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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="pear" version="0.9.6">
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4 <install version="1.0">
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5 <actions_group>
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6 <actions architecture="x86_64" os="linux">
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7 <action type="download_by_url">http://sco.h-its.org/exelixis/web/software/pear/files/pear-0.9.6-bin-64.tar.gz</action>
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8 <action type="move_file">
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9 <source>pear-0.9.6-bin-64</source>
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10 <destination>$INSTALL_DIR/bin/</destination>
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11 </action>
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12 <action type="shell_command">mv $INSTALL_DIR/bin/pear-0.9.6-bin-64 $INSTALL_DIR/bin/pear</action>
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13 </actions>
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14 <actions architecture="x86_64" os="darwin">
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15 <action type="download_by_url">http://sco.h-its.org/exelixis/web/software/pear/files/pear-0.9.6-src.tar.gz</action>
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16 <action type="autoconf" />
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17 </actions>
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18 <action type="set_environment">
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19 <environment_variable action="set_to" name="PEAR_ROOT_DIR">$INSTALL_DIR</environment_variable>
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20 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
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21 </action>
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22 </actions_group>
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23 </install>
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24 <readme>PEAR - Paired-End reAd mergeR
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25 PEAR is an ultrafast, memory-efficient and highly accurate pair-end read merger.
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26 It is fully parallelized and can run with as low as just a few kilobytes of memory.
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27
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28 PEAR evaluates all possible paired-end read overlaps and without requiring the target fragment size as input.
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29 In addition, it implements a statistical test for minimizing false-positive results.
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30 Together with a highly optimized implementation, it can merge millions of paired end reads within a couple of minutes on a standard desktop computer.
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31 </readme>
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32 </package>
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33 </tool_dependency>
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