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3
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="metavelvet_sl" version="1.0">
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4 <install version="1.0">
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5
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5 <actions>
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3
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6 <action type="download_by_url">http://metavelvet.dna.bio.keio.ac.jp/srcSL/MetaVelvetSLv1.0.tar.gz</action>
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7 <action type="shell_command">make MAXKMERLENGTH=128 CATEGORIES=3</action>
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8 <action type="move_file">
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9 <source>meta-velvete</source>
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6
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10 <destination>$INSTALL_DIR/bin</destination>
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3
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11 </action>
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12 <action type="move_file">
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13 <source>meta-velvetg</source>
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6
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14 <destination>$INSTALL_DIR/bin</destination>
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3
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15 </action>
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4
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16 </actions>
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5
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17
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4
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18 <actions>
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3
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19 <action type="download_by_url">http://www.csie.ntu.edu.tw/~cjlin/cgi-bin/libsvm.cgi?+http://www.csie.ntu.edu.tw/~cjlin/libsvm+tar.gz</action>
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20 <action type="change_directory">libsvm*</action>
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21 <action type="shell_command">make</action>
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22 <action type="move_file">
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23 <source>svm-predict</source>
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6
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24 <destination>$INSTALL_DIR/bin</destination>
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3
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25 </action>
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26 <action type="move_file">
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27 <source>svm-train</source>
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6
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28 <destination>$INSTALL_DIR/bin</destination>
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3
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29 </action>
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30
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31 <action type="move_file">
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32 <source>svm-scale</source>
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6
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33 <destination>$INSTALL_DIR/bin</destination>
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3
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34 </action>
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5
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35 </actions>
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36
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37 <actions>
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38 <action type="download_by_url">http://metavelvet.dna.bio.keio.ac.jp/srcSL/LearningModelFeatures.tar.gz</action>
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7
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39 <action type="change_directory">LearningModelFeatures</action>
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40 <action type="move_file">
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41 <source>FeatureExtract.perl</source>
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11
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42 <destination>$INSTALL_DIR/LearningModelFeatures</destination>
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5
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43 </action>
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8
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44 <action type="move_file">
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45 <source>FeatureExtractPredict.perl</source>
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11
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46 <destination>$INSTALL_DIR/LearningModelFeatures</destination>
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8
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47 </action>
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48 <action type="move_directory_files">
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10
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49 <source_directory>BLAST_map</source_directory>
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11
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50 <destination_directory>$INSTALL_DIR/LearningModelFeatures/BLAST_map</destination_directory>
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8
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51 </action>
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5
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52 </actions>
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8
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53
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5
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54
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55 <actions>
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56 <action type="download_by_url">http://metavelvet.dna.bio.keio.ac.jp/srcSL/LibraryPretrainedClassification.tar.gz</action>
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12
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57 <action type="change_directory">LibraryPretrainedClassification</action>
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11
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58 <action type="move_file">
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13
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59 <source>DeepSeaFeature.scale</source>
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11
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60 <destination>$INSTALL_DIR/LibraryPretrainedClassification</destination>
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5
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61 </action>
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11
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62 <action type="move_file">
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13
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63 <source>DeepSeaFeature.model</source>
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11
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64 <destination>$INSTALL_DIR/LibraryPretrainedClassification</destination>
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65 </action>
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13
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66
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67
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68
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69
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70
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71
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72
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3
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73 <action type="set_environment">
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74 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
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75 </action>
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76 </actions>
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77
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78 </install>
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79 </package>
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80 </tool_dependency>
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