Package org.intermine.bio.webservice

Class GenomicRegionFastaService

java.lang.Object

org.intermine.webservice.server.WebService

org.intermine.webservice.server.core.JSONService

org.intermine.webservice.server.lists.AbstractListService

org.intermine.webservice.server.lists.AuthenticatedListService

org.intermine.webservice.server.lists.ListMakerService

org.intermine.bio.webservice.GenomicRegionSearchService

org.intermine.bio.webservice.AbstractRegionExportService

org.intermine.bio.webservice.GenomicRegionFastaService

public class GenomicRegionFastaService
extends AbstractRegionExportService

A class for exposing the region search as a FASTA resource.

Field Summary

Fields

Modifier and Type	Field	Description
protected static java.lang.String	SUFFIX

Fields inherited from class org.intermine.webservice.server.lists.ListMakerService

LIST_TYPE_KEY

Fields inherited from class org.intermine.webservice.server.lists.AbstractListService

LIST_DESCRIPTION_KEY, LIST_ID_KEY, LIST_NAME_KEY, LIST_SIZE_KEY

Fields inherited from class org.intermine.webservice.server.core.JSONService

bagManager, model

Fields inherited from class org.intermine.webservice.server.WebService

dataPackageOutput, DEFAULT_CALLBACK, im, out, output, request, response, webProperties

Constructor Summary

Constructors

Constructor	Description
GenomicRegionFastaService(org.intermine.api.InterMineAPI im)	Constructor.

Method Summary

Modifier and Type	Method	Description
protected void	checkPathQuery(org.intermine.pathquery.PathQuery pq)	No-op stub.
protected java.lang.String	getContentType()
protected org.intermine.web.logic.export.Exporter	getExporter(org.intermine.pathquery.PathQuery pq)
protected java.lang.String	getSuffix()

Methods inherited from class org.intermine.bio.webservice.AbstractRegionExportService

export, getDefaultFileName, getDefaultFormat, getDefaultOutput, getFormatter, getOutputStream, getPrintWriter, isAuthenticated, makeList, makePathQuery, validateState

Methods inherited from class org.intermine.bio.webservice.GenomicRegionSearchService

createQueries, doListCreation, getHeaderAttributes, getInput, getNewListType

Methods inherited from class org.intermine.webservice.server.lists.ListMakerService

canServe, execute, initialiseDelendumAccumulator

Methods inherited from class org.intermine.webservice.server.lists.AbstractListService

getClassesForBags

Methods inherited from class org.intermine.webservice.server.core.JSONService

addOutputInfo, addResultEntries, addResultEntries, addResultEntry, addResultEntry, addResultItem, addResultItem, addResultValue, addResultValue, addResultValue, getResultsKey, lazyList, postInit

Methods inherited from class org.intermine.webservice.server.WebService

cleanUp, formatIsFlatFile, formatIsJSON, formatIsJSONP, formatIsXML, getAuthenticatedUser, getCallback, getColumnHeaderStyle, getDefaultOutput, getExtension, getFormat, getIntParameter, getIntParameter, getLineBreak, getListManager, getOptionalParameter, getOptionalParameter, getPermission, getProperty, getRawOutput, getRequestFileName, getRequiredParameter, hasCallback, initState, isGzip, isUncompressed, isZip, makeJSONOutput, makeXMLOutput, service, setFormat, setNameSpace, wantsColumnHeaders, wantsDataPackage

Methods inherited from class java.lang.Object

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

Field Detail

SUFFIX

protected static final java.lang.String SUFFIX

See Also:

Constant Field Values

Constructor Detail

GenomicRegionFastaService

public GenomicRegionFastaService(org.intermine.api.InterMineAPI im)

Constructor.

Parameters:

im - A reference to an InterMine API settings bundle.

Method Detail

getContentType

protected java.lang.String getContentType()

Specified by:

getContentType in class AbstractRegionExportService

Returns:

content type

getExporter

protected org.intermine.web.logic.export.Exporter getExporter(org.intermine.pathquery.PathQuery pq)

Specified by:

getExporter in class AbstractRegionExportService

Parameters:

pq - pathquery

Returns:

the exporter

getSuffix

protected java.lang.String getSuffix()

Specified by:

getSuffix in class AbstractRegionExportService

Returns:

The suffix for the file name.

checkPathQuery

protected void checkPathQuery(org.intermine.pathquery.PathQuery pq)
                       throws java.lang.Exception

Description copied from class: AbstractRegionExportService

No-op stub. Override to implement format checks.

Overrides:

checkPathQuery in class AbstractRegionExportService

Parameters:

pq - pathquery

Throws:

java.lang.Exception - if something goes wrong