edu.umn.msi.tropix.webgui.server.CatalogUtils.java Source code

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Here is the source code for edu.umn.msi.tropix.webgui.server.CatalogUtils.java

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/*******************************************************************************
 * Copyright 2009 Regents of the University of Minnesota. All rights
 * reserved.
 * Copyright 2009 Mayo Foundation for Medical Education and Research.
 * All rights reserved.
 *
 * This program is made available under the terms of the Eclipse
 * Public License v1.0 which accompanies this distribution,
 * and is available at http://www.eclipse.org/legal/epl-v10.html
 *
 * Unless required by applicable law or agreed to in writing, software
 * distributed under the License is distributed on an "AS IS" BASIS,
 * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, EITHER EXPRESS OR
 * IMPLIED INCLUDING, WITHOUT LIMITATION, ANY WARRANTIES OR CONDITIONS
 * OF TITLE, NON-INFRINGEMENT, MERCHANTABILITY OR FITNESS FOR A
 * PARTICULAR PURPOSE.  See the License for the specific language
 * governing permissions and limitations under the License.
 *
 * Contributors:
 * Minnesota Supercomputing Institute - initial API and implementation
 ******************************************************************************/

package edu.umn.msi.tropix.webgui.server;

import java.rmi.RemoteException;
import java.text.SimpleDateFormat;
import java.util.ArrayList;
import java.util.List;

import com.google.common.base.Function;
import com.google.common.collect.Iterables;
import com.google.common.collect.Lists;

import edu.mayo.bmi.bic.bobcat.api.CatalogEntryAPI;
import edu.mayo.bmi.bic.bobcat.api.CatalogOntAPI;
import edu.mayo.bmi.bic.bobcat.api.Field;
import edu.mayo.bmi.bic.bobcat.api.FieldValue;
import edu.mayo.bmi.bic.bobcat.api.Provider;
import edu.mayo.bmi.bic.bobcat.api.SearchHit;
import edu.umn.msi.tropix.common.logging.ExceptionUtils;
import edu.umn.msi.tropix.webgui.client.catalog.beans.Attribute;

public class CatalogUtils {

    private static final Function<SearchHit, String> ENTRY_ID_FUNCTION = new Function<SearchHit, String>() {
        public String apply(final SearchHit hit) {
            return hit.getEntryID();
        }
    };

    public static String[] getServiceIDsFromSHBeanList(final Iterable<SearchHit> shBeans) {
        return Iterables.toArray(Iterables.transform(shBeans, ENTRY_ID_FUNCTION), String.class);
    }

    public static edu.umn.msi.tropix.webgui.client.catalog.beans.Provider getUIProvider(final Provider provider) {
        return new edu.umn.msi.tropix.webgui.client.catalog.beans.Provider(provider.getId(), provider.getRevision(),
                new SimpleDateFormat("MM/dd/yyyy").format(provider.getCreated().getTime()),
                new SimpleDateFormat("MM/dd/yyyy").format(provider.getLastModified().getTime()), provider.getName(),
                provider.getContact(), provider.getAddress(), provider.getPhone(), provider.getEmail(),
                provider.getWebsite(), null);
    }

    public static List<Attribute> getAttributes(final CatalogOntAPI catalogOntAPI,
            final CatalogEntryAPI catalogEntryAPI, final String serviceId) {
        try {
            edu.mayo.bmi.bic.bobcat.api.Attribute[] attributes = catalogEntryAPI.getAttributes(serviceId);
            if (attributes == null) {
                attributes = new edu.mayo.bmi.bic.bobcat.api.Attribute[0];
            }
            final String[] fieldIds = new String[attributes.length];
            for (int i = 0; i < attributes.length; i++) {
                fieldIds[i] = attributes[i].getFieldID();
            }
            final ArrayList<Attribute> attributeBeans = new ArrayList<Attribute>();
            final Field[] fields = catalogOntAPI.getFields(fieldIds);
            int i = 0;
            for (final edu.mayo.bmi.bic.bobcat.api.Attribute attribute : attributes) {
                List<edu.umn.msi.tropix.webgui.client.catalog.beans.FieldValue> uiFieldValues = null;
                final Field field = catalogOntAPI.getFields(new String[] { attribute.getFieldID() })[0];
                final String bioportalURL = (field != null && field.getConcepts() != null)
                        ? field.getConcepts()[0].getBioportalURL().toString()
                        : null;
                final String type = attribute.getType().getValue();
                final String attributeId = attribute.getId();
                final int revision = attribute.getRevision();
                final String entryId = attribute.getEntryID();
                final String fieldId = attribute.getFieldID();
                final String fieldName = fields[i++].getName();
                if (type.equals("VALUE")) {
                    final List<FieldValue> fieldValues = Lists
                            .newArrayList(catalogOntAPI.getFieldValues(attribute.getValues()));
                    uiFieldValues = Lists.newArrayList(); //new edu.umn.msi.tropix.webgui.client.catalog.beans.FieldValue[attribute.getValues().length];
                    for (FieldValue fieldValue : fieldValues) {
                        String bioURL = null;
                        if (fieldValue.getConcepts() != null) {
                            bioURL = fieldValue.getConcepts()[0].getBioportalURL().toString();
                        }
                        uiFieldValues.add(new edu.umn.msi.tropix.webgui.client.catalog.beans.FieldValue(
                                fieldValue.getId(), fieldValue.getRevision(), null, null, null,
                                fieldValue.getValue(), null, bioURL));
                    }
                } else if (type.equals("FREETEXT")) {
                    uiFieldValues = Lists
                            .newArrayList(new edu.umn.msi.tropix.webgui.client.catalog.beans.FieldValue("-1", -1,
                                    null, null, attribute.getFieldID(), attribute.getValues()[0], null, null));
                } else {
                    System.out.println("Unknown type encountered " + type);
                }
                attributeBeans.add(new Attribute(attributeId, revision, "", "", entryId, fieldId, uiFieldValues,
                        fieldName, bioportalURL));
            }
            return attributeBeans;
        } catch (final RemoteException e) {
            throw ExceptionUtils.convertException(e);
        }
    }

}