Mercurial > repos > iuc > package_homer_4_2

annotate tool_dependencies.xml @ 5:7a3082ed85b8 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_homer_4_2 commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
author iuc
date Tue, 22 Dec 2015 19:19:39 -0500
parents 316fe1829770
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="ghostscript" version="9.07">
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4 <repository changeset_revision="5ea650a4bc4d" name="package_ghostscript_9_07" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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5 </package>
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6 <package name="perl" version="5.18.1">
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7 <repository changeset_revision="2590d4683481" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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8 </package>
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9 <package name="weblogo" version="2.8.2">
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10 <repository changeset_revision="18d9e18fa00b" name="package_weblogo_2_8_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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11 </package>
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12 <package name="blat" version="35x1">
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13 <repository changeset_revision="c2d5d5117413" name="package_blat_35x1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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14 </package>
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15 <package name="homer" version="4.2">
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16 <install version="1.0">
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17 <actions>
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18 <action type="download_by_url">http://homer.salk.edu/homer/data/software/homer.v4.2.zip</action>
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19 <action type="set_environment_for_install">
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20 <repository changeset_revision="5ea650a4bc4d" name="package_ghostscript_9_07" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
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21 <package name="ghostscript" version="9.07" />
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22 </repository>
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23 <repository changeset_revision="18d9e18fa00b" name="package_weblogo_2_8_2" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
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24 <package name="weblogo" version="2.8.2" />
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25 </repository>
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26 <repository changeset_revision="c2d5d5117413" name="package_blat_35x1" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
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27 <package name="blat" version="35x1" />
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28 </repository>
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29 </action>
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30
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31 <action type="move_directory_files">
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32 <source_directory>.</source_directory>
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33 <destination_directory>$INSTALL_DIR/homer</destination_directory>
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34 </action>
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35
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36 <action type="set_environment">
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37 <environment_variable action="append_to" name="PATH">$INSTALL_DIR/homer/bin</environment_variable>
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38 <environment_variable action="append_to" name="PATH">$ENV[WEBLOGO_PATH]</environment_variable>
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39 <environment_variable action="append_to" name="PATH">$ENV[GHOSTSCRIPT_PATH]</environment_variable>
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40 <environment_variable action="append_to" name="PATH">$ENV[BLAT_PATH]</environment_variable>
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41 <environment_variable action="append_to" name="PATH">$ENV[PERL_ROOT_DIR]/bin</environment_variable>
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42 <environment_variable action="prepend_to" name="PERL5LIB">$ENV[PERL5LIB]</environment_variable>
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43 </action>
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44 </actions>
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45 </install>
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46 <readme>Installing HOMER requires a perl environment. http://biowhat.ucsd.edu/homer/</readme>
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47 </package>
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48 </tool_dependency>