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comparison FastQC/tool_dependencies.xml @ 1:95064b2e024f draft

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author fubar
date Tue, 04 Jun 2013 21:36:30 -0400
parents 68b330b860ee
children 40b80f54e1a7
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0:68b330b860ee 1:95064b2e024f
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <set_environment version="1.0">
4 <environment_variable name="FASTQC_BINARY_PATH" action="set_to">$INSTALL_DIR/FastQC/fastqc</environment_variable>
5 </set_environment>
3 <package name="FastQC" version="0.10.1"> 6 <package name="FastQC" version="0.10.1">
4 <install version="1.0"> 7 <install version="1.0">
5 <actions> 8 <actions>
6 <action type="download_by_url">http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.10.1.zip</action> 9 <action type="download_by_url">http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.10.1.zip</action>
7 <action type="move_directory_files"> 10 <action type="move_directory_files">
8 <source_directory>../FastQC</source_directory> 11 <source_directory>../FastQC</source_directory>
9 <destination_directory>$INSTALL_DIR/FastQC</destination_directory> 12 <destination_directory>$INSTALL_DIR/FastQC</destination_directory>
10 </action> 13 </action>
11 <action type="shell_command">chmod ugo+x $INSTALL_DIR/FastQC/fastqc</action> 14 <action type="shell_command">chmod ugo+x $INSTALL_DIR/FastQC/fastqc</action>
12 <action type="set_environment">
13 <environment_variable name="FASTQC_BINARY_PATH" action="set_to">$INSTALL_DIR/FastQC/fastqc</environment_variable>
14 </action>
15 </actions> 15 </actions>
16 </install> 16 </install>
17 <readme>You need a working unzip command line executable to install this tool and a suitable working Java run time environment 17 <readme>You need a working unzip command line executable to install this tool and a suitable working Java run time environment
18 available to all potential execution nodes for this tool to work. 18 available to all potential execution nodes for this tool to work.
19 Please see http://www.bioinformatics.babraham.ac.uk/projects/fastqc for all FastQC documentation</readme> 19 Please see http://www.bioinformatics.babraham.ac.uk/projects/fastqc for all FastQC documentation</readme>