| Line | Hits | Source |
|---|---|---|
| 1 | /* | |
| 2 | * Created on May 2, 2004 | |
| 3 | * | |
| 4 | * Copyright (c) 2004, the JUNG Project and the Regents of the University | |
| 5 | * of California | |
| 6 | * All rights reserved. | |
| 7 | * | |
| 8 | * This software is open-source under the BSD license; see either | |
| 9 | * "license.txt" or | |
| 10 | * http://jung.sourceforge.net/license.txt for a description. | |
| 11 | */ | |
| 12 | package edu.uci.ics.jung.io; | |
| 13 | ||
| 14 | import java.io.BufferedReader; | |
| 15 | import java.io.IOException; | |
| 16 | import java.io.Reader; | |
| 17 | import java.util.HashMap; | |
| 18 | import java.util.HashSet; | |
| 19 | import java.util.Map; | |
| 20 | import java.util.Set; | |
| 21 | import java.util.StringTokenizer; | |
| 22 | ||
| 23 | import org.apache.commons.collections.Predicate; | |
| 24 | ||
| 25 | import edu.uci.ics.jung.exceptions.FatalException; | |
| 26 | import edu.uci.ics.jung.graph.Graph; | |
| 27 | import edu.uci.ics.jung.graph.Vertex; | |
| 28 | import edu.uci.ics.jung.graph.decorators.StringLabeller; | |
| 29 | import edu.uci.ics.jung.graph.decorators.StringLabeller.UniqueLabelException; | |
| 30 | import edu.uci.ics.jung.utils.UserData; | |
| 31 | ||
| 32 | ||
| 33 | /** | |
| 34 | * Reads decorations for vertices in a specified partition from a | |
| 35 | * <code>Reader</code>. | |
| 36 | * | |
| 37 | * @author Joshua O'Madadhain | |
| 38 | */ | |
| 39 | 0 | public class PartitionDecorationReader |
| 40 | { | |
| 41 | ||
| 42 | /** | |
| 43 | * Decorates vertices in the specified partition with strings. The | |
| 44 | * decorations are specified by a text file with the following format: | |
| 45 | * | |
| 46 | * <pre> | |
| 47 | * vid_1 label_1 | |
| 48 | * vid_2 label_2 ... | |
| 49 | * </pre> | |
| 50 | * | |
| 51 | * <p> | |
| 52 | * The strings must be unique within this partition; duplicate strings will | |
| 53 | * cause a <code>UniqueLabelException</code> to be thrown. | |
| 54 | * | |
| 55 | * <p> | |
| 56 | * The end of the file may be artificially set by putting the string <code>end_of_file</code> | |
| 57 | * on a line by itself. | |
| 58 | * </p> | |
| 59 | * | |
| 60 | * @param bg | |
| 61 | * the bipartite graph whose vertices are to be decorated | |
| 62 | * @param name_reader | |
| 63 | * the reader containing the decoration information | |
| 64 | * @param partition | |
| 65 | * the vertex partition whose decorations are specified by this | |
| 66 | * file | |
| 67 | * @param string_key | |
| 68 | * the user data key for the decorations created | |
| 69 | */ | |
| 70 | public static void loadStrings( | |
| 71 | Graph bg, | |
| 72 | Reader name_reader, | |
| 73 | Predicate partition, | |
| 74 | Object string_key) | |
| 75 | { | |
| 76 | 0 | StringLabeller id_label = StringLabeller.getLabeller(bg, partition); |
| 77 | 0 | StringLabeller string_label = |
| 78 | StringLabeller.getLabeller(bg, string_key); | |
| 79 | try | |
| 80 | { | |
| 81 | 0 | BufferedReader br = new BufferedReader(name_reader); |
| 82 | 0 | while (br.ready()) |
| 83 | { | |
| 84 | 0 | String curLine = br.readLine(); |
| 85 | 0 | if (curLine == null || curLine.equals("end_of_file")) |
| 86 | 0 | break; |
| 87 | 0 | if (curLine.trim().length() == 0) |
| 88 | 0 | continue; |
| 89 | 0 | String[] parts = curLine.trim().split("\\s+", 2); |
| 90 | ||
| 91 | 0 | Vertex v = id_label.getVertex(parts[0]); |
| 92 | 0 | if (v == null) |
| 93 | 0 | throw new FatalException("Invalid vertex label"); |
| 94 | ||
| 95 | // attach the string to this vertex | |
| 96 | 0 | string_label.setLabel(v, parts[1]); |
| 97 | } | |
| 98 | 0 | br.close(); |
| 99 | 0 | name_reader.close(); |
| 100 | } | |
| 101 | 0 | catch (IOException ioe) |
| 102 | { | |
| 103 | 0 | throw new FatalException( |
| 104 | "Error loading names from reader " + name_reader, | |
| 105 | ioe); | |
| 106 | } | |
| 107 | 0 | catch (UniqueLabelException ule) |
| 108 | { | |
| 109 | 0 | throw new FatalException( |
| 110 | "Unexpected duplicate name in reader " + name_reader, | |
| 111 | ule); | |
| 112 | 0 | } |
| 113 | 0 | } |
| 114 | ||
| 115 | /** | |
| 116 | * Decorates vertices in the specified partition with typed count data. | |
| 117 | * The data must be contained in a text file in the following format: | |
| 118 | * | |
| 119 | * <pre> | |
| 120 | * vid_1 type_1 count_1 | |
| 121 | * vid_2 type_2 count_2 | |
| 122 | * ... | |
| 123 | * </pre> | |
| 124 | * | |
| 125 | * <p>where <code>count_i</code> (an integer value) represents | |
| 126 | * the number of elements of | |
| 127 | * type <code>type_i</code> possessed by the vertex with ID | |
| 128 | * <code>vid_i</code> (as defined by <code>BipartiteGraphReader.load()</code>) | |
| 129 | * for the <code>i</code>th line in the file.</p> | |
| 130 | * | |
| 131 | * <p>For example, the vertices might represent authors, the type might | |
| 132 | * represent a topic, and the count might represent the number of | |
| 133 | * papers that the specified author had written on that topic.<p> | |
| 134 | * | |
| 135 | * <p>If <code>normalize</code> is <code>true</code>, then the | |
| 136 | * count data will be scaled so that the counts for | |
| 137 | * each vertex will sum to 1. (In this case, each vertex must have | |
| 138 | * a positive total count value.) | |
| 139 | * | |
| 140 | * <p>The end of the file may be artificially set by putting the string | |
| 141 | * <code>end_of_file</code> on a line by itself.</p> | |
| 142 | * | |
| 143 | * @return the total number of types observed | |
| 144 | * @param bg the bipartite graph whose vertices are to be decorated | |
| 145 | * @param count_reader the reader containing the decoration data | |
| 146 | * @param partition the partition whose decorations are specified by this file | |
| 147 | * @param count_key the user key for the decorations | |
| 148 | * @param copyact the copy action for the decorations | |
| 149 | */ | |
| 150 | public static int loadCounts(Graph bg, Reader count_reader, | |
| 151 | Predicate partition, | |
| 152 | Object count_key, UserData.CopyAction copyact) | |
| 153 | { | |
| 154 | 0 | StringLabeller id_label = StringLabeller.getLabeller(bg, partition); |
| 155 | 0 | Set types = new HashSet(); |
| 156 | try | |
| 157 | { | |
| 158 | 0 | BufferedReader br = new BufferedReader(count_reader); |
| 159 | ||
| 160 | 0 | while (br.ready()) |
| 161 | { | |
| 162 | 0 | String curLine = br.readLine(); |
| 163 | 0 | if (curLine == null || curLine.equals("end_of_file")) |
| 164 | 0 | break; |
| 165 | 0 | if (curLine.trim().length() == 0) |
| 166 | 0 | continue; |
| 167 | ||
| 168 | 0 | StringTokenizer st = new StringTokenizer(curLine); |
| 169 | 0 | String entity_id = st.nextToken(); |
| 170 | 0 | String type_id = st.nextToken(); |
| 171 | 0 | Integer count = new Integer(st.nextToken()); |
| 172 | ||
| 173 | 0 | types.add(type_id); |
| 174 | ||
| 175 | 0 | Vertex v = id_label.getVertex(entity_id); |
| 176 | ||
| 177 | 0 | if (v == null) |
| 178 | 0 | throw new IllegalArgumentException("Unrecognized vertex " + entity_id); |
| 179 | ||
| 180 | 0 | Map count_map = (Map)v.getUserDatum(count_key); |
| 181 | 0 | if (count_map == null) |
| 182 | { | |
| 183 | 0 | count_map = new HashMap(); |
| 184 | 0 | v.addUserDatum(count_key, count_map, copyact); |
| 185 | } | |
| 186 | 0 | count_map.put(type_id, count); |
| 187 | ||
| 188 | } | |
| 189 | 0 | br.close(); |
| 190 | 0 | count_reader.close(); |
| 191 | } | |
| 192 | 0 | catch (IOException ioe) |
| 193 | { | |
| 194 | 0 | throw new FatalException("Error in loading counts from " + count_reader); |
| 195 | 0 | } |
| 196 | ||
| 197 | 0 | return types.size(); |
| 198 | } | |
| 199 | ||
| 200 | public static void loadCounts(Graph bg, Reader count_reader, | |
| 201 | Predicate partition, Object count_key, UserData.CopyAction copyact, | |
| 202 | int num_types) | |
| 203 | { | |
| 204 | 0 | StringLabeller id_label = StringLabeller.getLabeller(bg, partition); |
| 205 | try | |
| 206 | { | |
| 207 | 0 | BufferedReader br = new BufferedReader(count_reader); |
| 208 | ||
| 209 | 0 | while (br.ready()) |
| 210 | { | |
| 211 | 0 | String curLine = br.readLine(); |
| 212 | 0 | if (curLine == null || curLine.equals("end_of_file")) |
| 213 | 0 | break; |
| 214 | 0 | if (curLine.trim().length() == 0) |
| 215 | 0 | continue; |
| 216 | ||
| 217 | 0 | StringTokenizer st = new StringTokenizer(curLine); |
| 218 | 0 | String entity_id = st.nextToken(); |
| 219 | 0 | int type_id = new Integer(st.nextToken()).intValue() - 1; |
| 220 | 0 | int count = new Integer(st.nextToken()).intValue(); |
| 221 | ||
| 222 | 0 | Vertex v = id_label.getVertex(entity_id); |
| 223 | ||
| 224 | 0 | if (v == null) |
| 225 | 0 | throw new IllegalArgumentException("Unrecognized vertex " |
| 226 | + entity_id); | |
| 227 | ||
| 228 | 0 | double[] counts = (double[])v.getUserDatum(count_key); |
| 229 | 0 | if (counts == null) |
| 230 | { | |
| 231 | 0 | counts = new double[num_types]; |
| 232 | 0 | v.addUserDatum(count_key, counts, copyact); |
| 233 | } | |
| 234 | 0 | counts[type_id] = count; |
| 235 | } | |
| 236 | 0 | br.close(); |
| 237 | } | |
| 238 | 0 | catch (IOException ioe) |
| 239 | { | |
| 240 | 0 | throw new FatalException("Error in loading counts from " |
| 241 | + count_reader); | |
| 242 | 0 | } |
| 243 | 0 | } |
| 244 | ||
| 245 | } |
|
this report was generated by version 1.0.5 of jcoverage. |
copyright © 2003, jcoverage ltd. all rights reserved. |