1 | package org.hathitrust.extractedfeatures;
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2 |
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3 | import java.io.BufferedInputStream;
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4 | import java.io.FileInputStream;
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5 | import java.io.FileNotFoundException;
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6 | import java.io.IOException;
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7 | import java.io.Serializable;
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8 | import org.apache.commons.cli.*;
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9 |
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10 | import org.apache.spark.api.java.*;
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11 | import org.apache.spark.api.java.function.Function;
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12 | import org.apache.spark.storage.StorageLevel;
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13 | import org.apache.spark.util.DoubleAccumulator;
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14 | import scala.Tuple2;
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15 |
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16 | import org.apache.spark.SparkConf;
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17 |
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18 | /*
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19 | import com.mongodb.spark.api.java.MongoSpark;
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20 | import org.bson.Document;
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21 | import static java.util.Arrays.asList;
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22 | */
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23 | public class ProcessForMongoDBIngest implements Serializable
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24 | {
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25 | private static final long serialVersionUID = 1L;
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26 |
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27 | protected static final int DEFAULT_FILES_PER_PARTITION = 3000;
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28 |
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29 | protected String _input_dir;
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30 | protected String _json_list_filename;
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31 |
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32 | protected int _verbosity;
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33 |
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34 | public ProcessForMongoDBIngest(String input_dir, String json_list_filename, int verbosity)
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35 | {
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36 | _input_dir = input_dir;
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37 | _json_list_filename = (json_list_filename != null) ? json_list_filename : input_dir;
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38 |
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39 | _verbosity = verbosity;
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40 | }
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41 |
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42 | protected String generateSparkAppName(String exec_mode)
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43 | {
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44 | String spark_app_name = "[" + exec_mode + "] Extracted Features: Process for MongoDB Ingest";
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45 | spark_app_name += " [" + _json_list_filename + "]";
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46 |
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47 | return spark_app_name;
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48 | }
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49 |
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50 | public void execMongoDBIngest()
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51 | {
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52 | String spark_app_name = generateSparkAppName("Per Volume");
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53 |
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54 | SparkConf spark_conf = new SparkConf().setAppName(spark_app_name);
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55 | //spark_conf.set("spark.mongodb.output.uri", "mongodb://127.0.0.1/htrc_ef.volumes");
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56 |
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57 | JavaSparkContext jsc = new JavaSparkContext(spark_conf);
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58 |
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59 | /*
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60 | JavaRDD<Document> documents = jsc.parallelize(asList(1, 2, 3, 4, 5, 6, 7, 8, 9, 10)).map
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61 | (new Function<Integer, Document>() {
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62 | public Document call(final Integer i) throws Exception {
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63 | return Document.parse("{test: " + i + "}");
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64 | }
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65 | });
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66 |
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67 | MongoSpark.save(documents);
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68 | */
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69 |
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70 | String filename_root = _json_list_filename.replaceAll(".*/","").replaceAll("\\..*$","");
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71 | String output_directory = "catalog-lang-" + filename_root + "-out";
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72 | if (ClusterFileIO.exists(output_directory))
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73 | {
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74 | System.err.println("Error: " + output_directory + " already exists. Spark unable to write output data");
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75 | jsc.close();
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76 | System.exit(1);
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77 | }
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78 |
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79 | int files_per_partition = Integer.getInteger("wcsa-ef-ingest.files-per-partition", DEFAULT_FILES_PER_PARTITION);
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80 |
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81 | JavaRDD<String> json_list_data = jsc.textFile(_json_list_filename).cache();
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82 | json_list_data.setName("JSON-file-list");
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83 |
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84 | long num_volumes = json_list_data.count();
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85 | double per_vol = 100.0/(double)num_volumes;
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86 |
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87 | int num_partitions = (int)(num_volumes/files_per_partition)+1;
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88 |
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89 | JavaRDD<String> json_list_data_rp = json_list_data.repartition(num_partitions);
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90 | json_list_data_rp.setName("JSON-file-list--repartitioned");
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91 |
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92 | DoubleAccumulator per_vol_progress_accum = jsc.sc().doubleAccumulator("Per Volume Progress Percent");
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93 |
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94 | boolean strict_file_io = Boolean.getBoolean("wcsa-ef-ingest.strict-file-io");
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95 |
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96 | PerVolumeMongoDBDocumentsMap volume_mongodb_docs_map
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97 | = new PerVolumeMongoDBDocumentsMap(_input_dir,_verbosity,
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98 | per_vol_progress_accum,per_vol,
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99 | strict_file_io);
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100 | JavaRDD<Integer> volume_page_counts = json_list_data_rp.map(volume_mongodb_docs_map);
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101 | volume_page_counts.persist(StorageLevel.MEMORY_AND_DISK());
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102 | volume_page_counts.setName("volume-page-counts");
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103 |
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104 | Integer total_page_count = volume_page_counts.reduce((a, b) -> a + b);
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105 | jsc.close();
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106 |
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107 | System.out.println("################");
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108 | System.out.println("# Total Page Count = " + total_page_count);
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109 | System.out.println("################");
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110 | }
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111 |
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112 |
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113 | public static void print_usage(HelpFormatter formatter, Options options)
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114 | {
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115 | formatter.printHelp("RUN.bash [options] input-dir json-filelist.txt", options);
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116 | }
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117 |
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118 | public static void main(String[] args) {
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119 | Options options = new Options();
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120 |
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121 | Option verbosity_opt = new Option("v", "verbosity", true,
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122 | "Set to control the level of debugging output [0=none, 1=some, 2=lots]");
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123 | verbosity_opt.setRequired(false);
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124 | options.addOption(verbosity_opt);
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125 |
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126 | Option properties_opt = new Option("p", "properties", true,
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127 | "Read in the specified Java properties file");
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128 | properties_opt.setRequired(false);
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129 | options.addOption(properties_opt);
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130 |
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131 | // Need to work with CLI v1.2 as this is the JAR that is bundled with Hadoop/Spark
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132 | CommandLineParser parser = new GnuParser();
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133 | //CommandLineParser parser = new DefaultParser(); // if working with CLI v1.3 and above
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134 |
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135 | HelpFormatter formatter = new HelpFormatter();
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136 | CommandLine cmd = null;
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137 |
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138 | try {
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139 | cmd = parser.parse(options, args);
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140 | }
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141 | catch (ParseException e) {
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142 | System.err.println(e.getMessage());
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143 | print_usage(formatter,options);
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144 | System.exit(1);
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145 | }
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146 |
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147 | String verbosity_str = cmd.getOptionValue("verbosity","1");
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148 | int verbosity = Integer.parseInt(verbosity_str);
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149 |
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150 | String property_filename = cmd.getOptionValue("properties",null);
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151 |
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152 | String[] filtered_args = cmd.getArgs();
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153 |
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154 | if (filtered_args.length != 2) {
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155 | print_usage(formatter,options);
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156 | System.exit(1);
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157 | }
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158 |
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159 | if (property_filename != null) {
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160 | try {
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161 | FileInputStream fis = new FileInputStream(property_filename);
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162 | BufferedInputStream bis = new BufferedInputStream(fis);
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163 |
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164 | System.getProperties().load(bis);
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165 | }
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166 | catch (FileNotFoundException e) {
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167 | e.printStackTrace();
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168 | System.err.println("File not found: '" + property_filename + "'. Skipping property file read");
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169 | }
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170 | catch (IOException e) {
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171 | System.err.println("IO Exception for: '" + property_filename + "'. Malformed syntax? Skipping property file read");
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172 | }
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173 | }
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174 |
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175 | String input_dir = filtered_args[0];
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176 | String json_list_filename = filtered_args[1];
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177 |
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178 | ProcessForMongoDBIngest process_mongodb_ingest
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179 | = new ProcessForMongoDBIngest(input_dir,json_list_filename,verbosity);
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180 |
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181 | process_mongodb_ingest.execMongoDBIngest();
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182 |
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183 | }
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184 | }
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