public String buildInterfaceTable(String rule, String[] serviceList) throws FilterParseException {
    StringBuffer buffer = new StringBuffer();
    Filter filter = new Filter();
    Map interfaces = filter.getIPServiceMap(rule);

    Iterator i = interfaces.keySet().iterator();
    while (i.hasNext()) {
      String key = (String) i.next();
      buffer.append("<tr><td valign=\"top\">").append(key).append("</td>");
      buffer.append("<td>");

      if (serviceList != null && serviceList.length != 0) {
        Map services = (Map) interfaces.get(key);
        Iterator j = services.keySet().iterator();
        while (j.hasNext()) {
          String svc = (String) j.next();
          for (int idx = 0; idx < serviceList.length; idx++) {
            if (svc.equals(serviceList[idx])) {
              buffer.append(svc).append("<br>");
            }
          }
        }
      } else {
        buffer.append("All services");
      }
      buffer.append("</td>");

      buffer.append("</tr>");
    }

    return buffer.toString();
  }
Ejemplo n.º 2
1
  // ---------------------------------------------------------------------------
  private void printDependencies() throws TablesawException {
    m_printedDependencies = new HashSet<String>();

    try {
      PrintWriter pw = new PrintWriter(new FileWriter("dependency.txt"));

      pw.println("Targets marked with a * have already been printed");
      // Create a reduced set of stuff to print
      Set<String> ruleNames = new HashSet<String>();

      for (String name : m_nameRuleMap.keySet()) ruleNames.add(name);

      for (String name : m_nameRuleMap.keySet()) {
        Rule rule = m_nameRuleMap.get(name);
        for (String dep : rule.getDependNames()) ruleNames.remove(dep);

        for (Rule dep : rule.getDependRules()) {
          if (dep.getName() != null) ruleNames.remove(dep.getName());
        }
      }

      for (String name : ruleNames) {
        if (!name.startsWith(NAMED_RULE_PREFIX)) printDependencies(name, pw, 0);
      }

      pw.close();
    } catch (IOException ioe) {
      throw new TablesawException("Cannot write to file dependency.txt", -1);
    }
  }
Ejemplo n.º 3
1
  public void testHeadNotPopular() throws Exception {
    VersionCounts versionCounts = VersionCounts.make();

    VoteBlock vb1 = makeVoteBlock("http://test.com/foo1");
    byte[] hash1 = addVersion(vb1, "content 1 for foo1");
    byte[] hash2 = addVersion(vb1, "content 2 for foo1");

    VoteBlock vb2 = makeVoteBlock("http://test.com/foo1");
    addVersion(vb2, "content 1 for foo1");
    addVersion(vb2, "content 2 for foo1");

    VoteBlock vb3 = makeVoteBlock("http://test.com/foo1");
    addVersion(vb3, "content 3 for foo1");
    addVersion(vb3, "content 2 for foo1");

    versionCounts.vote(vb1, participant1);
    versionCounts.vote(vb2, participant2);
    versionCounts.vote(vb3, participant3);

    Map<ParticipantUserData, HashResult> repairCandidates;
    repairCandidates = versionCounts.getRepairCandidates(0);
    assertSameElements(
        SetUtil.set(participant1, participant2, participant3), repairCandidates.keySet());

    repairCandidates = versionCounts.getRepairCandidates(1);
    assertSameElements(
        SetUtil.set(participant1, participant2, participant3), repairCandidates.keySet());

    repairCandidates = versionCounts.getRepairCandidates(2);
    assertSameElements(SetUtil.set(participant1, participant2), repairCandidates.keySet());

    repairCandidates = versionCounts.getRepairCandidates(3);
    assertEmpty(repairCandidates.keySet());
  }
Ejemplo n.º 4
1
  public String findDups(String MyString) {
    if (MyString == null) {
      return "";
    }
    String dups = "";

    char[] a;
    Map<Character, Boolean> result = new HashMap<Character, Boolean>();
    Map<Character, Boolean> b = new HashMap<Character, Boolean>();

    a = MyString.toCharArray();

    for (char elm : a) {
      if (b.containsKey(elm)) {
        if (result.containsKey(elm) != true) {
          result.put(elm, true);
        }
      }
      b.put(elm, true);
    }

    for (Character c : result.keySet()) {
      dups = dups + c;
    }
    return dups;
  }
Ejemplo n.º 5
0
  public void testMultipleIdenticalVersions() throws Exception {
    VersionCounts versionCounts = VersionCounts.make();

    VoteBlock vb1 = makeVoteBlock("http://test.com/foo1");
    byte[] hash1 = addVersion(vb1, "content 1 for foo1");
    byte[] hash2 = addVersion(vb1, "content 2 for foo1");

    VoteBlock vb2 = makeVoteBlock("http://test.com/foo1");
    addVersion(vb2, "content 1 for foo1");
    addVersion(vb2, "content 1 for foo1");
    addVersion(vb2, "content 1 for foo1");
    addVersion(vb2, "content 1 for foo1");
    addVersion(vb2, "content 2 for foo1");

    VoteBlock vb3 = makeVoteBlock("http://test.com/foo1");
    addVersion(vb3, "content 1 for foo1");
    addVersion(vb3, "content 2 for foo1");
    addVersion(vb3, "content 2 for foo1");
    addVersion(vb3, "content 2 for foo1");
    addVersion(vb3, "content 2 for foo1");

    versionCounts.vote(vb1, participant1);
    versionCounts.vote(vb2, participant2);
    versionCounts.vote(vb3, participant3);

    Map<ParticipantUserData, HashResult> repairCandidates;
    repairCandidates = versionCounts.getRepairCandidates(2);
    assertSameElements(
        SetUtil.set(participant1, participant2, participant3), repairCandidates.keySet());

    // With only three candidates, no version should reach a threshold
    // of 4, unless counting multiples is wrong.
    repairCandidates = versionCounts.getRepairCandidates(4);
    assertEmpty(repairCandidates.keySet());
  }
Ejemplo n.º 6
0
  @Override
  public Response serve(IHTTPSession session) {
    Map<String, String> header = session.getHeaders();
    Map<String, String> parms = session.getParms();
    String uri = session.getUri();

    if (logRequests) {
      Log.i(TAG, session.getMethod() + " '" + uri + "' ");

      Iterator<String> e = header.keySet().iterator();
      while (e.hasNext()) {
        String value = e.next();
        Log.i(TAG, "  HDR: '" + value + "' = '" + header.get(value) + "'");
      }
      e = parms.keySet().iterator();
      while (e.hasNext()) {
        String value = e.next();
        Log.i(TAG, "  PRM: '" + value + "' = '" + parms.get(value) + "'");
      }
    }

    if (!webRoot.isDirectory()) {
      return createResponse(
          Response.Status.INTERNAL_ERROR,
          NanoHTTPD.MIME_PLAINTEXT,
          "INTERNAL ERRROR: given path is not a directory (" + webRoot + ").");
    }

    return respond(Collections.unmodifiableMap(header), uri);
  }
  public ExitCode build(
      final CompileContext context,
      final ModuleChunk chunk,
      DirtyFilesHolder<JavaSourceRootDescriptor, ModuleBuildTarget> dirtyFilesHolder,
      OutputConsumer outputConsumer)
      throws ProjectBuildException {
    if (!IS_ENABLED.get(context, Boolean.TRUE)) {
      return ExitCode.NOTHING_DONE;
    }
    try {
      final Map<File, ModuleBuildTarget> filesToCompile =
          new THashMap<File, ModuleBuildTarget>(FileUtil.FILE_HASHING_STRATEGY);

      dirtyFilesHolder.processDirtyFiles(
          new FileProcessor<JavaSourceRootDescriptor, ModuleBuildTarget>() {
            public boolean apply(
                ModuleBuildTarget target, File file, JavaSourceRootDescriptor descriptor)
                throws IOException {
              if (JAVA_SOURCES_FILTER.accept(file)) {
                filesToCompile.put(file, target);
              }
              return true;
            }
          });

      if (context.isMake()) {
        final ProjectBuilderLogger logger = context.getLoggingManager().getProjectBuilderLogger();
        if (logger.isEnabled()) {
          if (filesToCompile.size() > 0) {
            logger.logCompiledFiles(filesToCompile.keySet(), BUILDER_NAME, "Compiling files:");
          }
        }
      }

      return compile(context, chunk, dirtyFilesHolder, filesToCompile.keySet(), outputConsumer);
    } catch (ProjectBuildException e) {
      throw e;
    } catch (Exception e) {
      String message = e.getMessage();
      if (message == null) {
        final ByteArrayOutputStream out = new ByteArrayOutputStream();
        final PrintStream stream = new PrintStream(out);
        try {
          e.printStackTrace(stream);
        } finally {
          stream.close();
        }
        message = "Internal error: \n" + out.toString();
      }
      context.processMessage(new CompilerMessage(BUILDER_NAME, BuildMessage.Kind.ERROR, message));
      throw new ProjectBuildException(message, e);
    }
  }
Ejemplo n.º 8
0
 public String toString() {
   StringBuilder sb = new StringBuilder();
   sb.append("Raw lexicon:\n\n");
   for (String s : captionToRawQuery.keySet())
     sb.append(s + ":" + captionToRawQuery.get(s) + "\n");
   sb.append(
       "\n-----------------------------------------------------------------------------\n");
   sb.append("Expanded lexicon:\n\n");
   for (String s : captionToExpandedQuery.keySet())
     sb.append(s + ":" + captionToExpandedQuery.get(s) + "\n");
   return sb.toString();
 }
Ejemplo n.º 9
0
  protected Properties convertProperties(Map<String, Object> m) {
    Properties res = null;

    {
      if (m != null) {
        res = new Properties();

        Set<String> keys = m.keySet();
        for (String key : keys) {
          String value = null;

          // Set 'value':
          {
            Object o = m.get(key);
            if (o != null) {
              value = o.toString();
            }
          }

          res.setProperty(key, value);
        }
      }
    }

    return res;
  }
Ejemplo n.º 10
0
  /**
   * given a list of sequences, creates a db for use with blat
   *
   * @param seqList is the list of sequences to create the database with
   * @return the full path of the location of the database
   */
  private String dumpToFile(Map<String, String> seqList) {

    File tmpdir;
    BufferedWriter out;
    File seqFile = null;

    /*
    open temp file
     */
    try {
      seqFile = new File(tmpDirFile, "reads.fa");
      out = new BufferedWriter(new FileWriter(seqFile.getPath()));

      /*
      write out the sequences to file
      */
      for (String key : seqList.keySet()) {
        assert (seqList.get(key) != null);
        out.write(">" + key + "\n");
        out.write(seqList.get(key) + "\n");
      }

      /*
      close temp file
       */
      out.close();

    } catch (Exception e) {
      log.error(e);
      return null;
    }

    return seqFile.getPath();
  }
Ejemplo n.º 11
0
  // ---------------------------------------------------------------------------
  private void writeCache() {
    try {
      Debug.print("Writing cache");
      FileOutputStream fos = new FileOutputStream(m_cacheFile);
      ObjectOutputStream oos = new ObjectOutputStream(fos);

      oos.writeObject(m_depCache);

      oos.writeInt(m_newModificationCache.size());

      Iterator<String> it = m_newModificationCache.keySet().iterator();

      while (it.hasNext()) {
        String key = it.next();

        oos.writeUTF(key);
        oos.writeLong(m_newModificationCache.get(key));
      }

      oos.close();
    } catch (Exception e) {
      Debug.print(e.getMessage());
      StringWriter sw = new StringWriter();
      e.printStackTrace(new PrintWriter(sw));
      Debug.print(sw.toString());
    }
  }
Ejemplo n.º 12
0
  /** @param aProperties the updated properties. */
  @SuppressWarnings("rawtypes")
  final void setProperties(final Dictionary aProperties) {
    final Map<String, String> newProps = new HashMap<String, String>();

    Enumeration keys = aProperties.keys();
    while (keys.hasMoreElements()) {
      final String key = (String) keys.nextElement();
      if (!KNOWN_KEYS.contains(key) && !IGNORED_KEYS.contains(key)) {
        LOG.log(Level.WARNING, "Unknown/unsupported profile key: " + key);
        continue;
      }

      final String value = aProperties.get(key).toString();
      newProps.put(key, value.trim());
    }

    // Verify whether all known keys are defined...
    final List<String> checkedKeys = new ArrayList<String>(KNOWN_KEYS);
    checkedKeys.removeAll(newProps.keySet());
    if (!checkedKeys.isEmpty()) {
      throw new IllegalArgumentException(
          "Profile settings not complete! Missing keys are: " + checkedKeys.toString());
    }

    this.properties.putAll(newProps);

    LOG.log(
        Level.INFO,
        "New device profile settings applied for {1} ({0}) ...", //
        new Object[] {getType(), getDescription()});
  }
Ejemplo n.º 13
0
  public static boolean mapsAreIdentical(Map map1, Map map2) {
    if (map1 == null && map2 == null) {

      return (true);

    } else if (map1 == null || map2 == null) {

      return (false);
    }

    if (map1.size() != map2.size()) {

      return (false);
    }

    Iterator it = map1.keySet().iterator();

    while (it.hasNext()) {

      Object key = it.next();

      Object v1 = map1.get(key);
      Object v2 = map2.get(key);

      if (!objectsAreIdentical(v1, v2)) {

        return (false);
      }
    }

    return (true);
  }
Ejemplo n.º 14
0
 public static boolean HTTPRequestToFile(
     File file, String inUrl, String method, String data, List headers) {
   boolean success = false;
   try {
     if (file.exists()) file.delete();
   } catch (Exception e) {
     Logger.getLogger(com.bombdiggity.util.HTTPUtils.class)
         .error(
             (new StringBuilder("HTTPUtils.HTTPRequestToFile delete ("))
                 .append(file)
                 .append("): ")
                 .append(e.toString())
                 .toString());
   }
   try {
     DataOutputStream printout = null;
     DataInputStream input = null;
     URL url = new URL(inUrl);
     URLConnection urlConn = url.openConnection();
     urlConn.setDoInput(true);
     urlConn.setDoOutput(true);
     urlConn.setUseCaches(false);
     if (headers != null) {
       for (Iterator iter = headers.iterator(); iter.hasNext(); ) {
         Map nameValuePair = (Map) iter.next();
         String key;
         String value;
         for (Iterator iter2 = nameValuePair.keySet().iterator();
             iter2.hasNext();
             urlConn.setRequestProperty(key, value)) {
           key = (String) iter2.next();
           value = (String) nameValuePair.get(key);
         }
       }
     }
     if (data != null) {
       byte inData[] = data.getBytes("UTF-8");
       printout = new DataOutputStream(urlConn.getOutputStream());
       printout.write(inData);
       printout.flush();
       printout.close();
       printout = null;
     }
     input = new DataInputStream(urlConn.getInputStream());
     DataOutputStream dataOut = new DataOutputStream(new FileOutputStream(file, false));
     int rChunk = 0x10000;
     byte myData[] = new byte[rChunk];
     do {
       int bytesRead = input.read(myData, 0, rChunk);
       if (bytesRead == -1) break;
       dataOut.write(myData, 0, bytesRead);
       Thread.sleep(1L);
     } while (true);
     input.close();
     input = null;
     success = true;
   } catch (Exception exception) {
   }
   return success;
 }
Ejemplo n.º 15
0
 public Set getKeySet() {
   Set keySet;
   synchronized (this) {
     keySet = map.keySet();
   }
   return keySet;
 }
Ejemplo n.º 16
0
 /** @param args the command line arguments */
 public static void main(String[] args) throws Exception {
   BufferedReader br =
       new BufferedReader(new InputStreamReader(new FileInputStream("/var/song.txt"), "UTF-8"));
   Map map = new TreeMap();
   String line = null;
   while ((line = br.readLine()) != null) {
     System.out.println("line:" + line);
     try {
       String[] strs = line.split("\t");
       String str = " ";
       if (strs != null && strs.length >= 2) str = strs[1];
       map.put(new Integer(strs[0]), str);
     } catch (Exception e) {
       System.out.println("Opuszczam linie " + e.toString());
     }
   }
   DataOutputStream dos = new DataOutputStream(new FileOutputStream("/var/song.bin"));
   dos.writeInt(map.size());
   for (Iterator it = map.keySet().iterator(); it.hasNext(); ) {
     Integer pos = (Integer) it.next();
     String txt = (String) map.get(pos);
     dos.writeInt(pos.intValue());
     dos.writeUTF(txt);
   }
   dos.flush();
   dos.close();
 }
Ejemplo n.º 17
0
  public static void main(String[] args) throws IOException {
    if (args.length < 2) {
      System.out.println("Usage: WordSort inputfile outputfile");
      return;
    }
    String inputfile = args[0];
    String outputfile = args[1];

    /* Create the word map. Each key is a word and each value is an
     * Integer that represents the number of times the word occurs
     * in the input file.
     */

    Map<String, Integer> map = new TreeMap<String, Integer>();

    // read every line of the input file
    Scanner scanner = new Scanner(new File(inputfile));
    while (scanner.hasNext()) {
      String word = scanner.next();
      Integer count = map.get(word);
      count = (count == null ? 1 : count + 1);
      map.put(word, count);
    }
    scanner.close();

    // get the map's keys
    List<String> keys = new ArrayList<String>(map.keySet());

    // write the results to the output file
    PrintWriter out = new PrintWriter(new FileWriter(outputfile));
    for (String key : keys) {
      out.println(key + " : " + map.get(key));
    }
    out.close();
  }
Ejemplo n.º 18
0
  @Deprecated
  public static void makeCode() {
    File infile = new File("/home/hoshun/dmoz/dmoz-indexed-url");
    File outfile = new File("/home/hoshun/dmoz/generateUrlToSpecifiedCategory");
    File outformatfile = new File("/home/hoshun/dmoz/dmoz-specified-url");

    CategorizedURLs urlToCategory = new CategorizedURLs(infile, true);
    SpecifiedTopics specifiedTopics = new SpecifiedTopics();
    try {
      PrintWriter out = new PrintWriter(outfile);
      PrintWriter out2 = new PrintWriter(outformatfile);

      Map<Integer, Category> idToCategory = urlToCategory.idToCategory;
      Map<Integer, String> idToUrl = urlToCategory.idToUrl;

      for (int id : idToCategory.keySet()) {
        Category cat = idToCategory.get(id);
        if (specifiedTopics.containsCategory(cat)) {
          String url = idToUrl.get(id);

          out.printf(
              "idToCategory.put(%s,new Category(\"%s\",\"%s\"));\n", id, cat.first, cat.second);
          out.printf("idToURL.put(%s,\"%s\");\n", id, url);

          out2.printf("%s\t%s\t%s\t%s\n", id, cat.first, cat.second, url);
        }
      }

      out.close();
    } catch (Exception e) {
      e.printStackTrace();
    }
  }
Ejemplo n.º 19
0
  /**
   * Inserts multiple mappings into the replica catalog. The input is a map indexed by the LFN. The
   * value for each LFN key is a collection of replica catalog entries. Note that this operation
   * will replace existing entries.
   *
   * @param x is a map from logical directory string to list of replica catalog entries.
   * @return the number of insertions.
   * @see edu.isi.pegasus.planner.catalog.replica.ReplicaCatalogEntry
   */
  public int insert(Map x) {
    int result = 0;

    // shortcut sanity
    if (x == null || x.size() == 0) {
      return result;
    }

    for (Iterator i = x.keySet().iterator(); i.hasNext(); ) {
      String lfn = (String) i.next();
      Object val = x.get(lfn);
      if (val instanceof ReplicaCatalogEntry) {
        // permit misconfigured clients
        result += insert(lfn, (ReplicaCatalogEntry) val);
      } else {
        // this is how it should have been
        for (Iterator j = ((Collection) val).iterator(); j.hasNext(); ) {
          ReplicaCatalogEntry rce = (ReplicaCatalogEntry) j.next();
          result += insert(lfn, rce);
        }
      }
    }

    return result;
  }
  /**
   * {@inheritDoc}
   *
   * @param ctx
   */
  @Override
  public void prepareMarshal(GridCacheSharedContext ctx) throws IgniteCheckedException {
    super.prepareMarshal(ctx);

    if (ownedVals != null) {
      ownedValKeys = ownedVals.keySet();

      ownedValVals = ownedVals.values();

      for (Map.Entry<IgniteTxKey, CacheVersionedValue> entry : ownedVals.entrySet()) {
        GridCacheContext cacheCtx = ctx.cacheContext(entry.getKey().cacheId());

        entry.getKey().prepareMarshal(cacheCtx);

        entry.getValue().prepareMarshal(cacheCtx.cacheObjectContext());
      }
    }

    if (retVal != null && retVal.cacheId() != 0) {
      GridCacheContext cctx = ctx.cacheContext(retVal.cacheId());

      assert cctx != null : retVal.cacheId();

      retVal.prepareMarshal(cctx);
    }

    if (filterFailedKeys != null) {
      for (IgniteTxKey key : filterFailedKeys) {
        GridCacheContext cctx = ctx.cacheContext(key.cacheId());

        key.prepareMarshal(cctx);
      }
    }
  }
Ejemplo n.º 21
0
 private int maxTagLength() {
   int tl = 0;
   for (String tag : gappedAlignments.keySet()) {
     tl = Math.max(tl, tag.length());
   }
   return tl;
 }
Ejemplo n.º 22
0
  /** Encode a query string. The input Map contains names indexing Object[]. */
  public static String encodeQueryString(Map parameters) {
    final StringBuilder sb = new StringBuilder(100);
    boolean first = true;
    try {
      for (Object o : parameters.keySet()) {
        final String name = (String) o;
        final Object[] values = (Object[]) parameters.get(name);
        for (final Object currentValue : values) {
          if (currentValue instanceof String) {
            if (!first) sb.append('&');

            sb.append(URLEncoder.encode(name, NetUtils.STANDARD_PARAMETER_ENCODING));
            sb.append('=');
            sb.append(
                URLEncoder.encode((String) currentValue, NetUtils.STANDARD_PARAMETER_ENCODING));

            first = false;
          }
        }
      }
    } catch (UnsupportedEncodingException e) {
      // Should not happen as we are using a required encoding
      throw new OXFException(e);
    }
    return sb.toString();
  }
Ejemplo n.º 23
0
  private static boolean checkSingleExts(OCSPResponse.SingleResponse sr, int singleExtCount) {
    Map<String, Extension> singleExts;
    try {
      singleExts = sr.getSingleExtensions();
    } catch (NullPointerException npe) {
      System.out.println("Warning: Sent null singleResponse into checkSingleExts");
      return false;
    }

    for (String key : singleExts.keySet()) {
      System.out.println("singleExtension: " + singleExts.get(key));
    }

    if (singleExts.size() != singleExtCount) {
      System.out.println(
          "Single Extension count mismatch, "
              + "expected "
              + singleExtCount
              + ", got "
              + singleExts.size());
      return false;
    } else {
      return true;
    }
  }
Ejemplo n.º 24
0
 public Tag copy() {
   CompoundTag tag = new CompoundTag(getName());
   for (String key : tags.keySet()) {
     tag.put(key, tags.get(key).copy());
   }
   return tag;
 }
Ejemplo n.º 25
0
  /** gets map for all languages */
  public Map<String, String> getCaptionToQueryMap(Collection<Document> docs) {
    // identify all the langs in the docs, and the corresponding lexicons
    Set<String> languages = IndexUtils.allLanguagesInDocs(docs);
    Set<Lexicon1Lang> lexicons = new LinkedHashSet<Lexicon1Lang>();
    for (String lang : languages) {
      Lexicon1Lang lex = languageToLexicon.get(lang);
      if (lex != null) lexicons.add(lex);
      // this lexicon doesn't know about this language
      else log.warn("Warning: no support for " + lang + " in lexicon " + name);
    }

    Map<String, String> result = new LinkedHashMap<String, String>();
    // aggregate results for each lang into result
    for (Lexicon1Lang lex : lexicons) {
      Map<String, String> resultsForThisLang = lex.captionToExpandedQuery;

      for (String caption : resultsForThisLang.keySet()) {
        String queryThisLang = resultsForThisLang.get(caption);
        String query = result.get(caption);
        // if caption doesn't exist already, create a new entry, or else add to the existing set of
        // docs that match this caption
        if (query == null) result.put(caption, queryThisLang);
        else result.put(caption, query + "|" + queryThisLang);
      }
    }
    return result;
  }
  public List<String> find() throws IOException {
    //		Set<String> g1 = new HashSet<String>(Arrays.asList("HRAS", "NRAS", "KRAS"));
    //		Set<String> g2 = new HashSet<String>(Arrays.asList("BRAF"));

    Set<String> g1 = new HashSet<String>(Arrays.asList("HRAS"));
    Set<String> g2 = new HashSet<String>(Arrays.asList("NRAS", "KRAS"));

    Map<String, Double> pvals = calcDifferencePvals(g1, g2);

    System.out.println("pvals.size() = " + pvals.size());

    List<String> list = FDR.select(pvals, null, fdrThr);
    System.out.println("result size = " + list.size());

    Map<String, Boolean> dirs = getChangeDirections(list, g1, g2);

    int up = 0;
    int dw = 0;

    for (String gene : dirs.keySet()) {
      Boolean d = dirs.get(gene);
      if (d) up++;
      else dw++;
    }

    System.out.println("up = " + up);
    System.out.println("dw = " + dw);

    return list;
  }
Ejemplo n.º 27
0
  /** @see Graph#edgeSet() */
  public Set<E> edgeSet() {
    if (unmodifiableEdgeSet == null) {
      unmodifiableEdgeSet = Collections.unmodifiableSet(edgeMap.keySet());
    }

    return unmodifiableEdgeSet;
  }
 @Override
 public Map<String, Set<RefEntity>> getOldContent() {
   if (myOldProblemElements == null) return null;
   final Map<String, Set<RefEntity>> oldContents =
       new com.intellij.util.containers.HashMap<String, Set<RefEntity>>();
   final Set<RefEntity> elements = myOldProblemElements.keySet();
   for (RefEntity element : elements) {
     String groupName =
         element instanceof RefElement
             ? element.getRefManager().getGroupName((RefElement) element)
             : element.getName();
     final Set<RefEntity> collection = myContents.get(groupName);
     if (collection != null) {
       final Set<RefEntity> currentElements = new HashSet<RefEntity>(collection);
       if (RefUtil.contains(element, currentElements)) continue;
     }
     Set<RefEntity> oldContent = oldContents.get(groupName);
     if (oldContent == null) {
       oldContent = new HashSet<RefEntity>();
       oldContents.put(groupName, oldContent);
     }
     oldContent.add(element);
   }
   return oldContents;
 }
Ejemplo n.º 29
0
  private synchronized void init() throws SQLException {
    if (isClosed) return;

    // do tables exists?
    Statement stmt = conn.createStatement();
    ResultSet rs = stmt.executeQuery(TABLE_NAMES_SELECT_STMT);

    ArrayList<String> missingTables = new ArrayList(TABLES.keySet());
    while (rs.next()) {
      String tableName = rs.getString("name");
      missingTables.remove(tableName);
    }

    for (String missingTable : missingTables) {
      try {
        Statement createStmt = conn.createStatement();
        // System.out.println("Adding table "+ missingTable);
        createStmt.executeUpdate(TABLES.get(missingTable));
        createStmt.close();

      } catch (Exception e) {
        System.err.println(e.getClass().getName() + ": " + e.getMessage());
      }
    }
  }
Ejemplo n.º 30
0
  /**
   * Remove records telling what entity caps node a contact has.
   *
   * @param contact the contact
   */
  public void removeContactCapsNode(Contact contact) {
    Caps caps = null;
    String lastRemovedJid = null;

    Iterator<String> iter = userCaps.keySet().iterator();
    while (iter.hasNext()) {
      String jid = iter.next();

      if (StringUtils.parseBareAddress(jid).equals(contact.getAddress())) {
        caps = userCaps.get(jid);
        lastRemovedJid = jid;
        iter.remove();
      }
    }

    // fire only for the last one, at the end the event out
    // of the protocol will be one and for the contact
    if (caps != null) {
      UserCapsNodeListener[] listeners;
      synchronized (userCapsNodeListeners) {
        listeners = userCapsNodeListeners.toArray(NO_USER_CAPS_NODE_LISTENERS);
      }
      if (listeners.length != 0) {
        String nodeVer = caps.getNodeVer();

        for (UserCapsNodeListener listener : listeners)
          listener.userCapsNodeRemoved(lastRemovedJid, nodeVer, false);
      }
    }
  }