Mercurial > repos > fubar > fastqc_320

view FastQC/tool_dependencies.xml @ 3:0bec27668020 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Still trying to get the install to work
author fubar
date Mon, 03 Jun 2013 21:51:16 -0400
parents 45cd27a2ad5c
children 928de8b704bc
line wrap: on
line source

<?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/</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>