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5
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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13
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3 <package name="bedtools" version="2.17.0">
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4 <install version="1.0">
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5 <actions>
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6 <action type="download_by_url" target_filename="bedtools-2.17.0.tar.gz">http://bedtools.googlecode.com/files/BEDTools.v2.17.0.tar.gz</action>
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7 <action type="shell_command">tar -zxvf bedtools-2.17.0.tar.gz </action>
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8 <action type="shell_command">cd bedtools-2.17.0</action>
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9 <action type="shell_command">make clean</action>
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10 <action type="shell_command">make all</action>
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11 <action type="move_directory_files">
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12 <source_directory>bin</source_directory>
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13 <destination_directory>$INSTALL_DIR/bin</destination_directory>
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14 </action>
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15 <action type="set_environment">
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16 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
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17 </action>
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18 </actions>
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19 </install>
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20 <readme>
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21 GCC version 4.1 or greater is recommended. 3.x versions will typically not compile BEDTools
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22 </readme>
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23 </package>
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24 </tool_dependency>
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25
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