Package ubic.gemma.core.loader.genome.gene.ncbi

Class NCBIGeneFileFetcher

java.lang.Object

ubic.gemma.core.loader.util.fetcher.AbstractFetcher

ubic.gemma.core.loader.util.fetcher.FtpFetcher

ubic.gemma.core.loader.util.fetcher.FtpArchiveFetcher

ubic.gemma.core.loader.genome.gene.ncbi.NCBIGeneFileFetcher

All Implemented Interfaces:

ArchiveFetcher, Fetcher

public class NCBIGeneFileFetcher
extends FtpArchiveFetcher

Class to download files for NCBI gene. Pass the name of the file (without the .gz) to the fetch method: for example, gene_info.

Author:

pavlidis

Field Summary

Fields inherited from class ubic.gemma.core.loader.util.fetcher.FtpArchiveFetcher

doDelete, expander

Fields inherited from class ubic.gemma.core.loader.util.fetcher.FtpFetcher

avoidDownload, ftpClient, netDataSourceUtil

Fields inherited from class ubic.gemma.core.loader.util.fetcher.AbstractFetcher

allowUseExisting, force, INFO_UPDATE_INTERVAL, localBasePath, log, remoteBaseDir

Constructor Summary

Constructors

Constructor	Description
NCBIGeneFileFetcher()

Method Summary

Modifier and Type	Method	Description
protected String	formLocalFilePath(String identifier, File newDir)
protected String	formRemoteFilePath(String identifier)
void	initConfig()
void	setDoDownload(boolean doDownload)
void	setNetDataSourceUtil()

Methods inherited from class ubic.gemma.core.loader.util.fetcher.FtpArchiveFetcher

cleanUp, doTask, initArchiveHandler, listFiles, setDeleteAfterUnpack, setExcludePattern, setForce, unPack

Methods inherited from class ubic.gemma.core.loader.util.fetcher.FtpFetcher

defineTask, fetch, fetch, getExpectedSize, getNetDataSourceUtil, setAvoidDownload

Methods inherited from class ubic.gemma.core.loader.util.fetcher.AbstractFetcher

fetchedFile, fetchedFile, getExistingFile, getLocalBasePath, isForce, mkdir, mkdir, setAllowUseExisting, waitForDownload

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface ubic.gemma.core.loader.util.fetcher.Fetcher

fetch

Constructor Details

NCBIGeneFileFetcher

public NCBIGeneFileFetcher()

Method Details

initConfig

public void initConfig()

Specified by:

initConfig in class AbstractFetcher

formLocalFilePath

protected String formLocalFilePath(String identifier,
 File newDir)

Specified by:

formLocalFilePath in class AbstractFetcher

formRemoteFilePath

protected String formRemoteFilePath(String identifier)

Specified by:

formRemoteFilePath in class AbstractFetcher

setNetDataSourceUtil

public void setNetDataSourceUtil()

Specified by:

setNetDataSourceUtil in class FtpFetcher

setDoDownload

public void setDoDownload(boolean doDownload)