Mercurial > repos > rnateam > mirdeep2

annotate tool_dependencies.xml @ 2:d0faf81ccc99 draft

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author rnateam
date Wed, 04 Feb 2015 13:04:49 -0500
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="perl" version="5.18.1">
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4 <repository changeset_revision="114b6af405fa" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
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5 </package>
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6 <package name="bowtie" version="0.12.7">
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7 <repository changeset_revision="9f9f38617a98" name="package_bowtie_0_12_7" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
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8 </package>
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9 <package name="vienna_rna" version="1.8.5">
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10 <repository changeset_revision="6757330f89cd" name="package_vienna_rna_1_8" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
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11 </package>
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12 <package name="pdf_api2" version="2.023">
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13 <repository changeset_revision="b9b7fadfdb69" name="package_perl_pdf_api2_2_023" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
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14 </package>
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15 <package name="randfold" version="2.0">
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16 <repository changeset_revision="b34d2c942c79" name="package_randfold_2_0" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
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17 </package>
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18 <package name="mirdeep2_quantifier" version="2.0">
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19 <repository changeset_revision="40dc77f3730c" name="mirdeep2_quantifier" owner="rnateam" toolshed="https://toolshed.g2.bx.psu.edu" />
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20 </package>
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21 <package name="mirdeep2" version="2.0">
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22 <install version="1.0">
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23 <actions>
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24 <action type="download_by_url">https://raw.githubusercontent.com/bgruening/download_store/master/miRDeep2/miRDeep2.tar.gz</action>
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25 <action type="move_directory_files">
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26 <source_directory>.</source_directory>
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27 <destination_directory>$INSTALL_DIR</destination_directory>
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28 </action>
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29 <action type="set_environment">
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30 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
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31 </action>
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32 </actions>
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33 </install>
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34 <readme>
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35
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36 MiRDeep2 is a software package for identification of novel and known miRNAs in deep sequencing data. Furthermore, it can be used for miRNA expression profiling across samples.
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38 </readme>
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39 </package>
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40 </tool_dependency>