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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <set_environment version="1.0">
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4 </set_environment>
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5
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6 <package name="igBlastn" version="1.0.0">
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7 <install version="1.0">
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8 <actions>
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9 <action type="make_directory">$INSTALL_DIR/ncbi-igblast-1.0.0</action>
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10 <action type="make_directory">$INSTALL_DIR/ncbi-igblast-1.0.0/bin</action>
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23
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11 <action type="download_by_url" target_filename="ncbi-igblast-1.0.0-x64-linux.tar.gz">
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12 ftp://ftp.ncbi.nih.gov/blast/executables/igblast/release/1.0.0/ncbi-igblast-1.0.0-x64-linux.tar.gz
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13 </action>
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14
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15
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16 <action type="move_directory_files">
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17 <source_directory>ncbi-igblast-1.0.0</source_directory>
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18 <destination_directory>$INSTALL_DIR/ncbi-igblast-1.0.0</destination_directory>
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24
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19 </action>
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20 <action type="set_environment">
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21 <environment_variable name="IGDATA" action="set_to">$INSTALL_DIR/ncbi-igblast-1.0.0</environment_variable>
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24
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22 </action>
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23 <action type="set_environment">
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24 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/ncbi-igblast-1.0.0/bin</environment_variable>
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25 </action>
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26 <action type="shell_command">echo "$PWD"</action>
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27 <action type="shell_command">var=$("ls")</action>
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28 <action type="shell_command">echo "$var"</action>
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29 <action type="shell_command">unzip database.zip -d $INSTALL_DIR/ncbi-igblast-1.0.0/</action>
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30
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31
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32 </actions>
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33 </install>
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34 <readme>
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35 Downloads igBlast with the latest database provided by NCBI, output may change depending on the database available at ftp://ftp.ncbi.nih.gov/blast/executables/igblast/release/
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36 </readme>
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37 </package>
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38 </tool_dependency>
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