Package uk.ac.bbsrc.tgac.miso.core.manager

Examples of uk.ac.bbsrc.tgac.miso.core.manager.RequestManager

70
71
72
73
74
75
76
77
78
79
80
  private final String runDirRegex = RunFolderConstants.SOLID_FOLDER_NAME_GROUP_CAPTURE_REGEX;
  private final Pattern p = Pattern.compile(runDirRegex);

  @Override
  public Set<Run> consume(Message<Map<String, List<String>>> message) throws InterrogationException {
    RequestManager requestManager = message.getHeaders().get("handler", RequestManager.class);
    Assert.notNull(requestManager, "Cannot consume MISO notification messages without a RequestManager.");
    Map<String, List<String>> statuses = message.getPayload();
    Set<Run> output = new HashSet<Run>();
    for (String key : statuses.keySet()) {
      HealthType ht = HealthType.valueOf(key);
View Full Code Here
80
81
82
83
84
85
86
87
88
89
90
  private final String runDirRegex = RunFolderConstants.LS454_FOLDER_CAPTURE_REGEX;
  private final Pattern p = Pattern.compile(runDirRegex);

  @Override
  public Set<Run> consume(Message<Map<String, List<String>>> message) throws InterrogationException {
    RequestManager requestManager = message.getHeaders().get("handler", RequestManager.class);
    Assert.notNull(requestManager, "Cannot consume MISO notification messages without a RequestManager.");
    Map<String, List<String>> statuses = message.getPayload();
    Set<Run> output = new HashSet<Run>();
    for (String key : statuses.keySet()) {
      HealthType ht = HealthType.valueOf(key);
View Full Code Here
74
75
76
77
78
79
80
81
82
83
84
  private final DateFormat anotherLogDateFormat = new SimpleDateFormat("yyyy'-'MM'-'dd'T'HH:mm:ss");
  private final DateFormat illuminaRunFolderDateFormat = new SimpleDateFormat("yyMMdd");

  @Override
  public Set<Run> consume(Message<Map<String, List<String>>> message) throws InterrogationException {
    RequestManager requestManager = message.getHeaders().get("handler", RequestManager.class);
    Assert.notNull(requestManager, "Cannot consume MISO notification messages without a RequestManager.");
    Map<String, List<String>> statuses = message.getPayload();
    Set<Run> output = new HashSet<Run>();
    for (String key : statuses.keySet()) {
      HealthType ht = HealthType.valueOf(key);
View Full Code Here
73
74
75
76
77
78
79
80
81
82
83
  private final String runDirRegex = RunFolderConstants.PACBIO_FOLDER_NAME_GROUP_CAPTURE_REGEX;
  private final Pattern p = Pattern.compile(runDirRegex);

  @Override
  public Set<Run> consume(Message<Map<String, List<String>>> message) throws InterrogationException {
    RequestManager requestManager = message.getHeaders().get("handler", RequestManager.class);
    Assert.notNull(requestManager, "Cannot consume MISO notification messages without a RequestManager.");
    Map<String, List<String>> statuses = message.getPayload();
    Set<Run> output = new HashSet<Run>();
    for (String key : statuses.keySet()) {
      HealthType ht = HealthType.valueOf(key);
View Full Code Here
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
    }

    if ("true".equals(misoProperties.get("miso.db.caching.precache.enabled"))) {
      log.info("Precaching. This may take a while.");
      try {
        RequestManager rm = (RequestManager)context.getBean("requestManager");

        User userdetails = new User("precacher", "none", true, true, true, true, AuthorityUtils.createAuthorityList("ROLE_ADMIN,ROLE_INTERNAL"));
        PreAuthenticatedAuthenticationToken newAuthentication = new PreAuthenticatedAuthenticationToken(userdetails, userdetails.getPassword(), userdetails.getAuthorities());
        newAuthentication.setAuthenticated(true);
        newAuthentication.setDetails(userdetails);

        try {
          SecurityContext sc = SecurityContextHolder.getContextHolderStrategy().getContext();
          sc.setAuthentication(newAuthentication);
          SecurityContextHolder.getContextHolderStrategy().setContext(sc);
        }
        catch (AuthenticationException a) {
          a.printStackTrace();
        }

        log.info("\\_ projects...");
        log.info("" + rm.listAllProjects().size());
        log.info("\\_ samples...");
        log.info("" + rm.listAllSamples().size());
        log.info("\\_ libraries...");
        log.info("" + rm.listAllLibraries().size());
        log.info("\\_ dilutions...");
        log.info("" + rm.listAllLibraryDilutions().size());
        log.info("" + rm.listAllEmPcrDilutions().size());
        log.info("\\_ pools...");
        log.info("" + rm.listAllPools().size());
        log.info("\\_ plates...");
        log.info("" + rm.listAllPlates().size());
        log.info("\\_ runs...");
        log.info("" + rm.listAllRuns().size());
      }
      catch (IOException e) {
        e.printStackTrace();
      }
    }
View Full Code Here
TOP

Related Classes of uk.ac.bbsrc.tgac.miso.core.manager.RequestManager

  • uk.ac.bbsrc.tgac.miso.notification.consumer.service.mechanism.IlluminaNotificationMessageConsumerMechanism
  • uk.ac.bbsrc.tgac.miso.notification.consumer.service.mechanism.LS454NotificationMessageConsumerMechanism
  • uk.ac.bbsrc.tgac.miso.notification.consumer.service.mechanism.PacBioNotificationMessageConsumerMechanism
  • uk.ac.bbsrc.tgac.miso.notification.consumer.service.mechanism.SolidNotificationMessageConsumerMechanism
  • uk.ac.bbsrc.tgac.miso.webapp.context.MisoAppListener
    • Copyright © 2018 www.massapicom. All rights reserved.
    All source code are property of their respective owners. Java is a trademark of Sun Microsystems, Inc and owned by ORACLE Inc. Contact coftware#gmail.com.