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1 <?xml version="1.0"?>
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2 <tool_dependency version="1.0">
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3 <package name="repet" version="2.5">
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4 <install version="1.0">
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5 <actions>
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6 <action type="set_environment">
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7 <environment_variable name="REPET_HOST" action="set_to">bdd_server</environment_variable>
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8 <environment_variable name="REPET_USER" action="set_to">orepet_galaxy</environment_variable>
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9 <environment_variable name="REPET_PW" action="set_to">"blabla"</environment_variable>
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10 <environment_variable name="REPET_DB" action="set_to">repet_galaxy</environment_variable>
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11 <environment_variable name="REPET_PORT" action="set_to">3615</environment_variable>
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12 <environment_variable name="REPET_PATH" action="set_to">~/tools/repet_pipe</environment_variable>
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13 <environment_variable name="REPET_JOB_MANAGER" action="set_to">SGE</environment_variable>
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14 <environment_variable name="REPET_QUEUE" action="set_to">SGE</environment_variable>
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15 <environment_variable name="REPET_JOBS" action="set_to">MySQL</environment_variable>
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16 <environment_variable name="REPET_TMP_DIR" action="set_to">/tmp</environment_variable>
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17 <environment_variable name="PYTHONPATH" action="set_to">$REPET_PATH</environment_variable>
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18 <environment_variable name="PATH" action="prepend_to">$REPET_PATH/bin</environment_variable>
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19 <environment_variable name="REPET_NUCL_BANK" action="set_to">/path/to/nucl/bank</environment_variable>
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20 <environment_variable name="REPET_PROT_BANK" action="set_to">/path/to/prot/bank</environment_variable>
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21 <environment_variable name="REPET_HMM_PROFILES" action="set_to">/path/to/hmm_profiles/bank</environment_variable>
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22 <environment_variable name="REPET_RDNA_BANK" action="set_to">/path/to/rdna/bank</environment_variable>
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23 <environment_variable name="LIB_GCC4_8_2" action="set_to"></environment_variable>
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24 <environment_variable name="LD_LIBRARY_PATH" action="set_to"></environment_variable>
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25 </action>
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26 </actions>
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27 </install>
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28 <readme> Please verify if environment variables match to your configuration : galaxy_dist/tool_dependency_dir/repet/2.5/.../env.sh</readme>
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29 </package>
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30 </tool_dependency>
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