List of usage examples for org.apache.commons.collections.map ListOrderedMap size
public int size()
From source file:com.doculibre.constellio.stats.StatsCompiler.java
public String createQuery(ListOrderedMap m_queries) { StringBuilder sb = new StringBuilder(); int i = 0;//w w w .j a v a 2s. com for (Object s : m_queries.keyList()) { if ((i > 0) && (m_queries.size() > 1)) { sb.append(" "); } sb.append(s); i++; } return sb.toString(); }
From source file:com.doculibre.constellio.wicket.pages.SearchResultsPage.java
private void initComponents() { final SimpleSearch simpleSearch = getSimpleSearch(); String collectionName = simpleSearch.getCollectionName(); ConstellioUser currentUser = ConstellioSession.get().getUser(); RecordCollectionServices recordCollectionServices = ConstellioSpringUtils.getRecordCollectionServices(); RecordCollection collection = recordCollectionServices.get(collectionName); boolean userHasPermission = false; if (collection != null) { userHasPermission = (!collection.hasSearchPermission()) || (currentUser != null && currentUser.hasSearchPermission(collection)); }//from w w w.j a v a 2 s . c o m if (StringUtils.isEmpty(collectionName) || !userHasPermission) { setResponsePage(ConstellioApplication.get().getHomePage()); } else { final IModel suggestedSearchKeyListModel = new LoadableDetachableModel() { @Override protected Object load() { ListOrderedMap suggestedSearch = new ListOrderedMap(); if (simpleSearch.isQueryValid() && simpleSearch.getQuery() != null) { SpellChecker spellChecker = new SpellChecker(ConstellioApplication.get().getDictionaries()); try { if (!simpleSearch.getQuery().equals("*:*")) { suggestedSearch = spellChecker.suggest(simpleSearch.getQuery(), simpleSearch.getCollectionName()); } } catch (RuntimeException e) { e.printStackTrace(); // chec du spellchecker, pas besoin de faire planter la page } } return suggestedSearch; } }; BaseSearchResultsPageHeaderPanel headerPanel = (BaseSearchResultsPageHeaderPanel) getHeaderComponent(); headerPanel.setAdvancedForm(simpleSearch.getAdvancedSearchRule() != null); SearchFormPanel searchFormPanel = headerPanel.getSearchFormPanel(); final ThesaurusSuggestionPanel thesaurusSuggestionPanel = new ThesaurusSuggestionPanel( "thesaurusSuggestion", simpleSearch, getLocale()); add(thesaurusSuggestionPanel); SpellCheckerPanel spellCheckerPanel = new SpellCheckerPanel("spellChecker", searchFormPanel.getSearchTxtField(), searchFormPanel.getSearchButton(), suggestedSearchKeyListModel) { @SuppressWarnings("unchecked") public boolean isVisible() { boolean visible = false; if (dataProvider != null && !thesaurusSuggestionPanel.isVisible()) { RecordCollectionServices collectionServices = ConstellioSpringUtils .getRecordCollectionServices(); RecordCollection collection = collectionServices.get(simpleSearch.getCollectionName()); if (collection != null && collection.isSpellCheckerActive() && simpleSearch.getAdvancedSearchRule() == null) { ListOrderedMap spell = (ListOrderedMap) suggestedSearchKeyListModel.getObject(); if (spell.size() > 0/* && dataProvider.size() == 0 */) { for (String key : (List<String>) spell.keyList()) { if (spell.get(key) != null) { return visible = true; } } } } } return visible; } }; add(spellCheckerPanel); dataProvider = new SearchResultsDataProvider(simpleSearch, 10); WebMarkupContainer searchResultsSection = new WebMarkupContainer("searchResultsSection") { @Override public boolean isVisible() { return StringUtils.isNotBlank(simpleSearch.getLuceneQuery()); } }; add(searchResultsSection); IModel detailsLabelModel = new LoadableDetachableModel() { @Override protected Object load() { String detailsLabel; QueryResponse queryResponse = dataProvider.getQueryResponse(); long start; long nbRes; double elapsedTimeSeconds; if (queryResponse != null) { start = queryResponse.getResults().getStart(); nbRes = dataProvider.size(); elapsedTimeSeconds = (double) queryResponse.getElapsedTime() / 1000; } else { start = 0; nbRes = 0; elapsedTimeSeconds = 0; } long end = start + 10; if (nbRes < end) { end = nbRes; } String pattern = "#.####"; DecimalFormat elapsedTimeFormatter = new DecimalFormat(pattern); String elapsedTimeStr = elapsedTimeFormatter.format(elapsedTimeSeconds); String forTxt = new StringResourceModel("for", SearchResultsPage.this, null).getString(); String noResultTxt = new StringResourceModel("noResult", SearchResultsPage.this, null) .getString(); String resultsTxt = new StringResourceModel("results", SearchResultsPage.this, null) .getString(); String ofTxt = new StringResourceModel("of", SearchResultsPage.this, null).getString(); String secondsTxt = new StringResourceModel("seconds", SearchResultsPage.this, null) .getString(); String queryTxt = " "; if (simpleSearch.isQueryValid() && simpleSearch.getQuery() != null && simpleSearch.getAdvancedSearchRule() == null) { queryTxt = " " + forTxt + " " + simpleSearch.getQuery() + " "; } if (nbRes > 0) { Locale locale = getLocale(); detailsLabel = resultsTxt + " " + NumberFormatUtils.format(start + 1, locale) + " - " + NumberFormatUtils.format(end, locale) + " " + ofTxt + " " + NumberFormatUtils.format(nbRes, locale) + queryTxt + "(" + elapsedTimeStr + " " + secondsTxt + ")"; } else { detailsLabel = noResultTxt + " " + queryTxt + "(" + elapsedTimeStr + " " + secondsTxt + ")"; } String collectionName = dataProvider.getSimpleSearch().getCollectionName(); if (collectionName != null) { RecordCollectionServices collectionServices = ConstellioSpringUtils .getRecordCollectionServices(); RecordCollection collection = collectionServices.get(collectionName); Locale displayLocale = collection.getDisplayLocale(getLocale()); String collectionTitle = collection.getTitle(displayLocale); detailsLabel = collectionTitle + " > " + detailsLabel; } return detailsLabel; } }; Label detailsLabel = new Label("detailsRes", detailsLabelModel); add(detailsLabel); final IModel sortOptionsModel = new LoadableDetachableModel() { @Override protected Object load() { List<SortChoice> choices = new ArrayList<SortChoice>(); choices.add(new SortChoice(null, null, null)); String collectionName = dataProvider.getSimpleSearch().getCollectionName(); if (collectionName != null) { IndexFieldServices indexFieldServices = ConstellioSpringUtils.getIndexFieldServices(); RecordCollectionServices collectionServices = ConstellioSpringUtils .getRecordCollectionServices(); RecordCollection collection = collectionServices.get(collectionName); for (IndexField indexField : indexFieldServices.getSortableIndexFields(collection)) { String label = indexField.getLabel(IndexField.LABEL_TITLE, ConstellioSession.get().getLocale()); if (label == null || label.isEmpty()) { label = indexField.getName(); } choices.add(new SortChoice(indexField.getName(), label, "asc")); choices.add(new SortChoice(indexField.getName(), label, "desc")); } } return choices; } }; IChoiceRenderer triChoiceRenderer = new ChoiceRenderer() { @Override public Object getDisplayValue(Object object) { SortChoice choice = (SortChoice) object; String displayValue; if (choice.title == null) { displayValue = new StringResourceModel("sort.relevance", SearchResultsPage.this, null) .getString(); } else { String order = new StringResourceModel("sortOrder." + choice.order, SearchResultsPage.this, null).getString(); displayValue = choice.title + " " + order; } return displayValue; } }; IModel value = new Model(new SortChoice(simpleSearch.getSortField(), simpleSearch.getSortField(), simpleSearch.getSortOrder())); DropDownChoice sortField = new DropDownChoice("sortField", value, sortOptionsModel, triChoiceRenderer) { @Override protected boolean wantOnSelectionChangedNotifications() { return true; } @Override protected void onSelectionChanged(Object newSelection) { SortChoice choice = (SortChoice) newSelection; if (choice.name == null) { simpleSearch.setSortField(null); simpleSearch.setSortOrder(null); } else { simpleSearch.setSortField(choice.name); simpleSearch.setSortOrder(choice.order); } simpleSearch.setPage(0); PageFactoryPlugin pageFactoryPlugin = PluginFactory.getPlugin(PageFactoryPlugin.class); RequestCycle.get().setResponsePage(pageFactoryPlugin.getSearchResultsPage(), SearchResultsPage.getParameters(simpleSearch)); } @Override public boolean isVisible() { return ((List<?>) sortOptionsModel.getObject()).size() > 1; } }; searchResultsSection.add(sortField); sortField.setNullValid(false); add(new AjaxLazyLoadPanel("facetsPanel") { @Override public Component getLazyLoadComponent(String markupId) { return new FacetsPanel(markupId, dataProvider); } }); final IModel featuredLinkModel = new LoadableDetachableModel() { @Override protected Object load() { FeaturedLink suggestion; RecordCollectionServices collectionServices = ConstellioSpringUtils .getRecordCollectionServices(); FeaturedLinkServices featuredLinkServices = ConstellioSpringUtils.getFeaturedLinkServices(); Long featuredLinkId = simpleSearch.getFeaturedLinkId(); if (featuredLinkId != null) { suggestion = featuredLinkServices.get(featuredLinkId); } else { String collectionName = simpleSearch.getCollectionName(); if (simpleSearch.getAdvancedSearchRule() == null) { String text = simpleSearch.getQuery(); RecordCollection collection = collectionServices.get(collectionName); suggestion = featuredLinkServices.suggest(text, collection); if (suggestion == null) { SynonymServices synonymServices = ConstellioSpringUtils.getSynonymServices(); List<String> synonyms = synonymServices.getSynonyms(text, collectionName); if (!synonyms.isEmpty()) { for (String synonym : synonyms) { if (!synonym.equals(text)) { suggestion = featuredLinkServices.suggest(synonym, collection); } if (suggestion != null) { break; } } } } } else { suggestion = new FeaturedLink(); } } return suggestion; } }; IModel featuredLinkTitleModel = new LoadableDetachableModel() { @Override protected Object load() { FeaturedLink featuredLink = (FeaturedLink) featuredLinkModel.getObject(); return featuredLink.getTitle(getLocale()); } }; final IModel featuredLinkDescriptionModel = new LoadableDetachableModel() { @Override protected Object load() { FeaturedLink featuredLink = (FeaturedLink) featuredLinkModel.getObject(); StringBuffer descriptionSB = new StringBuffer(); String description = featuredLink.getDescription(getLocale()); if (description != null) { descriptionSB.append(description); String lookFor = "${"; int indexOfLookFor = -1; while ((indexOfLookFor = descriptionSB.indexOf(lookFor)) != -1) { int indexOfEnclosingQuote = descriptionSB.indexOf("}", indexOfLookFor); String featuredLinkIdStr = descriptionSB.substring(indexOfLookFor + lookFor.length(), indexOfEnclosingQuote); int indexOfTagBodyStart = descriptionSB.indexOf(">", indexOfEnclosingQuote) + 1; int indexOfTagBodyEnd = descriptionSB.indexOf("</a>", indexOfTagBodyStart); String capsuleQuery = descriptionSB.substring(indexOfTagBodyStart, indexOfTagBodyEnd); if (capsuleQuery.indexOf("<br/>") != -1) { capsuleQuery = StringUtils.remove(capsuleQuery, "<br/>"); } if (capsuleQuery.indexOf("<br />") != -1) { capsuleQuery = StringUtils.remove(capsuleQuery, "<br />"); } try { String linkedCapsuleURL = getFeaturedLinkURL(new Long(featuredLinkIdStr)); descriptionSB.replace(indexOfLookFor, indexOfEnclosingQuote + 1, linkedCapsuleURL); } catch (NumberFormatException e) { // Ignore } } } return descriptionSB.toString(); } private String getFeaturedLinkURL(Long featuredLinkId) { SimpleSearch clone = simpleSearch.clone(); clone.setFeaturedLinkId(featuredLinkId); PageFactoryPlugin pageFactoryPlugin = PluginFactory.getPlugin(PageFactoryPlugin.class); String url = RequestCycle.get() .urlFor(pageFactoryPlugin.getSearchResultsPage(), getParameters(clone)).toString(); return url; } }; WebMarkupContainer featuredLink = new WebMarkupContainer("featuredLink", featuredLinkModel) { @Override public boolean isVisible() { boolean visible = super.isVisible(); if (visible) { if (featuredLinkModel.getObject() != null) { String description = (String) featuredLinkDescriptionModel.getObject(); visible = StringUtils.isNotEmpty(description); } else { visible = false; } } DataView dataView = (DataView) searchResultsPanel.getDataView(); return visible && dataView.getCurrentPage() == 0; } }; searchResultsSection.add(featuredLink); featuredLink.add(new Label("title", featuredLinkTitleModel)); featuredLink.add(new WebMarkupContainer("description", featuredLinkDescriptionModel) { @Override protected void onComponentTagBody(MarkupStream markupStream, ComponentTag openTag) { String descriptionHTML = (String) getModel().getObject(); replaceComponentTagBody(markupStream, openTag, descriptionHTML); } }); searchResultsSection .add(searchResultsPanel = new SearchResultsPanel("resultatsRecherchePanel", dataProvider)); } }
From source file:edu.mayo.informatics.lexgrid.convert.directConversions.MetaThesaurusToSQL.java
/** * Adds qualification to concepts and associations in the LexGrid * repository./*from www. jav a 2s. c o m*/ * * @param aq * Qualification information from the UMLS source. * @param constructHCD * Indicates whether artificial context values should be * constructed if not provided in the UMLS information. * @param rela * The relationship attribute defined by UMLS (can be empty or * null). * @param totalCount * The total number of context links qualified previously. * @return The number of contextual links qualified in the repository for * the given UMLS info. * @throws SQLException */ protected int loadContext(AssociationQualification aq, boolean constructHCD, String rela, int totalCount) throws SQLException { // If a context identifier was assigned, use it. // If a context identifier is not assigned and the option to construct // is enabled, // derive one based on the root concept code and path to root AUI // values. int contextLinks = 0; String hcd = aq.qualifierValue; if (constructHCD && StringUtils.isBlank(hcd) && StringUtils.isNotBlank(aq.pathToRoot) && StringUtils.isNotBlank(aq.sourceConceptCode)) { MessageDigest md = getSHA1(); md.reset(); md.update(aq.pathToRoot.getBytes()); hcd = String.valueOf(md.digest(aq.sourceConceptCode.getBytes())); } if (StringUtils.isBlank(hcd)) return 0; // Iterate through the path to root and determine the codes for // participating AUIs. We maintain a LRU cache of AUIs to codes to // assist. // If the associated code is not in the cache, find and cache it here. ListOrderedMap orderedPtrAUIToCode = new ListOrderedMap(); // Break up the path to root into AUIs ... String[] auis = aq.pathToRoot.split("\\."); if (auis.length > 0) { // Check the cache for each. If not found, perform and cache the // AUI to code mapping. PreparedStatement getPTRCode = umlsConnection2_ .prepareStatement("SELECT CUI FROM MRCONSO WHERE AUI = ?"); try { String nextCode, nextAUI; for (int i = 0; i < auis.length; i++) { // Check for registered code in the cache. nextAUI = auis[i]; nextCode = (String) auiToCodeCache_.get(nextAUI); // If not cached, perform lookup ... if (nextCode == null) { getPTRCode.setString(1, nextAUI); ResultSet ptrCodes = getPTRCode.executeQuery(); int count = 0; try { while (ptrCodes.next()) { count++; nextCode = ptrCodes.getString(1); } } finally { ptrCodes.close(); } // If one to one mapping (probably should always be, but // doesn't // hurt to check), add to the cache for quick lookup // later... if (count == 1) auiToCodeCache_.put(nextAUI, nextCode); } // Was it resolved? if (nextCode != null) orderedPtrAUIToCode.put(nextAUI, nextCode); } } finally { getPTRCode.close(); } } // Ensure we have included the original AUI to code mapping from the // provided UMLS qualification info; inserted last as the root // of the path. orderedPtrAUIToCode.put(aq.sourceConceptAUI, aq.sourceConceptCode); // ///////////////////////////////////////////////////////////////////// // We have all the participating codes and AUIs. // Add context qualifiers to the text presentation of each concept // based on code/AUI pairs. // ///////////////////////////////////////////////////////////////////// for (OrderedMapIterator omi = orderedPtrAUIToCode.orderedMapIterator(); omi.hasNext();) { omi.next(); String aui = (String) omi.getKey(); String code = (String) omi.getValue(); if (code != null) qualifyConceptPresentation(code, aui, aq.codingSchemeName, aq.qualifierName, hcd); } // ///////////////////////////////////////////////////////////////////// // At this point we have taken care of all the concept qualifiers. // Now find and similarly tag each participating association link // between AUIs in the path to root chain. // ///////////////////////////////////////////////////////////////////// // Statements to find LexGrid association to concept mappings. // Check source to target (parent association as processed) // or target to source (child association as processed). // Honor the association specified in the MRHIER entry, if provided. // For example, the UMLS 'inverse_isa' is mapped on load to 'hasSubtype' // association name; account for that here. String assoc = mapRela(rela); // If a specific relation attribute (rela) was not provided, consider // all relevant // hierarchical associations (including UMLS standard or source-specific // names). String assocParam = StringUtils.isNotBlank(assoc) ? '\'' + assoc + '\'' : toCommaDelimitedWithQuotes(getHierAssocNames(aq.codingSchemeName)); // Create statements to navigate both directions (up & down the // contextual chain). PreparedStatement getRelationship_1 = sqlConnection_.prepareStatement(new StringBuffer( "SELECT " + SQLTableConstants.TBLCOL_MULTIATTRIBUTESKEY + ", " + stc_.targetEntityCodeOrId + ", " + stc_.entityCodeOrAssociationId + ", " + stc_.sourceEntityCodeOrId + " FROM ") .append(stc_.getTableName(SQLTableConstants.ENTITY_ASSOCIATION_TO_ENTITY)) .append(" WHERE " + stc_.sourceEntityCodeOrId + " = ? AND " + stc_.targetEntityCodeOrId + " = ? AND ") .append(stc_.codingSchemeNameOrId + " = ? AND " + stc_.entityCodeOrAssociationId + " IN (") .append(assocParam).append(")").toString()); PreparedStatement getRelationship_2 = sqlConnection_.prepareStatement(new StringBuffer( "SELECT " + SQLTableConstants.TBLCOL_MULTIATTRIBUTESKEY + ", " + stc_.targetEntityCodeOrId + ", " + stc_.entityCodeOrAssociationId + ", " + stc_.sourceEntityCodeOrId + " FROM ") .append(stc_.getTableName(SQLTableConstants.ENTITY_ASSOCIATION_TO_ENTITY)) .append(" WHERE " + stc_.targetEntityCodeOrId + " = ? AND " + stc_.sourceEntityCodeOrId + " = ? AND ") .append(stc_.codingSchemeNameOrId + " = ? AND " + stc_.entityCodeOrAssociationId + " IN (") .append(assocParam).append(")").toString()); // Statement to update a multi-attributes key for an association // mapping. PreparedStatement updateMAK = sqlConnection_.prepareStatement(new StringBuffer("UPDATE ") .append(stc_.getTableName(SQLTableConstants.ENTITY_ASSOCIATION_TO_ENTITY)) .append(" SET " + SQLTableConstants.TBLCOL_MULTIATTRIBUTESKEY + " = ? " + " WHERE " + stc_.codingSchemeNameOrId + " = ?") .append(" AND " + stc_.sourceEntityCodeOrId + " = ? AND " + stc_.targetEntityCodeOrId + " = ?") .append(" AND " + stc_.entityCodeOrAssociationId + " = ?").toString()); // Locate and qualify each affected association link with the context ID // ... try { PreparedStatement[] stmts = new PreparedStatement[] { getRelationship_1, getRelationship_2 }; for (int s = 0; s < stmts.length; s++) { PreparedStatement stmt = stmts[s]; for (int i = orderedPtrAUIToCode.size() - 1; i > 0; i--) { String code = (String) orderedPtrAUIToCode.getValue(i); String codePrev = (String) orderedPtrAUIToCode.getValue(i - 1); stmt.setString(1, code); stmt.setString(2, codePrev); stmt.setString(3, aq.codingSchemeName); ResultSet results = stmt.executeQuery(); try { // Iterate through all relevant association links ... while (results.next()) { String multiAttributesKey = results .getString(SQLTableConstants.TBLCOL_MULTIATTRIBUTESKEY); String targetConceptCode = results.getString(stc_.targetEntityCodeOrId); String sourceConceptCode = results.getString(stc_.sourceEntityCodeOrId); String association = results.getString(stc_.entityCodeOrAssociationId); // If there is no key to correlate to the // multi-attributes table, // construct and add now. if (multiAttributesKey == null) { StringBuffer key = new StringBuffer().append(System.currentTimeMillis()) .append((int) Math.floor((Math.random() * 100000))).append(totalCount); multiAttributesKey = key.substring(0, Math.min(50, key.length())); updateMAK.setString(1, multiAttributesKey); updateMAK.setString(2, aq.codingSchemeName); updateMAK.setString(3, sourceConceptCode); updateMAK.setString(4, targetConceptCode); updateMAK.setString(5, association); updateMAK.execute(); } // Add a context qualifier to the multi-attributes // table. try { addEntityAssociationQualifierToEntityAssociation(aq.codingSchemeName, multiAttributesKey, aq.qualifierName, hcd); contextLinks++; } catch (SQLException e) { // Because we qualify all relationships along // the PTR and // the HCD is identical for siblings at the same // PTR some // exceptions with regards to identical keys // will come up. // We try to bypass altogether if the message // indicates duplication. // However, message text can vary based on the // database engine. // Rather than exit in error, log the message // and continue. if (!e.getMessage().contains("Duplicate")) { messages_.warn("Unable to add context qualifier to association.", e); } } } } finally { results.close(); } } } } finally { updateMAK.close(); getRelationship_1.close(); getRelationship_2.close(); } return contextLinks; }
From source file:edu.mayo.informatics.lexgrid.convert.directConversions.UmlsCommon.UMLSBaseCode.java
/** * Adds qualification to concepts and associations in the LexGrid * repository./* ww w. java 2 s . c om*/ * * @param aq * Qualification information from the UMLS source. * @param constructHCD * Indicates whether artificial context values should be * constructed if not provided in the UMLS information. * @param rela * The relationship attribute defined by UMLS (can be empty or * null). * @param totalCount * The total number of context links qualified previously. * @return The number of contextual links qualified in the repository for * the given UMLS info. * @throws SQLException */ protected int loadContext(AssociationQualification aq, boolean constructHCD, String rela, int totalCount) throws SQLException { // If a context identifier was assigned, use it. // If a context identifier is not assigned and the option to construct // is enabled, // derive one based on the root concept code and path to root AUI // values. int contextLinks = 0; String hcd = aq.qualifierValue; if (constructHCD && StringUtils.isBlank(hcd) && StringUtils.isNotBlank(aq.pathToRoot) && StringUtils.isNotBlank(aq.sourceConceptCode)) { MessageDigest md = getSHA1(); md.reset(); md.update(aq.pathToRoot.getBytes()); hcd = String.valueOf(md.digest(aq.sourceConceptCode.getBytes())); } if (StringUtils.isBlank(hcd)) return 0; // Iterate through the path to root and determine the codes for // participating AUIs. We maintain a LRU cache of AUIs to codes to // assist. // If the associated code is not in the cache, find and cache it here. ListOrderedMap orderedPtrAUIToCode = new ListOrderedMap(); // Break up the path to root into AUIs ... String[] auis = aq.pathToRoot.split("\\."); if (auis.length > 0) { // Check the cache for each. If not found, perform and cache the // AUI to code mapping. PreparedStatement getPTRCode = umlsConnection2_ .prepareStatement("SELECT CODE FROM MRCONSO WHERE AUI = ?"); try { String nextCode, nextAUI; for (int i = 0; i < auis.length; i++) { // Check for registered code in the cache. nextAUI = auis[i]; nextCode = (String) auiToCodeCache_.get(nextAUI); // If not cached, perform lookup ... if (nextCode == null) { getPTRCode.setString(1, nextAUI); ResultSet ptrCodes = getPTRCode.executeQuery(); int count = 0; try { while (ptrCodes.next()) { count++; nextCode = ptrCodes.getString(1); } } finally { ptrCodes.close(); } // If one to one mapping (probably should always be, but // doesn't // hurt to check), add to the cache for quick lookup // later... if (count == 1) auiToCodeCache_.put(nextAUI, nextCode); } // Was it resolved? if (nextCode != null) orderedPtrAUIToCode.put(nextAUI, nextCode); } } finally { getPTRCode.close(); } } // Ensure we have included the original AUI to code mapping from the // provided UMLS qualification info; inserted last as the root // of the path. orderedPtrAUIToCode.put(aq.sourceConceptAUI, aq.sourceConceptCode); // ///////////////////////////////////////////////////////////////////// // We have all the participating codes and AUIs. // Add context qualifiers to the text presentation of each concept // based on code/AUI pairs. // ///////////////////////////////////////////////////////////////////// for (OrderedMapIterator omi = orderedPtrAUIToCode.orderedMapIterator(); omi.hasNext();) { omi.next(); String aui = (String) omi.getKey(); String code = (String) omi.getValue(); if (code != null) qualifyConceptPresentation(code, aui, aq.codingSchemeName, aq.qualifierName, hcd); } // ///////////////////////////////////////////////////////////////////// // At this point we have taken care of all the concept qualifiers. // Now find and similarly tag each participating association link // between AUIs in the path to root chain. // ///////////////////////////////////////////////////////////////////// // Statements to find LexGrid association to concept mappings. // Check source to target (parent association as processed) // or target to source (child association as processed). // Honor the association specified in the MRHIER entry, if provided. // For example, the UMLS 'inverse_isa' is mapped on load to 'hasSubtype' // association name; account for that here. String assoc = mapRela(rela); // If a specific relation attribute (rela) was not provided, consider // all relevant // hierarchical associations (including UMLS standard or source-specific // names). String assocParam = StringUtils.isNotBlank(assoc) ? '\'' + assoc + '\'' : toCommaDelimitedWithQuotes(getHierAssocNames(aq.codingSchemeName)); // Create statements to navigate both directions (up & down the // contextual chain). PreparedStatement getRelationship_1 = sqlConnection_.prepareStatement(new StringBuffer( "SELECT " + SQLTableConstants.TBLCOL_MULTIATTRIBUTESKEY + ", " + stc_.targetEntityCodeOrId + ", " + stc_.entityCodeOrAssociationId + ", " + stc_.sourceEntityCodeOrId + " FROM ") .append(stc_.getTableName(SQLTableConstants.ENTITY_ASSOCIATION_TO_ENTITY)) .append(" WHERE " + stc_.sourceEntityCodeOrId + " = ? AND " + stc_.targetEntityCodeOrId + " = ? AND") .append(" " + stc_.codingSchemeNameOrId + " = ? AND " + stc_.entityCodeOrAssociationId + " IN (") .append(assocParam).append(")").toString()); PreparedStatement getRelationship_2 = sqlConnection_.prepareStatement(new StringBuffer( "SELECT " + SQLTableConstants.TBLCOL_MULTIATTRIBUTESKEY + ", " + stc_.targetEntityCodeOrId + ", " + stc_.entityCodeOrAssociationId + ", " + stc_.sourceEntityCodeOrId + " FROM ") .append(stc_.getTableName(SQLTableConstants.ENTITY_ASSOCIATION_TO_ENTITY)) .append(" WHERE " + stc_.targetEntityCodeOrId + " = ? AND " + stc_.sourceEntityCodeOrId + " = ? AND") .append(" " + stc_.codingSchemeNameOrId + " = ? AND " + stc_.entityCodeOrAssociationId + " IN (") .append(assocParam).append(")").toString()); // Statement to update a multi-attributes key for an association // mapping. PreparedStatement updateMAK = sqlConnection_.prepareStatement(new StringBuffer("UPDATE ") .append(stc_.getTableName(SQLTableConstants.ENTITY_ASSOCIATION_TO_ENTITY)) .append(" SET " + SQLTableConstants.TBLCOL_MULTIATTRIBUTESKEY + " = ? " + " WHERE " + stc_.codingSchemeNameOrId + " = ?") .append(" AND " + stc_.sourceEntityCodeOrId + " = ? AND " + stc_.targetEntityCodeOrId + " = ?") .append(" AND " + stc_.entityCodeOrAssociationId + " = ?").toString()); // Locate and qualify each affected association link with the context ID // ... try { PreparedStatement[] stmts = new PreparedStatement[] { getRelationship_1, getRelationship_2 }; for (int s = 0; s < stmts.length; s++) { PreparedStatement stmt = stmts[s]; for (int i = orderedPtrAUIToCode.size() - 1; i > 0; i--) { String code = (String) orderedPtrAUIToCode.getValue(i); String codePrev = (String) orderedPtrAUIToCode.getValue(i - 1); stmt.setString(1, code); stmt.setString(2, codePrev); stmt.setString(3, aq.codingSchemeName); ResultSet results = stmt.executeQuery(); try { // Iterate through all relevant association links ... while (results.next()) { String multiAttributesKey = results .getString(SQLTableConstants.TBLCOL_MULTIATTRIBUTESKEY); String targetConceptCode = results.getString(stc_.targetEntityCodeOrId); String sourceConceptCode = results.getString(stc_.sourceEntityCodeOrId); String association = results.getString(stc_.entityCodeOrAssociationId); // If there is no key to correlate to the // multi-attributes table, // construct and add now. if (multiAttributesKey == null) { StringBuffer key = new StringBuffer().append(System.currentTimeMillis()) .append((int) Math.floor((Math.random() * 100000))).append(totalCount); multiAttributesKey = key.substring(0, Math.min(50, key.length())); updateMAK.setString(1, multiAttributesKey); updateMAK.setString(2, aq.codingSchemeName); updateMAK.setString(3, sourceConceptCode); updateMAK.setString(4, targetConceptCode); updateMAK.setString(5, association); updateMAK.execute(); } // Add a context qualifier to the multi-attributes // table. try { addEntityAssociationQualifierToEntityAssociation(aq.codingSchemeName, multiAttributesKey, aq.qualifierName, hcd); contextLinks++; } catch (SQLException e) { // Because we qualify all relationships along // the PTR and // the HCD is identical for siblings at the same // PTR some // exceptions with regards to identical keys // will come up. // We try to bypass altogether if the message // indicates duplication. // However, message text can vary based on the // database engine. // Rather than exit in error, log the message // and continue. if (!e.getMessage().contains("Duplicate")) { messages_.warn("Unable to add context qualifier to association.", e); } } } } finally { results.close(); } } } } finally { updateMAK.close(); getRelationship_1.close(); getRelationship_2.close(); } return contextLinks; }
From source file:org.cesecore.config.ExtendedKeyUsageConfiguration.java
/** * Fill the map and list with OIDs from the configuration file *///from ww w . ja v a2 s . c o m @SuppressWarnings("unchecked") private static synchronized void fillExtendedKeyUsageOidsAndTexts() { final ListOrderedMap map = new ListOrderedMap(); final Configuration conf = ConfigurationHolder.instance(); final String ekuname = "extendedkeyusage.name."; final String ekuoid = "extendedkeyusage.oid."; for (int i = 0; i < 255; i++) { final String oid = conf.getString(ekuoid + i); if (oid != null) { String name = conf.getString(ekuname + i); if (name != null) { // A null value in the properties file means that we should not use this value, so set it to null for real if (name.equalsIgnoreCase("null")) { name = null; } else { map.put(oid, name); } } else { log.error("Found extended key usage oid " + oid + ", but no name defined. Not adding to list of extended key usages."); } } // No eku with a certain number == continue trying next, we will try 0-255. } log.debug("Read " + map.size() + " extended key usages."); extendedKeyUsageOids = map.asList(); if ((extendedKeyUsageOids == null) || (extendedKeyUsageOids.size() == 0)) { log.error( "Extended key usage OIDs is null or zero length, there is a serious error with extendedkeyusage.properties"); extendedKeyUsageOids = new ArrayList<String>(); } extendedKeyUsageOidsAndNames = Collections.synchronizedMap(map); }
From source file:org.esupportail.portlet.filemanager.portlet.PortletController.java
@RequestMapping(value = { "VIEW" }, params = { "action=browseMobile" })
public ModelAndView browseMobile(RenderRequest request, RenderResponse response, @RequestParam String dir) {
this.init(request);
String decodedDir = pathEncodingUtils.decodeDir(dir);
ModelMap model;//from w w w .j a va 2 s.c o m
if (!(dir == null || dir.length() == 0 || decodedDir.equals(JsTreeFile.ROOT_DRIVE))) {
if (this.serverAccess.formAuthenticationRequired(decodedDir, userParameters)) {
ListOrderedMap parentPathes = pathEncodingUtils.getParentsEncPathes(decodedDir, null, null);
// we want to get the (last-1) key of sortedmap "parentPathes"
String parentDir = (String) parentPathes.get(parentPathes.size() - 2);
model = new ModelMap("currentDir", dir);
model.put("parentDir", parentDir);
model.put("username", this.serverAccess.getUserPassword(decodedDir, userParameters).getUsername());
model.put("password", this.serverAccess.getUserPassword(decodedDir, userParameters).getPassword());
return new ModelAndView("authenticationForm-portlet-mobile", model);
}
}
model = browse(dir);
return new ModelAndView("view-portlet-mobile", model);
}
From source file:org.esupportail.portlet.filemanager.portlet.PortletController.java
@RequestMapping(value = { "VIEW" }, params = { "action=browseWai" })
public ModelAndView browseWai(RenderRequest request, RenderResponse response,
@RequestParam(required = false) String dir, @RequestParam(required = false) String msg) {
this.init(request);
String decodedDir = pathEncodingUtils.decodeDir(dir);
if (!serverAccess.isInitialized(userParameters)) {
serverAccess.initializeServices(userParameters);
}//from w w w .ja va 2s. com
ModelMap model;
if (!(dir == null || dir.length() == 0 || decodedDir.equals(JsTreeFile.ROOT_DRIVE))) {
if (this.serverAccess.formAuthenticationRequired(decodedDir, userParameters)) {
ListOrderedMap parentPathes = pathEncodingUtils.getParentsEncPathes(decodedDir, null, null);
// we want to get the (last-1) key of sortedmap "parentPathes"
String parentDir = (String) parentPathes.get(parentPathes.size() - 2);
model = new ModelMap("currentDir", dir);
model.put("parentDir", parentDir);
model.put("username", this.serverAccess.getUserPassword(decodedDir, userParameters).getUsername());
model.put("password", this.serverAccess.getUserPassword(decodedDir, userParameters).getPassword());
if (msg != null)
model.put("msg", msg);
return new ModelAndView("authenticationForm-portlet-wai", model);
}
}
model = browse(dir);
FormCommand command = new FormCommand();
model.put("command", command);
if (msg != null)
model.put("msg", msg);
return new ModelAndView("view-portlet-wai", model);
}
From source file:org.etk.entity.engine.plugins.transaction.TransactionUtil.java
/** * Remove the stamp from stack (when resuming) */// w w w .jav a 2s . com private static void popTransactionStartStamp() { ListOrderedMap map = (ListOrderedMap) suspendedTxStartStamps.get(); if (map.size() > 0) { transactionStartStamp.set((Timestamp) map.remove(map.lastKey())); } else { logger.debug("Error in transaction handling - no saved start stamp found - using NOW."); transactionStartStamp.set(UtilDateTime.nowTimestamp()); } }
From source file:org.jahia.services.content.ConflictResolver.java
private Map<String, String> getOrdering(ListOrderedMap uuids1, List<String> removed) { Map<String, String> previousMap = new LinkedHashMap<String, String>(); ListIterator<?> it = uuids1.keyList().listIterator(uuids1.size()); String previous = ""; while (it.hasPrevious()) { String uuid = (String) it.previous(); if (!removed.contains(uuid)) { previousMap.put(uuid, previous); previous = uuid;//w w w. ja v a 2 s. c om } } return previousMap; }
From source file:org.noerp.entity.transaction.TransactionUtil.java
/** * Remove the stamp from stack (when resuming) *///ww w.ja v a2s . c o m private static void popTransactionStartStamp() { ListOrderedMap map = (ListOrderedMap) suspendedTxStartStamps.get(); if (map.size() > 0) { transactionStartStamp.set((Timestamp) map.remove(map.lastKey())); } else { Debug.logError("Error in transaction handling - no saved start stamp found - using NOW.", module); transactionStartStamp.set(UtilDateTime.nowTimestamp()); } }