EDIT

// $Id$

/**

* Copyright (C) 2009 EDIT

* European Distributed Institute of Taxonomy 

* http://www.e-taxonomy.eu

* 

* The contents of this file are subject to the Mozilla Public License Version 1.1

* See LICENSE.TXT at the top of this package for the full license terms.

*/

package eu.etaxonomy.cdm.io.xper;

import java.io.File;

import java.io.IOException;

import java.util.ArrayList;

import java.util.HashSet;

import java.util.List;

import java.util.Map;

import java.util.Set;

import org.apache.commons.lang.StringUtils;

import org.apache.log4j.Logger;

import eu.etaxonomy.cdm.api.application.CdmApplicationUtils;

import fr_jussieu_snv_lis.base.BaseObject;

import fr_jussieu_snv_lis.base.BaseObjectResource;

import fr_jussieu_snv_lis.base.Group;

import fr_jussieu_snv_lis.base.IBase;

import fr_jussieu_snv_lis.base.Individual;

import fr_jussieu_snv_lis.base.Variable;

import fr_jussieu_snv_lis.base.XPResource;

/**

 * @author a.mueller

 * @date 12.04.2011

 *

 */

public class BaseCdm implements IBase {

	private static final Logger logger = Logger.getLogger(BaseCdm.class);

	private CdmXperBaseControler baseControler;

	//temporary store

	private List<Variable> cdmVariables; // A set of Variable

	private List<Individual> cdmIndividuals;

	//FIXME mapping for groups not yet decided

	private List<Group> groups = new ArrayList<Group>();

	protected void setBaseControler(CdmXperBaseControler cdmXperBaseControler) {

		this.baseControler = cdmXperBaseControler; 

	}

	protected CdmXperBaseControler getBaseControler() {

		return baseControler;

	}

	private CdmXperAdapter getAdapter(){

		return getBaseControler().getAdapter();

	}

//******************* IBase *****************************************************/	

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getGroups()

	 */

	@Override

	public List<Group> getGroups() {

		logger.warn("getGroups Not yet implemented (groups not yet implemented)");

		return groups;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getGroupAt(int)

	 */

	@Override

	public Group getGroupAt(int i) {

		logger.warn("getGroupAt Not yet implemented (groups not yet implemented)");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setGroups(java.util.List)

	 */

	@Override

	public void setGroups(List<Group> n) {

		logger.warn("setGroups Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addGroup(fr_jussieu_snv_lis.base.Group)

	 */

	@Override

	public boolean addGroup(Group obj) {

		logger.warn("addGroup Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addGroupAt(int, fr_jussieu_snv_lis.base.Group)

	 */

	@Override

	public void addGroupAt(int i, Group group) {

		logger.warn("addGroupAt Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#deleteGroup(fr_jussieu_snv_lis.base.Group)

	 */

	@Override

	public boolean deleteGroup(Group group) {

		logger.warn("deleteGroup Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getVariables()

	 */

	@Override

	public List<Variable> getVariables() {

		if (cdmVariables == null){

			cdmVariables = new ArrayList<Variable>();

			getBaseControler().loadFeatures();

		}

		return cdmVariables;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getVariableAt(int)

	 */

	@Override

	public Variable getVariableAt(int i) {

		try {

			return getVariables().get(i);

		} catch (IndexOutOfBoundsException ioobe) {

			return null;

		}

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setVariables(java.util.List)

	 */

	@Override

	public void setVariables(List<Variable> al) {

		logger.warn("setVariables Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#deleteVariable(fr_jussieu_snv_lis.base.Variable)

	 */

	@Override

	public boolean deleteVariable(Variable variable) {

		logger.warn("deleteVariable should be handled by controler");

		if (getVariables().remove(variable)) {

			BaseObject.checkIndex(getVariables());

			return true;

		}

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addVariable(fr_jussieu_snv_lis.base.Variable)

	 */

	@Override

	public boolean addVariable(Variable variable) {

		getVariables();

		if (!getVariables().contains(variable)) {

			if (getVariables().add(variable)) {

				// int i = variables.lastIndexOf(variable);

				// ((BaseObject) variable).setIndex("" + (i + 1)); // index ++

				BaseObject.checkIndex(getVariables());

				return true;

			}

			return false;

		}

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addVariableAt(fr_jussieu_snv_lis.base.Variable, int)

	 */

	@Override

	public void addVariableAt(Variable variable, int i) {

		logger.warn("addVariableAt Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addIndividual(fr_jussieu_snv_lis.base.Individual)

	 */

	@Override

	public boolean addIndividual(Individual individual) {

		if (!this.getIndividuals().contains(individual)) {

			if (this.getIndividuals().add(individual)) {

				// int index = individuals.lastIndexOf(obj);

				// ((BaseObject) obj).setIndex("" + (index + 1));

				BaseObject.checkIndex(this.getIndividuals());

				return true;

			}

			return false;

		}

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addIndividualAt(int, fr_jussieu_snv_lis.base.Individual)

	 */

	@Override

	public boolean addIndividualAt(int i, Individual ind) {

		logger.warn("addIndividualAt Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#deleteIndividual(fr_jussieu_snv_lis.base.Individual)

	 */

	@Override

	public boolean deleteIndividual(Individual obj) {

		logger.warn("deleteIndividual Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getIndividuals()

	 */

	@Override

	public List<Individual> getIndividuals() {

		if (cdmIndividuals == null){

			cdmIndividuals = new ArrayList<Individual>();

			getAdapter().loadTaxa();

		}

		return cdmIndividuals;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getIndividualAt(int)

	 */

	@Override

	public Individual getIndividualAt(int i) {

		return this.cdmIndividuals.get(i);

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setIndividualList(java.util.List)

	 */

	@Override

	public void setIndividualList(List<Individual> n) {

		logger.warn("setIndividualList Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getAuthors()

	 */

	@Override

	public Set<String> getAuthors() {

		logger.warn("getAuthors Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getAuthorAt(int)

	 */

	@Override

	public String getAuthorAt(int i) {

		logger.warn("getAuthorAt Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setAuthors(java.lang.Object[])

	 */

	@Override

	public void setAuthors(Object[] list) {

		logger.warn("setAuthors Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addAuthor(java.lang.String)

	 */

	@Override

	public boolean addAuthor(String s) {

		logger.warn("addAuthor Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#deleteAuthor(java.lang.String)

	 */

	@Override

	public boolean deleteAuthor(String s) {

		logger.warn("deleteAuthor Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getName()

	 */

	@Override

	public String getName() {

		String result = this.getAdapter().getWorkingSet().getLabel();

		result = StringUtils.isBlank(result)? "<no title>": result;

		return result;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setName(java.lang.String)

	 */

	@Override

	public void setName(String n) {

		logger.warn("setName Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getPathName()

	 */

	@Override

	public String getPathName() {

		File directory;

		try {

			directory = CdmApplicationUtils.getWritableResourceDir();

		} catch (IOException e) {

			String message = "Application directory could not be found.";

			throw new RuntimeException(message);

		}

		String result = directory.getAbsolutePath() + File.separator + "xper" + File.separator;

		logger.info("pathname is " + result);

		return result;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setPathName(java.lang.String)

	 */

	@Override

	public void setPathName(String n) {

		logger.warn("setPathName Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getShortname()

	 */

	@Override

	public String getShortname() {

		logger.warn("getShortname Not yet implemented");

		return "";

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setShortname(java.lang.String)

	 */

	@Override

	public void setShortname(String string) {

		logger.warn("setShortname Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getDescription()

	 */

	@Override

	public String getDescription() {

		logger.warn("getDescription Not yet implemented");

		return "";

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setDescription(java.lang.String)

	 */

	@Override

	public void setDescription(String string) {

		logger.warn("setDescription Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setLastEdition(java.lang.String)

	 */

	@Override

	public void setLastEdition(String s) {

		logger.warn("setLastEdition Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getLastEdition()

	 */

	@Override

	public String getLastEdition() {

		logger.warn("getLastEdition Not yet implemented");

		return "";

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setFirstEdition(java.lang.String)

	 */

	@Override

	public void setFirstEdition(String s) {

		logger.warn("setFirstEdition Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getFirstEdition()

	 */

	@Override

	public String getFirstEdition() {

		logger.warn("getFirstEdition Not yet implemented");

		return "";

	}

	/***** Base management operations *****/

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getNbVariables()

	 */

	@Override

	public int getNbVariables() {

		return getVariables().size();

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setNbVariables(int)

	 */

	@Override

	public void setNbVariables(int n) {

		logger.warn("setNbVariables Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getNbIndividuals()

	 */

	@Override

	public int getNbIndividuals() {

		return this.cdmIndividuals.size();

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setNbIndividuals(int)

	 */

	@Override

	public void setNbIndividuals(int n) {

		logger.warn("setNbIndividuals Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getNbModes()

	 */

	@Override

	public int getNbModes() {

		logger.warn("getNbModes Not yet implemented");

		return 0;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getNbGroups()

	 */

	@Override

	public int getNbGroups() {

		logger.info("getNbGroups Not yet implemented (groups not yet implemented)");

		return groups.size();

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setNbGroups(int)

	 */

	@Override

	public void setNbGroups(int n) {

		logger.warn("setNbGroups Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getNbAuthors()

	 */

	@Override

	public int getNbAuthors() {

		logger.warn("getNbAuthors Not yet implemented");

		return 0;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#hasGroups()

	 */

	@Override

	public boolean hasGroups() {

		logger.warn("hasGroups Not yet implemented (groups not yet implemented)");

		return ! groups.isEmpty();

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#hasAuthors()

	 */

	@Override

	public boolean hasAuthors() {

		//TODO

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#hasVariables()

	 */

	@Override

	public boolean hasVariables() {

		logger.warn("hasVariables Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#hasIndividuals()

	 */

	@Override

	public boolean hasIndividuals() {

		logger.warn("hasIndividuals Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#isIllustrated()

	 */

	@Override

	public boolean isIllustrated() {

		logger.warn("isIllustrated Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#isIllustrated(fr_jussieu_snv_lis.base.BaseObject[])

	 */

	@Override

	public boolean isIllustrated(BaseObject[] bo) {

		logger.warn("isIllustrated Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getIllustratedBo(fr_jussieu_snv_lis.base.XPResource)

	 */

	@Override

	public List<BaseObject> getIllustratedBo(XPResource xpr) {

		logger.warn("getIllustratedBo Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getAllResources()

	 */

	@Override

	public List<BaseObjectResource> getAllResources() {

		logger.warn("getAllResources Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getAllResources(java.lang.String)

	 */

	@Override

	public HashSet<Object> getAllResources(String str) {

		logger.warn("getAllResources Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#containsBaseObject(fr_jussieu_snv_lis.base.BaseObject)

	 */

	@Override

	public boolean containsBaseObject(BaseObject bo) {

		logger.warn("containsBaseObject Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getVariablesWithoutGroup()

	 */

	@Override

	public List<Variable> getVariablesWithoutGroup() {

		logger.warn("getVariablesWithoutGroup Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#compareTo(java.lang.Object)

	 */

	@Override

	public int compareTo(Object arg0) {

		logger.warn("compareTo Not yet implemented");

		return 0;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#free()

	 */

	@Override

	public void free() {

		logger.warn("free Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#isComplete()

	 */

	@Override

	public boolean isComplete() {

		logger.warn("isComplete Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getCompletePercentage()

	 */

	@Override

	public float getCompletePercentage() {

		logger.warn("getCompletePercentage Not yet implemented");

		return 0;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#toTabFile()

	 */

	@Override

	public String toTabFile() {

		logger.warn("toTabFile Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#toHtml()

	 */

	@Override

	public String toHtml() {

		logger.warn("toHtml Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getResource()

	 */

	@Override

	public BaseObjectResource getResource() {

		logger.warn("getResource Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setResource(fr_jussieu_snv_lis.base.BaseObjectResource)

	 */

	@Override

	public void setResource(BaseObjectResource b) {

		logger.warn("setResource Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#removeResource()

	 */

	@Override

	public void removeResource() {

		logger.warn("removeResource Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#hasAnIllustration()

	 */

	@Override

	public boolean hasAnIllustration() {

		logger.warn("hasAnIllustration Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getLanguage()

	 */

	@Override

	public String getLanguage() {

		logger.warn("getLanguage Not yet implemented");

		return "";

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setLanguage(java.lang.String)

	 */

	@Override

	public void setLanguage(String language) {

		logger.warn("setLanguage Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setLinks(java.lang.Object[])

	 */

	@Override

	public void setLinks(Object[] objects) {

		logger.warn("setLinks Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getLinks()

	 */

	@Override

	public Set<String> getLinks() {

		logger.warn("getLinks Not yet implemented. Returns empty list");

		return new HashSet<String>();

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addLinks(java.lang.String)

	 */

	@Override

	public boolean addLinks(String link) {

		logger.warn("addLinks Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#removeLinks(java.lang.String)

	 */

	@Override

	public boolean removeLinks(String link) {

		logger.warn("removeLinks Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getLicense()

	 */

	@Override

	public String getLicense() {

		logger.warn("getLicense Not yet implemented");

		return "";

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setLicense(java.lang.String)

	 */

	@Override

	public void setLicense(String license) {

		logger.warn("setLicense Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getNbLinks()

	 */

	@Override

	public int getNbLinks() {

		logger.warn("getNbLinks Not yet implemented");

		return 0;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getUnknownData()

	 */

	@Override

	public Map<Individual, Variable> getUnknownData() {

		logger.warn("getUnknownData Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getEmptyData()

	 */

	@Override

	public Map<Individual, Variable> getEmptyData() {

		logger.warn("getEmptyData Not yet implemented");

		return null;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#getHelp()

	 */

	@Override

	public String getHelp() {

		logger.warn("getHelp Not yet implemented");

		return "";

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#setHelp(java.lang.String)

	 */

	@Override

	public void setHelp(String help) {

		logger.warn("setHelp Not yet implemented");

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#isPresentNumVariable()

	 */

	@Override

	public boolean isPresentNumVariable() {

		logger.warn("isPresentNumVariable Not yet implemented");

		return false;

	}

	/* (non-Javadoc)

	 * @see fr_jussieu_snv_lis.base.IBase#addResource(fr_jussieu_snv_lis.base.BaseObject, fr_jussieu_snv_lis.base.BaseObjectResource)

	 */

	@Override

	public boolean addResource(BaseObject bo, BaseObjectResource rsc) {

		logger.warn("addResource(bo, rsc) Not yet implemented");

		return false;

	}

}