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1 <?xml version="1.0"?>
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2 <tool_dependency>
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2
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3 <package name="bedtools2" version="2.18.2">
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4 <install version="1.0">
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5 <actions>
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6 <action type="shell_command">git clone --recursive https://github.com/arq5x/bedtools2.git</action>
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7 <action type="shell_command">git reset --hard 393fc3b9b766c76cc62e3f0df4e59ffbff3a55fb</action>
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8 <action type="shell_command">make</action>
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9 <action type="move_directory_files">
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10 <source_directory>bin</source_directory>
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11 <destination_directory>$INSTALL_DIR/bin</destination_directory>
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12 </action>
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13 <action type="set_environment">
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14 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
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15 </action>
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16 </actions>
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17 </install>
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18 <readme>
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19 BEDTools is a collection of utilities for comparing, summarizing, and intersecting genomic features in BED, GTF/GFF, VCF and BAM formats.
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20 https://github.com/arq5x/bedtools2
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21 </readme>
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22 </package>
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23 </tool_dependency>
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24
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