param name="selector" value="uniform" />
            <param name="insertions" value="20" />
            <param name="deletions" value="30" />
            <output name="output" file="indelqual-out1.bam" />
        </test>
        <test>
            <param name="reads" ftype="bam" value="lofreq-in1.bam" />
            <param name="selector" value="dindel" />
            <param name="ref_selector" value="history" />
            <param name="ref" ftype="fasta" value="pBR322.fa" />
            <output name="output" file="indelqual-out2.bam" />
        </test>
        <test>
            <param name="reads" ftype="bam" value="lofreq-in1.bam" />
            <param name="selector" value="uniform" />
            <param name="insertions" value="20" />
            <output name="output" file="indelqual-out3.bam" />
        </test>
    </tests>
    <help><![CDATA[
Insert indel qualities into BAM file

6:971e07ca4456

<tool id="lofreq_indelqual" name="Insert indel qualities" version="@TOOL_VERSION@+galaxy1" profile="18.01">
    <description>into a BAM file</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements" />

        <test>
            <param name="reads" ftype="bam" value="lofreq-in1.bam" />
            <param name="selector" value="uniform" />
            <param name="insertions" value="20" />
            <param name="deletions" value="30" />
            <output name="output" file="indelqual-out1.bam" ftype="bam" />
        </test>
        <test>
            <param name="reads" ftype="bam" value="lofreq-in1.bam" />
            <param name="selector" value="dindel" />
            <param name="ref_selector" value="history" />
            <param name="ref" ftype="fasta" value="pBR322.fa" />
            <output name="output" file="indelqual-out2.bam" ftype="bam" />
        </test>
        <test>
            <param name="reads" ftype="bam" value="lofreq-in1.bam" />
            <param name="selector" value="uniform" />
            <param name="insertions" value="20" />
            <output name="output" file="indelqual-out3.bam" ftype="bam" />
        </test>
    </tests>
    <help><![CDATA[
Insert indel qualities into BAM file