Example usage for java.util LinkedList addAll

Introduction

In this page you can find the example usage for java.util LinkedList addAll.

Prototype

public boolean addAll(Collection<? extends E> c) 

Source Link

Document

Appends all of the elements in the specified collection to the end of this list, in the order that they are returned by the specified collection's iterator.

Usage

From source file:org.trnltk.experiment.bruteforce.BruteForceExperiments.java

@Test
public void shouldParseTbmmJournal_b0241h_andCreateRootHistogram() throws IOException {
    final File tokenizedFile = new File("core/src/test/resources/tokenizer/tbmm_b0241h_tokenized.txt");
    final List<String> lines = Files.readLines(tokenizedFile, Charsets.UTF_8);
    final LinkedList<String> words = new LinkedList<String>();
    for (String line : lines) {
        words.addAll(Lists.newArrayList(Splitter.on(" ").trimResults().omitEmptyStrings().split(line)));
    }/*w ww . j  av  a  2  s.c om*/

    final HashMultiset<Root> roots = HashMultiset.create(words.size() * 4);
    final HashMultiset<String> lemmas = HashMultiset.create(words.size() * 4);

    for (String word : words) {
        final LinkedList<MorphemeContainer> morphemeContainers = parser.parse(new TurkishSequence(word));
        if (morphemeContainers.isEmpty())
            System.out.println("Word is not parsable " + word);

        final List<Root> rootsForWord = Lists.transform(morphemeContainers,
                new Function<MorphemeContainer, Root>() {
                    @Override
                    public Root apply(MorphemeContainer input) {
                        return input.getRoot();
                    }
                });

        final List<String> lemmasForWord = Lists.transform(morphemeContainers,
                new Function<MorphemeContainer, String>() {
                    @Override
                    public String apply(MorphemeContainer input) {
                        return input.getRoot().getLexeme().getLemma();
                    }
                });

        roots.addAll(rootsForWord);
        lemmas.addAll(lemmasForWord);

        if (roots.size() > 50000)
            break;
    }

    System.out.println("Found lemma count " + lemmas.size());
    final ImmutableMultiset<String> lemmasSortedByCount = Multisets.copyHighestCountFirst(lemmas);
    for (Multiset.Entry<String> stringEntry : lemmasSortedByCount.entrySet()) {
        final String lemma = stringEntry.getElement();
        final int count = stringEntry.getCount();
        System.out.println(String.format("%5d ", count) + lemma);
    }

    System.out.println("Found root count " + roots.size());
    //        final ImmutableMultiset<Root> rootsSortedByCount = Multisets.copyHighestCountFirst(roots);
    //        for (Multiset.Entry<Root> rootEntry : rootsSortedByCount.entrySet()) {
    //            final Root root = rootEntry.getElement();
    //            final int count = rootEntry.getCount();
    //            System.out.println(String.format("%5d ", count) + root.toString());
    //        }
}

---

From source file:com.act.reachables.CladeTraversal.java

/**
 * This function traverses the reachables tree from the given start point using BFS, adds all the chemical's derivatives
 * to a file based on if they pass the mechanistic validator, and the derivatives' reaction pathway from the target
 * is also logged. Finally, for all the reactions that did not pass the mechanistic validator, we render those reactions
 * for furthur analysis into a directory.
 *
 * @param startPointId            - The start point node id to traverse from
 * @param validatedInchisFileName - The file containing all the derivative inchis that pass the validator.
 * @param reactionPathwayFileName - The file containing the reaction pathway information from source to target.
 * @param renderedReactionDirName - The directory containing all the rendered chemical reactions that failed the
 *                                mechanistic validator.
 * @throws IOException//w  ww  .  j av a2 s  .  c om
 */
private void traverseTreeFromStartPoint(Long startPointId, String validatedInchisFileName,
        String reactionPathwayFileName, String renderedReactionDirName) throws IOException {
    ReactionRenderer render = new ReactionRenderer();
    PrintWriter validatedInchisWriter = new PrintWriter(validatedInchisFileName, "UTF-8");
    PrintWriter reactionPathwayWriter = new PrintWriter(reactionPathwayFileName, "UTF-8");

    LinkedList<Long> queue = new LinkedList<>();
    queue.addAll(this.parentToChildren.get(startPointId));

    while (!queue.isEmpty()) {
        Long candidateId = queue.pop();
        validatedInchisWriter.println(db.readChemicalFromInKnowledgeGraph(candidateId).getInChI());
        reactionPathwayWriter.println(formatPathFromSrcToDerivativeOfSrc(startPointId, candidateId));

        Set<Long> children = this.parentToChildren.get(candidateId);
        if (children != null) {
            for (Long child : children) {
                for (Long rxnId : rxnIdsForEdge(candidateId, child)) {
                    // In the case of a negative rxn id, this signifies the reaction is happening in reverse to what is
                    // referenced in the DB. In order to get the correct db index, one has to transform this negative reaction
                    // into its actual id.
                    if (rxnId < 0) {
                        rxnId = Reaction.reverseNegativeId(rxnId);
                    }

                    // Validate the reaction and only add its children to the queue if the reaction makes sense to our internal
                    // ros and the child is not in the queue already.
                    Map<Integer, List<Ero>> validatorResults = this.validator.validateOneReaction(rxnId);
                    if (validatorResults != null && validatorResults.size() > 0 && !queue.contains(child)) {
                        queue.add(child);
                    } else {
                        try {
                            render.drawReaction(db.getReadDB(), rxnId, renderedReactionDirName, true);
                        } catch (Exception e) {
                            LOGGER.error(
                                    "Error caught when trying to draw and save reaction %d with error message: %s",
                                    rxnId, e.getMessage());
                        }
                    }
                }
            }
        }
    }

    reactionPathwayWriter.close();
    validatedInchisWriter.close();
}

---

From source file:org.cloudfoundry.identity.uaa.integration.util.IntegrationTestUtils.java

public static ScimGroup createOrUpdateGroup(RestTemplate client, String url, ScimGroup scimGroup) {
    //dont modify the actual argument
    LinkedList<ScimGroupMember> members = new LinkedList<>(scimGroup.getMembers());
    ScimGroup existing = getGroup(client, url, scimGroup.getDisplayName());
    if (existing != null) {
        members.addAll(existing.getMembers());
    }//  w w w  .  jav a 2s  .  c  o m
    scimGroup.setMembers(members);
    if (existing != null) {
        scimGroup.setId(existing.getId());
        client.put(url + "/Groups/{id}", scimGroup, scimGroup.getId());
        return scimGroup;
    } else {
        ResponseEntity<String> group = client.postForEntity(url + "/Groups", scimGroup, String.class);
        if (group.getStatusCode() == HttpStatus.CREATED) {
            return JsonUtils.readValue(group.getBody(), ScimGroup.class);
        } else {
            throw new IllegalStateException("Invalid return code:" + group.getStatusCode());
        }
    }
}

---

From source file:net.erdfelt.android.sdkfido.configer.ConfigCmdLineParser.java

public void parse(String[] args) throws CmdLineParseException {
    LinkedList<String> arglist = new LinkedList<String>();
    arglist.addAll(Arrays.asList(args));

    // Quick Help
    if (arglist.contains("--" + OPT_HELP)) {
        usage();/*from   www  .  jav  a2s  . c  o  m*/
        return;
    }

    // Configuration File Option
    int idx = arglist.indexOf("--" + OPT_CONFIG);
    if (idx >= 0) {
        if (idx + 1 > arglist.size()) {
            throw new CmdLineParseException("Expected <File> parameter for option: --" + OPT_CONFIG);
        }
        String value = arglist.get(idx + 1);
        File file = (File) ConvertUtils.convert(value, File.class);

        this.configer.setPersistFile(file);

        arglist.remove(idx + 1);
        arglist.remove(idx);
    }

    // Save Options Option
    boolean saveOptions = false;

    idx = arglist.indexOf("--" + OPT_SAVE);
    if (idx >= 0) {
        saveOptions = true;
        arglist.remove(idx);
    }

    // Restore from persist first.
    try {
        configer.restore();
    } catch (IOException e) {
        throw new CmdLineParseException("Unable to load configuration: " + e.getMessage(), e);
    }

    // Set values from command line now.
    String value;
    ListIterator<String> iter = arglist.listIterator();
    while (iter.hasNext()) {
        String arg = iter.next();
        if (arg.startsWith("--")) {
            // Its an option.
            String optname = arg.substring(2);

            Configurable cfgrbl = configer.getConfigurable(optname);

            if (cfgrbl == null) {
                throw new CmdLineParseException("Invalid Option: " + arg);
            }

            if (!iter.hasNext()) {
                throw new CmdLineParseException(
                        "Expected <" + cfgrbl.getType() + "> parameter for option: " + arg);
            }
            value = iter.next();
            configer.setValue(optname, value);
            continue; // process next arg
        }

        // All others are considered args.
        addToRawArgs(arg);
    }

    // Save options (if specified)
    if (saveOptions) {
        try {
            configer.persist();
        } catch (IOException e) {
            throw new CmdLineParseException("Unable to save configuration: " + e.getMessage(), e);
        }
    }
}

---

From source file:org.pf9.pangu.app.act.rest.diagram.services.ProcessInstanceHighlightsResource.java

/**
 * getHighLightedFlows/*from  w ww  .  j a v  a2  s. c  o  m*/
 * 
 * @param processDefinition
 * @param processInstanceId
 * @return
 */
private List<String> getHighLightedFlows(ProcessDefinitionEntity processDefinition, String processInstanceId) {

    List<String> highLightedFlows = new ArrayList<String>();

    List<HistoricActivityInstance> historicActivityInstances = historyService
            .createHistoricActivityInstanceQuery().processInstanceId(processInstanceId)
            //order by startime asc is not correct. use default order is correct.
            //.orderByHistoricActivityInstanceStartTime().asc()/*.orderByActivityId().asc()*/
            .list();

    LinkedList<HistoricActivityInstance> hisActInstList = new LinkedList<HistoricActivityInstance>();
    hisActInstList.addAll(historicActivityInstances);

    getHighlightedFlows(processDefinition.getActivities(), hisActInstList, highLightedFlows);

    return highLightedFlows;
}

---

From source file:org.apache.hadoop.hbase.replication.regionserver.DumpReplicationQueues.java

@Override
public int run(String[] args) throws Exception {

    int errCode = -1;
    LinkedList<String> argv = new LinkedList<String>();
    argv.addAll(Arrays.asList(args));
    DumpOptions opts = parseOpts(argv);/*from www  . j  a v  a 2 s. c  o  m*/

    // args remaining, print help and exit
    if (!argv.isEmpty()) {
        errCode = 0;
        printUsage();
        return errCode;
    }
    return dumpReplicationQueues(opts);
}

---

From source file:acromusashi.stream.component.rabbitmq.AbstractContextBuilder.java

/**
 * ????????????RabbitMQ??/*from w  ww  .jav  a  2  s.  c  om*/
 * 
 * @param contextList ?
 * @return RabbitMQ
 * @throws RabbitmqCommunicateException ??????????
 */
protected Map<String, List<String>> initProcessLists(List<RabbitmqClusterContext> contextList)
        throws RabbitmqCommunicateException {
    if (this.contextMap == null) {
        this.contextMap = initContextMap(contextList);
    }

    Map<String, List<String>> processLists = new HashMap<String, List<String>>();

    LinkedList<String> processList = null;
    String connectionProcess = null;
    int processIndex = 0;

    for (String queueName : this.contextMap.keySet()) {
        //???????
        RabbitmqClusterContext context = this.contextMap.get(queueName);
        processList = new LinkedList<String>(context.getMqProcessList());

        //RabbitMQ????????
        //??(0)
        processIndex = 0;
        connectionProcess = context.getConnectionProcessMap().get(getClientId(queueName));
        if (connectionProcess != null) {
            processIndex = processList.indexOf(connectionProcess);
        }

        //RabbitMQ?????RabbitMQ??
        LinkedList<String> backwardProcesses = new LinkedList<String>(processList.subList(0, processIndex));
        LinkedList<String> forwardProcesses = new LinkedList<String>(
                processList.subList(processIndex, processList.size()));
        forwardProcesses.addAll(backwardProcesses);
        processList = new LinkedList<String>(forwardProcesses);

        processLists.put(queueName, processList);
    }

    return processLists;
}

---

From source file:org.guzz.api.taglib.GhostBoundaryTag.java

public List getBoundaryLimits() {
    LinkedList m_limits = new LinkedList();

    if (inherit) {
        GhostBoundaryTag m_parent = getParentBoundary();
        if (m_parent != null) { //
            m_limits.addAll(m_parent.getBoundaryLimits());
        }// ww w.  java  2 s . com
    }

    if (additionConditions != null) {
        m_limits.addAll(this.additionConditions);
    }

    return m_limits;
}

---

From source file:cross.ObjectFactory.java

@Override
public void configure(final Configuration cfg) {
    this.cfg = cfg;
    String[] contextLocations = null;
    if (this.cfg.containsKey(CONTEXT_LOCATION_KEY)) {
        log.debug("Using user-defined location: {}", (Object[]) this.cfg.getStringArray(CONTEXT_LOCATION_KEY));
        contextLocations = cfg.getStringArray(CONTEXT_LOCATION_KEY);
    }//from   w  w w.j  a  va2 s .co  m
    if (contextLocations == null) {
        log.debug("No pipeline configuration found! Please define! Example: -c cfg/pipelines/chroma.mpl");
        return;
    }
    log.debug("Using context locations: {}", Arrays.toString(contextLocations));
    try {
        if (cfg.containsKey("maltcms.home")) {
            File f = new File(new File(cfg.getString("maltcms.home")),
                    "cfg/pipelines/xml/workflowDefaults.xml");
            if (f.exists()) {
                log.info("Using workflow defaults at: {}", f);
                cfg.setProperty("cross.applicationContext.workflowDefaults",
                        cfg.getString("cross.applicationContext.workflowDefaults.file"));
            }
        } else {
            log.info("Using workflow defaults from classpath.");
        }
        String[] defaultLocations = cfg.getStringArray("cross.applicationContext.defaultLocations");
        log.debug("Using default context locations: {}", Arrays.toString(defaultLocations));
        LinkedList<String> applicationContextLocations = new LinkedList<>(Arrays.asList(defaultLocations));
        applicationContextLocations.addAll(Arrays.asList(contextLocations));
        context = new DefaultApplicationContextFactory(applicationContextLocations, this.cfg)
                .createApplicationContext();
    } catch (Exception ex) {
        throw new RuntimeException(ex);
    }
}

---

From source file:eu.morfeoproject.fast.catalogue.planner.ScreenPlanner.java

/**
 * Creates a list of plans//from www.j a  va 2 s . c  om
 * @param goal
 * @param screens
 * @return list of plans
 */
public List<Plan> searchPlans(URI goal, List<Screen> screens) {
    LinkedList<URI> uriList = new LinkedList<URI>();
    for (Screen screen : screens) {
        uriList.add(screen.getUri());
    }

    LinkedList<Plan> planList = new LinkedList<Plan>();
    List<Plan> searchList = searchPlans(goal);
    planList.addAll(rankList(searchList, uriList));

    return reverse(removeDuplicates(planList, uriList));
}

---

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