Example usage for org.apache.commons.configuration ConfigurationException ConfigurationException

Introduction

In this page you can find the example usage for org.apache.commons.configuration ConfigurationException ConfigurationException.

Prototype

public ConfigurationException(Throwable cause)

Source Link

Document

Constructs a new ConfigurationException with specified nested Throwable.

Usage

From source file:ubic.gemma.loader.expression.arrayExpress.SDRFFetcher.java

@Override
protected void initConfig() {
    localBasePath = ConfigUtils.getString("arrayExpress.local.datafile.basepath");
    remoteBaseDir = ConfigUtils.getString("arrayExpress.experiments.baseDir");

    if (localBasePath == null || localBasePath.length() == 0)
        throw new RuntimeException(new ConfigurationException("localBasePath was null or empty"));
    if (remoteBaseDir == null || remoteBaseDir.length() == 0)
        throw new RuntimeException(new ConfigurationException("baseDir was null or empty"));

}

From source file:ubic.gemma.loader.expression.geo.fetcher.PlatformFetcher.java

@Override
protected void initConfig() {
    this.localBasePath = ConfigUtils.getString("geo.local.datafile.basepath");
    this.remoteBaseDir = ConfigUtils.getString("geo.remote.platformDir");
    if (remoteBaseDir == null) {
        throw new RuntimeException(
                new ConfigurationException("geo.remote.platformDir was not defined in resource bundle"));
    }//from w  ww.  j a v  a 2  s  .c om

}

From source file:ubic.gemma.loader.expression.geo.fetcher.RawDataFetcher.java

/**
 * @throws ConfigurationException//from  w w w . j  a v a 2s  .com
 */
@Override
public void initConfig() {
    localBasePath = ConfigUtils.getString("geo.local.datafile.basepath");
    remoteBaseDir = ConfigUtils.getString("geo.remote.rawDataDir");

    if (localBasePath == null || localBasePath.length() == 0)
        throw new RuntimeException(new ConfigurationException("localBasePath was null or empty"));
    if (remoteBaseDir == null || remoteBaseDir.length() == 0)
        throw new RuntimeException(new ConfigurationException("baseDir was null or empty"));

}

From source file:ubic.gemma.loader.genome.gene.ncbi.homology.HomologeneFetcher.java

/**
 * @throws ConfigurationException/*from  ww w. j  ava 2  s .  com*/
 */
@Override
protected void initConfig() {

    localBasePath = ConfigUtils.getString("ncbi.local.homologene.basepath");
    remoteBaseDir = ConfigUtils.getString("ncbi.remote.homologene.basedir");

    if (localBasePath == null || localBasePath.length() == 0)
        throw new RuntimeException(new ConfigurationException("localBasePath was null or empty"));
    if (remoteBaseDir == null || remoteBaseDir.length() == 0)
        throw new RuntimeException(new ConfigurationException("baseDir was null or empty"));

}

From source file:ubic.gemma.loader.genome.gene.ncbi.NCBIGeneFileFetcher.java

@Override
public void initConfig() {
    this.localBasePath = ConfigUtils.getString("ncbi.local.datafile.basepath");
    this.remoteBaseDir = ConfigUtils.getString("ncbi.remote.gene.basedir");

    if (remoteBaseDir == null)
        throw new RuntimeException(new ConfigurationException("Failed to get basedir"));
    if (localBasePath == null)
        throw new RuntimeException(new ConfigurationException("Failed to get localBasePath"));

}

From source file:ubic.gemma.loader.genome.taxon.TaxonFetcher.java

@Override
public void initConfig() {
    this.localBasePath = ConfigUtils.getString("ncbi.local.datafile.basepath");
    this.remoteBaseDir = ConfigUtils.getString("ncbi.remote.taxon.basedir");

    if (remoteBaseDir == null)
        throw new RuntimeException(new ConfigurationException("Failed to get basedir"));
    if (localBasePath == null)
        throw new RuntimeException(new ConfigurationException("Failed to get localBasePath"));
}

From source file:ubic.gemma.loader.protein.biomart.BiomartEnsemblNcbiFetcher.java

/**
 * Configure the URL for biomart/*from w ww  . j  a  v a 2s.co  m*/
 * 
 * @throws ConfigurationException one of the file download paths in the properties file was not configured
 *         correctly.
 */
public void initConfig() {

    urlBiomartService = ConfigUtils.getString(BIOMARTPATH);
    if (urlBiomartService == null || urlBiomartService.length() == 0)
        throw new RuntimeException(new ConfigurationException(BIOMARTPATH + " was null or empty"));
}

From source file:ubic.gemma.loader.protein.string.StringProteinFileFetcher.java

/**
 * Sets the paths of the remote files to download as set in the project properties files
 * /*w  ww  .ja  v  a 2  s  . c o m*/
 * @throws ConfigurationException one of the file download paths in the properties file was not configured
 *         correctly.
 */
@Override
public void initConfig() {

    stringProteinFileName = ConfigUtils.getString(INTERACTION);
    if (stringProteinFileName == null || stringProteinFileName.length() == 0)
        throw new RuntimeException(new ConfigurationException(INTERACTION + " was null or empty"));
}

From source file:ubic.gemma.loader.protein.StringProteinProteinInteractionConverter.java

/**
 * @param ensembl2ncbi Map of ensembl peptide ids to entrez/ncbi id genes.
 *//*  w w  w . ja  v a  2 s .com*/
public StringProteinProteinInteractionConverter(Map<String, Ensembl2NcbiValueObject> ensembl2ncbi) {
    this.ensembl2ncbi = ensembl2ncbi;

    stringVersion = ConfigUtils.getString("protein.string.version");
    stringUrl = ConfigUtils.getString("protein.string.linksurl");
    if (stringUrl == null || stringUrl.length() == 0)
        throw new RuntimeException(new ConfigurationException("stringUrl was null or empty"));
    if (stringVersion == null || stringVersion.length() == 0)
        throw new RuntimeException(new ConfigurationException("stringVersion was null or empty"));
}

From source file:uk.q3c.krail.core.config.DefaultApplicationConfigurationService.java

/**
 * The {@link #iniFiles} map is processed in ascending key order. If a file does not exist or fails to load for any
 * reason, and it is not marked as optional in IniFileConfig, a {@link ConfigurationException} is thrown. If,
 * however, the file fails to load, and is optional, no exception is raised.
 *
 * @throws ConfigurationException//from   w  w  w  . j  a  v  a2s .  c o m
 *         if an error occurs while loading a file
 */
@Override
protected void doStart() throws ConfigurationException {
    Set<Integer> keySorter = new TreeSet<>(iniFiles.keySet());
    for (Integer k : keySorter) {
        IniFileConfig iniConfig = iniFiles.get(k);
        File file = new File(ResourceUtils.configurationDirectory(), iniConfig.getFilename());
        try {
            if (!file.exists()) {
                throw new FileNotFoundException(file.getAbsolutePath());
            }
            HierarchicalINIConfiguration config = new HierarchicalINIConfiguration(file);
            configuration.addConfiguration(config);
            log.debug("adding configuration from {} at index {}", file.getAbsolutePath(), k);
        } catch (Exception ce) {
            if (!iniConfig.isOptional()) {
                String msg = ("Configuration Service failed to start, unable to load required configuration file:"
                        + " " + file.getAbsolutePath());
                status = Status.FAILED_TO_START;
                log.error(msg);
                throw new ConfigurationException(ce);
            } else {
                log.info("Optional configuration file not found at {}, but as it is optional, " + ""
                        + "continuing without it", file);

            }
        }
    }

    log.info("Application Configuration Service started");
}