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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <!--<package name="bowtie" version="1.0.0">
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4 <repository name="package_bowtie_1_0_0" owner="iuc" />
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5 </package>-->
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6 <package name="sopra" version="1.4.6">
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7 <install version="1.0">
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8 <actions>
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9 <action type="download_by_url">http://www.physics.rutgers.edu/~anirvans/SOPRA/SOPRA_v1.4.6.zip</action>
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10 <action type="move_directory_files">
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11 <source_directory>source_codes_v1.4.6/SOPRA_with_prebuilt_contigs</source_directory>
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12 <destination_directory>$INSTALL_DIR/SOPRA_with_prebuilt_contigs</destination_directory>
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13 </action>
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14 <action type="shell_command">chmod 755 $INSTALL_DIR/SOPRA_with_prebuilt_contigs/*.pl</action>
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15 <action type="set_environment">
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16 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/SOPRA_with_prebuilt_contigs</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 </package>
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21 </tool_dependency>
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