comparison junction_saturation.xml @ 60:1421603cc95b draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 1dfe55ca83685cadb0ce8f6ebbd8c13232376d1d

59:dbedfc5f5a3c

<tool id="rseqc_junction_saturation" name="Junction Saturation" version="@TOOL_VERSION@.1">
    <description>detects splice junctions from each subset and compares them to reference gene model</description>
    <expand macro="bio_tools"/>
    <macros>
        <import>rseqc_macros.xml</import>
    </macros>

    <expand macro="requirements" />

    <expand macro="stdio" />

    <version_command><![CDATA[junction_saturation.py --version]]></version_command>

    <command><![CDATA[
        junction_saturation.py
            --input-file '${input}'
            --refgene '${refgene}'
            --out-prefix output
            --min-intron ${min_intron}
            --min-coverage ${min_coverage}
            --mapq ${mapq}

60:1421603cc95b

<tool id="rseqc_junction_saturation" name="Junction Saturation" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@GALAXY_VERSION@">
    <description>detects splice junctions from each subset and compares them to reference gene model</description>
    <expand macro="bio_tools"/>
    <macros>
        <import>rseqc_macros.xml</import>
    </macros>
    <expand macro="requirements" />
    <expand macro="stdio" />
    <version_command><![CDATA[junction_saturation.py --version]]></version_command>
    <command><![CDATA[
        @BAM_SAM_INPUTS@
        junction_saturation.py
            --input-file 'input.${extension}'
            --refgene '${refgene}'
            --out-prefix output
            --min-intron ${min_intron}
            --min-coverage ${min_coverage}
            --mapq ${mapq}