comparison tin.xml @ 54:5873cd7afb67 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 62a9135bf04aec398d3172d17ccd60f5242d8e82

53:080fd5739bb4

<tool id="rseqc_tin" name="Transcript Integrity Number" version="@WRAPPER_VERSION@">
    <description>
        evaluates RNA integrity at a transcript level
    </description>

    <macros>

    <!-- PDF Files contain R version, must avoid checking for diff -->
    <tests>
        <test>
            <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/>
            <param name="refgene" value="hg19_RefSeq_chr1_1-100000.bed"/>
            <output name="outputsummary" file="output.tin.summary.txt"/>
            <output name="outputxls" file="output.tin.xls"/>
        </test>
    </tests>

    <help><![CDATA[

54:5873cd7afb67

<tool id="rseqc_tin" name="Transcript Integrity Number" version="@WRAPPER_VERSION@.1">
    <description>
        evaluates RNA integrity at a transcript level
    </description>

    <macros>

    <!-- PDF Files contain R version, must avoid checking for diff -->
    <tests>
        <test>
            <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/>
            <param name="refgene" value="hg19_RefSeq_chr1_1-100000.bed"/>
            <output name="outputsummary">
                <assert_contents>
                    <has_line_matching expression="^Bam_file\tTIN\(mean\)\tTIN\(median\)\tTIN\(stdev\)$" />
                    <has_line_matching expression="^input\.bam\t8\.8709677419\d+\t8\.8709677419\d+\t0\.0$" />
                </assert_contents>
            </output>
            <output name="outputxls" file="output.tin.xls"/>
        </test>
    </tests>

    <help><![CDATA[