Ejemplo n.º 1
0
  /**
   * Method called when user has finished updating a constraint.
   *
   * @param mapping The ActionMapping used to select this instance
   * @param form The optional ActionForm bean for this request (if any)
   * @param request The HTTP request we are processing
   * @param response The HTTP response we are creating
   * @return an ActionForward object defining where control goes next
   * @exception Exception if the application business logic throws an exception
   */
  @Override
  public ActionForward execute(
      ActionMapping mapping,
      ActionForm form,
      HttpServletRequest request,
      HttpServletResponse response)
      throws Exception {
    HttpSession session = request.getSession();
    final InterMineAPI im = SessionMethods.getInterMineAPI(session);
    ProfileManager pm = im.getProfileManager();
    String username = ((CreateAccountForm) form).getUsername();
    String password = ((CreateAccountForm) form).getPassword();
    pm.createNewProfile(username, password);
    Properties webProperties = SessionMethods.getWebProperties(session.getServletContext());
    try {
      MailUtils.email(username, webProperties);
      if (((CreateAccountForm) form).getMailinglist()
          && webProperties.getProperty("mail.mailing-list") != null
          && webProperties.getProperty("mail.mailing-list").length() > 0) {
        MailUtils.subscribe(username, webProperties);
      }
      SessionMethods.recordMessage(
          "You have successfully created an account, and logged in.", session);
    } catch (Exception e) {
      SessionMethods.recordError("Failed to send confirmation email", session);
    }

    /*
     * This code generates an MD5 key for the given username which is then
     * encoded in Hexadecimal. This could later be used for account
     * activation.
     *
     * try { MessageDigest md5 = MessageDigest.getInstance("MD5"); byte[]
     * buffer = username.getBytes(); md5.update(buffer); byte[] array =
     * md5.digest(); String encoded = HexBin.encode(array); } catch
     * (NoSuchAlgorithmException e) { }
     */
    doLogin(request, username, password);
    return new ActionForward("/begin.do");
  }
Ejemplo n.º 2
0
  /** {@inheritDoc} */
  @SuppressWarnings("unused")
  @Override
  public ActionForward execute(
      @SuppressWarnings("unused") ActionMapping mapping,
      @SuppressWarnings("unused") ActionForm form,
      HttpServletRequest request,
      @SuppressWarnings("unused") HttpServletResponse response)
      throws Exception {

    long startTime = System.currentTimeMillis();

    HttpSession session = request.getSession();
    InterMineAPI im = SessionMethods.getInterMineAPI(session);

    if (im.getBagManager().isAnyBagToUpgrade(SessionMethods.getProfile(session))) {
      recordError(new ActionMessage("login.upgradeListManually"), request);
    }
    // fetch & set requested object
    InterMineObject requestedObject = getRequestedObject(im, request);

    if (requestedObject != null) {
      ReportObjectFactory reportObjectFactory = SessionMethods.getReportObjects(session);
      ReportObject reportObject = reportObjectFactory.get(requestedObject);

      request.setAttribute("object", reportObject);
      request.setAttribute("reportObject", reportObject);

      request.setAttribute("requestedObject", requestedObject);

      // hell starts here
      TagManager tagManager = im.getTagManager();
      ServletContext servletContext = session.getServletContext();
      ObjectStore os = im.getObjectStore();
      String superuser = im.getProfileManager().getSuperuser();
      if (superuser.equals(SessionMethods.getProfile(session).getUsername())) {
        request.setAttribute("SHOW_TAGS", true);
      }
      // place InlineLists based on TagManager, reportObject is cached while Controller is not
      Map<String, List<InlineList>> placedInlineLists = new TreeMap<String, List<InlineList>>();
      // traverse all unplaced (non-header) InlineLists
      for (InlineList list : reportObject.getNormalInlineLists()) {
        FieldDescriptor fd = list.getDescriptor();
        String taggedType = getTaggedType(fd);

        // assign lists to any aspects they are tagged to or put in unplaced lists
        String fieldPath = fd.getClassDescriptor().getUnqualifiedName() + "." + fd.getName();
        List<Tag> tags = tagManager.getTags(null, fieldPath, taggedType, superuser);
        for (Tag tag : tags) {
          String tagName = tag.getTagName();
          if (AspectTagUtil.isAspectTag(tagName)) {
            List<InlineList> listsForAspect = placedInlineLists.get(tagName);
            if (listsForAspect == null) {
              listsForAspect = new ArrayList<InlineList>();
              placedInlineLists.put(tagName, listsForAspect);
            }
            listsForAspect.add(list);
          } else if (tagName.equals(TagNames.IM_SUMMARY)) {
            List<InlineList> summaryLists = placedInlineLists.get(tagName);
            if (summaryLists == null) {
              summaryLists = new ArrayList<InlineList>();
              placedInlineLists.put(tagName, summaryLists);
            }
            summaryLists.add(list);
          }
        }
      }

      // any lists that aren't tagged will be 'unplaced'
      List<InlineList> unplacedInlineLists =
          new ArrayList<InlineList>(reportObject.getNormalInlineLists());
      unplacedInlineLists.removeAll(placedInlineLists.values());

      long now = System.currentTimeMillis();
      LOG.info("TIME placed inline lists: " + (now - startTime) + "ms");
      long stepTime = now;

      request.setAttribute("mapOfInlineLists", placedInlineLists);
      request.setAttribute("listOfUnplacedInlineLists", unplacedInlineLists);

      Map<String, Map<String, DisplayField>> placementRefsAndCollections =
          new TreeMap<String, Map<String, DisplayField>>();
      Set<String> aspects = new LinkedHashSet<String>(SessionMethods.getCategories(servletContext));

      Set<ClassDescriptor> cds =
          os.getModel().getClassDescriptorsForClass(requestedObject.getClass());

      for (String aspect : aspects) {
        placementRefsAndCollections.put(
            TagNames.IM_ASPECT_PREFIX + aspect,
            new TreeMap<String, DisplayField>(String.CASE_INSENSITIVE_ORDER));
      }

      Map<String, DisplayField> miscRefs =
          new TreeMap<String, DisplayField>(reportObject.getRefsAndCollections());
      placementRefsAndCollections.put(TagNames.IM_ASPECT_MISC, miscRefs);

      // summary refs and colls
      Map<String, DisplayField> summaryRefsCols = new TreeMap<String, DisplayField>();
      placementRefsAndCollections.put(TagNames.IM_SUMMARY, summaryRefsCols);

      for (Iterator<Entry<String, DisplayField>> iter =
              reportObject.getRefsAndCollections().entrySet().iterator();
          iter.hasNext(); ) {
        Map.Entry<String, DisplayField> entry = iter.next();
        DisplayField df = entry.getValue();
        if (df instanceof DisplayReference) {
          categoriseBasedOnTags(
              ((DisplayReference) df).getDescriptor(),
              "reference",
              df,
              miscRefs,
              tagManager,
              superuser,
              placementRefsAndCollections,
              SessionMethods.isSuperUser(session));
        } else if (df instanceof DisplayCollection) {
          categoriseBasedOnTags(
              ((DisplayCollection) df).getDescriptor(),
              "collection",
              df,
              miscRefs,
              tagManager,
              superuser,
              placementRefsAndCollections,
              SessionMethods.isSuperUser(session));
        }
      }

      // remove any fields overridden by displayers
      removeFieldsReplacedByReportDisplayers(reportObject, placementRefsAndCollections);
      request.setAttribute("placementRefsAndCollections", placementRefsAndCollections);

      String type = reportObject.getType();
      request.setAttribute("objectType", type);

      String stableLink = PortalHelper.generatePortalLink(reportObject.getObject(), im, request);
      if (stableLink != null) {
        request.setAttribute("stableLink", stableLink);
      }

      stepTime = System.currentTimeMillis();
      startTime = stepTime;

      // attach only non empty categories
      Set<String> allClasses = new HashSet<String>();
      for (ClassDescriptor cld : cds) {
        allClasses.add(cld.getUnqualifiedName());
      }
      TemplateManager templateManager = im.getTemplateManager();
      Map<String, List<ReportDisplayer>> displayerMap = reportObject.getReportDisplayers();

      stepTime = System.currentTimeMillis();
      startTime = stepTime;

      List<String> categories = new LinkedList<String>();
      for (String aspect : aspects) {
        // 1) Displayers
        // 2) Inline Lists
        if ((displayerMap != null && displayerMap.containsKey(aspect))
            || placedInlineLists.containsKey(aspect)) {
          categories.add(aspect);
        } else {
          // 3) Templates
          if (!templateManager.getReportPageTemplatesForAspect(aspect, allClasses).isEmpty()) {
            categories.add(aspect);
          } else {
            // 4) References & Collections
            if (placementRefsAndCollections.containsKey("im:aspect:" + aspect)
                && placementRefsAndCollections.get("im:aspect:" + aspect) != null) {
              for (DisplayField df :
                  placementRefsAndCollections.get("im:aspect:" + aspect).values()) {
                categories.add(aspect);
                break;
              }
            }
          }
        }
      }
      if (!categories.isEmpty()) {
        request.setAttribute("categories", categories);
      }
      now = System.currentTimeMillis();
      LOG.info("TIME made list of categories: " + (now - stepTime) + "ms");
    }

    return null;
  }
Ejemplo n.º 3
0
 public TrackAjaxServices() {
   HttpSession session = WebContextFactory.get().getSession();
   final InterMineAPI im = SessionMethods.getInterMineAPI(session);
   uos = im.getProfileManager().getProfileObjectStoreWriter().getObjectStore();
 }