comparison bismark_methylation_extractor.xml @ 22:047eb877b6f0 draft

Uploaded

21:507901240749

<tool id="bismark_methylation_extractor" name="Bismark Meth. Extractor" version="0.10.2">
    <!-- Wrapper compatible with Bismark version 0.10 -->
    <description>Reports on methylation status of reads mapped by Bismark</description>
    <!--<version_command>bismark_methylation_extractor version</version_command>-->
    <requirements>
        <requirement type="set_environment">SCRIPT_PATH</requirement>
        <requirement type="package" version="0.12.8">bowtie</requirement>
        <requirement type="package" version="2.1.0">bowtie2</requirement>
    </requirements>
    <parallelism method="basic"></parallelism>
    <command interpreter="python">
<![CDATA[
        bismark_methylation_extractor.py

        --infile $input

        --bismark_path \$SCRIPT_PATH

        #if $singlePaired.sPaired == "single":
            --single-end
        #else:
            --paired-end

22:047eb877b6f0

<tool id="bismark_methylation_extractor" name="Bismark Meth. Extractor" version="0.14.3">
    <!-- Wrapper compatible with Bismark version 0.10 -->
    <description>Reports on methylation status of reads mapped by Bismark</description>
    <!--<version_command>bismark_methylation_extractor version</version_command>-->
    <requirements>
        <requirement type="package" version="1.0.0">bowtie</requirement>
        <requirement type="package" version="2.2.5">bowtie2</requirement>
    </requirements>
    <parallelism method="basic"></parallelism>
    <command interpreter="python">
<![CDATA[
        bismark_methylation_extractor.py

        --infile $input

        --bismark_path $__tool_directory__

        #if $singlePaired.sPaired == "single":
            --single-end
        #else:
            --paired-end