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Revision aea90ab7

Added by Andreas Müller almost 7 years ago

ref #6286 updates for Flora Hellenica import (including new image import)

View differences:

app-import/src/main/java/eu/etaxonomy/cdm/io/greece/FloraHellenicaImageImport.java
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*/
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package eu.etaxonomy.cdm.io.greece;
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import java.io.File;
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import java.io.IOException;
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import java.net.URI;
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import java.util.ArrayList;
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import java.util.List;
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import org.apache.log4j.Logger;
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import org.apache.sanselan.ImageReadException;
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import org.apache.sanselan.Sanselan;
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import org.apache.sanselan.common.IImageMetadata;
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import org.apache.sanselan.common.ImageMetadata.Item;
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import org.springframework.stereotype.Component;
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import org.springframework.transaction.TransactionStatus;
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import eu.etaxonomy.cdm.api.service.config.MatchingTaxonConfigurator;
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import eu.etaxonomy.cdm.io.common.CdmImportBase;
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import eu.etaxonomy.cdm.io.mexico.SimpleExcelTaxonImportState;
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import eu.etaxonomy.cdm.model.agent.Person;
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import eu.etaxonomy.cdm.model.common.Language;
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import eu.etaxonomy.cdm.model.description.Feature;
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import eu.etaxonomy.cdm.model.description.TaxonDescription;
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import eu.etaxonomy.cdm.model.description.TextData;
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import eu.etaxonomy.cdm.model.media.Media;
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import eu.etaxonomy.cdm.model.reference.Reference;
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import eu.etaxonomy.cdm.model.taxon.Taxon;
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/**
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 * Import for the Flora Hellenica images.
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 *
......
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    private static final long serialVersionUID = 7118028793298922703L;
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    private static final Logger logger = Logger.getLogger(FloraHellenicaImageImport.class);
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    private static final String BASE_URL = "https://media.e-taxonomy.eu/flora-greece/";
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    private static final String IMAGE_FOLDER = "////BGBM-PESIHPC/Greece/thumbs/";
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    /**
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     * {@inheritDoc}
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     */
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    @Override
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    protected void doInvoke(SimpleExcelTaxonImportState<CONFIG> state) {
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//        String baseURI =
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        TransactionStatus tx = this.startTransaction();
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        for (int plate = 1; plate < 22 ; plate++){
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            try {
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                handleSinglePlate(state, plate);
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            } catch (Exception e) {
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                logger.error("Error when handling plate " + plate);
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                e.printStackTrace();
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            }
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        }
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        this.commitTransaction(tx);
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    }
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    /**
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     * @param state
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     * @param plate
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     */
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    private void handleSinglePlate(SimpleExcelTaxonImportState<CONFIG> state, int plate) {
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        String fill = plate < 10 ? "0" : "";
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        String plateStr = "Plate_" + fill + plate + "/";
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        String fullFolderUrl = BASE_URL + plateStr;
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        String fullThumbUrl = BASE_URL + "thumbs/" + plateStr;
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        String folderStr = IMAGE_FOLDER + plateStr;
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        File file = new File(folderStr);
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        String[] list = file.list();
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        for (String fileStr : list){
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            try {
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                handleSingleFile(state, fullFolderUrl, fullThumbUrl, fileStr);
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            } catch (Exception e) {
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                logger.error("Error when handling file: " + fileStr + " in plate " + plate);
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                e.printStackTrace();
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            }
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        }
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    }
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    /**
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     * @param state
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     * @param fullFolderUrl
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     * @param fullThumbUrl
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     * @param fileStr
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     */
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    private void handleSingleFile(SimpleExcelTaxonImportState<CONFIG> state, String fullFolderUrl, String fullThumbUrl, String fileStr) {
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        String[] taxonNameAndArtist = getTaxonName(fileStr);
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        String taxonNameStr = taxonNameAndArtist[0];
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        String taxonNameStr2 = null;
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        String artistStr = taxonNameAndArtist[1];
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        if (fileStr.equals("RamondaSerbica(L)+Nathaliae(R)1.jpg")){
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            taxonNameStr = "Ramonda serbica";
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            taxonNameStr2 = "Ramonda nathaliae";
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        }
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        try {
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            Media media = getImageMedia(fullFolderUrl + fileStr, fullThumbUrl + fileStr, true);
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            //image metadata
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            URI uri = URI.create(fullThumbUrl + fileStr);
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            try{
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                IImageMetadata metadata = Sanselan.getMetadata(uri.toURL().openStream(), null);
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                ArrayList<?> items = metadata.getItems();
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                for (Object object : items){
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                    Item item = (Item) object;
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//                    System.out.println(item.getKeyword() +  ":    " + item.getText());
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                    String keyword = item.getKeyword().toLowerCase();
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                    String value = item.getText();
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                    if("image description".equals(keyword)){
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                        media.putDescription(Language.DEFAULT(), value);
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                    }else if ("artist".equals(item.getKeyword().toLowerCase())){
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                        if (isNotBlank(artistStr) && ! value.contains(artistStr)){
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                            logger.warn("Artist and artistStr are different: " +  artistStr  + "; " + value);
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                        }
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                        artistStr = value;
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                    }
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                }
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            } catch (ImageReadException | IOException e1) {
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                e1.printStackTrace();
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            }
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            if (isNotBlank(artistStr)){
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                Person person = Person.NewInstance();
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                person.setLastname(artistStr);
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                media.setArtist(person);
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            }
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            media.addPrimaryMediaSource(getSecReference(state), null);
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            Taxon taxon = getAcceptedTaxon(taxonNameStr);
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            makeTextData(fileStr, media, taxon);
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            if (taxonNameStr2 != null){
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                getAcceptedTaxon(taxonNameStr);
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                makeTextData(fileStr, media, taxon);
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            }
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            if (taxonNameStr2 == null){
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                media.putTitle(Language.LATIN(), taxon == null ? "taxonNameStr" :
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                    taxon.getName().getTitleCache());
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            }else{
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                media.putTitle(Language.LATIN(), "Ramonda serbica(L) + R. nathaliae(R)");
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            }
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        } catch (Exception e) {
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            e.printStackTrace();
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            return;
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        }
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    }
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    private Reference secReference;
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    private Reference getSecReference(SimpleExcelTaxonImportState<CONFIG> state) {
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        if (secReference != null){
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            secReference = getReferenceService().find(state.getConfig().getSecReference().getUuid());
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        }
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        return secReference;
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    }
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    /**
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     * @param fileStr
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     * @param media
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     * @param taxon
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     * @return
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     */
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    private void makeTextData(String fileStr, Media media, Taxon taxon) {
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        if (taxon == null){
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            logger.warn("Taxon not found for image " + fileStr + "."
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                    + "Media could not be attached to taxon.");
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            getMediaService().saveOrUpdate(media);
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            return;
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        }
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        TaxonDescription imageGallery = taxon.getImageGallery(true);
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        TextData textData = TextData.NewInstance();
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        textData.setFeature(Feature.IMAGE());
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        imageGallery.addElement(textData);
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        textData.addMedia(media);
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    }
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    /**
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     * @param taxonNameStr
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     * @return
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     */
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    private Taxon getAcceptedTaxon(String taxonNameStr) {
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        MatchingTaxonConfigurator config = new MatchingTaxonConfigurator();
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        config.setTaxonNameTitle(taxonNameStr);
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        config.setIncludeSynonyms(false);
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        List<Taxon> list = (List)getTaxonService().findTaxaByName(config);
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        if (list.isEmpty()){
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            logger.warn("Taxon not found for media: " + taxonNameStr);
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            return null;
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        }else{
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            if (list.size()>1){
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                logger.warn("More than 1 taxon found for media: " + taxonNameStr);
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            }
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            return list.get(0);
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        }
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    }
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    /**
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     * @param fileStr
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     * @return
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     */
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    private String[] getTaxonName(String fileStr) {
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        String[] result = new String[2];
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        fileStr = fileStr.split("\\.")[0];
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        fileStr = fileStr.replaceAll("[0-9]", "");
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        String[] x = fileStr.split("_");
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        if (x.length == 2){
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            result[1] = x[1];
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        }
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        fileStr = splitCamelCase(x[0]);
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        String[] split = fileStr.split(" ");
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        String name = split[0] + " " + split[1].toLowerCase() +
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                (split.length > 2 ? " subsp. " + split[2].toLowerCase() : "");
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        result[0] = name;
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        System.out.println(result[0] + (result[1] != null ?  "   Artist: " + result[1]: ""));
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        return result;
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    }
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    //from http://stackoverflow.com/questions/2559759/how-do-i-convert-camelcase-into-human-readable-names-in-java
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    static String splitCamelCase(String s) {
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        return s.replaceAll(
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           String.format("%s",
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//              "(?<=[A-Z])(?=[A-Z][a-z])",
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              "(?<=[^A-Z])(?=[A-Z])"
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//              "(?<=[A-Za-z])(?=[^A-Za-z])"
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           ),
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           " "
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        );
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     }
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    /**
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     * {@inheritDoc}
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     */

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