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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3
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4
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4 <!-- PACKAGES -->
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5 <package name="R" version="3.0.3">
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6 <repository changeset_revision="9ff23e0b280b" name="package_r_3_0_3" owner="iuc" prior_installation_required="TRUE" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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7 <readme>Let's see where this msg appears...R</readme>
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8 </package>
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9
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5
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10 <package name="samtools" version="0.1.19">
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11 <repository changeset_revision="233326db3402" name="package_samtools_0_1_19" owner="devteam" prior_installation_required="TRUE" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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12 <readme>Let's see where this msg appears...samtools</readme>
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13 </package>
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14
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15 <package name="bcftools" version="2">
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16 <repository changeset_revision="5f9ba601748e" name="bcftools" owner="iuc" prior_installation_required="TRUE" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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17 <readme>Let's see where this msg appears...bcftools</readme>
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18 </package>
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19
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20 <package name="snpeff" version="3.4">
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21 <repository changeset_revision="7fb1061d905a" name="package_snpeff_3_4" owner="jjohnson" prior_installation_required="TRUE" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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22 <readme>Let's see where this msg appears...snpeff</readme>
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23 </package>
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24
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25 <package name="varscan" version="2">
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26 <repository changeset_revision="f82940004c84" name="varscan_version_2" owner="devteam" prior_installation_required="TRUE" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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27 <readme>Let's see where this msg appears...varscan</readme>
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28 </package>
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29
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30 <!-- ENV -->
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31 <set_environment version="1.0">
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32 <environment_variable action="set_to" name="TOOL_DIR">$REPOSITORY_INSTALL_DIR</environment_variable>
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33 <readme>Let's see where this msg appears...ENV VAR</readme>
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34 </set_environment>
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35
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36 <!--<environment_variable action="set_to" name="VARSCAN_DIR">$JAVA_JAR_PATH</environment_variable>-->
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37
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38 </tool_dependency>
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