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Fix for installing fastqc zip - control zip to unzip into final resting place
author fubar
date Mon, 03 Jun 2013 21:46:21 -0400
parents 42251cbdeeac
children 0bec27668020
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<?xml version="1.0"?>
<tool_dependency>
    <set_environment version="1.0">
        <environment_variable name="FASTQC_INSTALL_PATH" action="set_to">$INSTALL_DIR/jars/FastQC</environment_variable>   
    </set_environment>
    <package name="FastQC" version="0.10.1">
        <install version="1.0">
            <actions>
                <action type="download_file">http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.10.1.zip</action>
                <action type="shell_command">unzip fastqc_v0.10.1.zip -d $INSTALL_DIR/jars/FastQC</action>
                <action type="shell_command">chmod ugo+x $INSTALL_DIR/jars/FastQC/fastqc</action>
            </actions>
        </install>
        <readme>You need a working unzip command line executable to install this tool and a suitable working Java run time environment 
                available to all potential execution nodes for this tool to work.
                Please see http://www.bioinformatics.babraham.ac.uk/projects/fastqc for all FastQC documentation</readme>
    </package>
</tool_dependency>