Mercurial > repos > fubar > fastqc_320

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

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Still trying to get the install to work
author fubar
date Mon, 03 Jun 2013 21:51:16 -0400
parents 45cd27a2ad5c
children 928de8b704bc
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42251cbdeeac Initial commit of test for FastQC with installation of the java stuff
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <set_environment version="1.0">
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4 <environment_variable name="FASTQC_INSTALL_PATH" action="set_to">$INSTALL_DIR/jars/FastQC</environment_variable>
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5 </set_environment>
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6 <package name="FastQC" version="0.10.1">
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7 <install version="1.0">
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8 <actions>
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45cd27a2ad5c Fix for installing fastqc zip - control zip to unzip into final resting place
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9 <action type="download_file">http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.10.1.zip</action>
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10 <action type="shell_command">unzip fastqc_v0.10.1.zip -d $INSTALL_DIR/jars/</action>
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11 <action type="shell_command">chmod ugo+x $INSTALL_DIR/jars/FastQC/fastqc</action>
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12 </actions>
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13 </install>
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14 <readme>You need a working unzip command line executable to install this tool and a suitable working Java run time environment
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15 available to all potential execution nodes for this tool to work.
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16 Please see http://www.bioinformatics.babraham.ac.uk/projects/fastqc for all FastQC documentation</readme>
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17 </package>
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18 </tool_dependency>