Package ca.corefacility.bioinformatics.irida.repositories.remote.impl

Class SequenceFileRemoteRepositoryImpl

java.lang.Object

ca.corefacility.bioinformatics.irida.repositories.remote.impl.RemoteRepositoryImpl<SequenceFile>

ca.corefacility.bioinformatics.irida.repositories.remote.impl.SequenceFileRemoteRepositoryImpl

All Implemented Interfaces:

RemoteRepository<SequenceFile>, SequenceFileRemoteRepository

@Repository
public class SequenceFileRemoteRepositoryImpl
extends RemoteRepositoryImpl<SequenceFile>
implements SequenceFileRemoteRepository

Implementation of SequenceFileRemoteRepository using OAuthTokenRestTemplate for making requests

Field Summary

Fields

Modifier and Type	Field	Description
static org.springframework.http.MediaType	DEFAULT_DOWNLOAD_MEDIA_TYPE

Constructor Summary

Constructors

Constructor	Description
SequenceFileRemoteRepositoryImpl(RemoteAPITokenService tokenService, UserService userService)	Create a new SequenceFileRemoteRepositoryImpl

Method Summary

Modifier and Type	Method	Description
java.nio.file.Path	downloadRemoteSequenceFile(java.lang.String uri, RemoteAPI remoteAPI)	Get a local copy of a SequenceFile with a default MediaType of application/fastq
java.nio.file.Path	downloadRemoteSequenceFile(java.lang.String uri, RemoteAPI remoteAPI, org.springframework.http.MediaType... mediaTypes)	Get a local copy of a SequenceFile

Methods inherited from class ca.corefacility.bioinformatics.irida.repositories.remote.impl.RemoteRepositoryImpl

getServiceStatus, list, read, setRemoteStatus

Methods inherited from class java.lang.Object

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

Methods inherited from interface ca.corefacility.bioinformatics.irida.repositories.remote.RemoteRepository

getServiceStatus, list, read

Field Detail

DEFAULT_DOWNLOAD_MEDIA_TYPE

public static final org.springframework.http.MediaType DEFAULT_DOWNLOAD_MEDIA_TYPE

Constructor Detail

SequenceFileRemoteRepositoryImpl

@Autowired
public SequenceFileRemoteRepositoryImpl(RemoteAPITokenService tokenService,
                                        UserService userService)

Create a new SequenceFileRemoteRepositoryImpl

Parameters:

tokenService - The TokenService storing OAuth2 tokens

userService - The UserService for reading users

Method Detail

downloadRemoteSequenceFile

public java.nio.file.Path downloadRemoteSequenceFile(java.lang.String uri,
                                                     RemoteAPI remoteAPI,
                                                     org.springframework.http.MediaType... mediaTypes)

Get a local copy of a SequenceFile

Specified by:

downloadRemoteSequenceFile in interface SequenceFileRemoteRepository

Parameters:

uri - the URI of the file to download

remoteAPI - The RemoteAPI this file resides on

mediaTypes - The media types to request from the remote API

Returns:

A temporary Path to the sequence file data

downloadRemoteSequenceFile

public java.nio.file.Path downloadRemoteSequenceFile(java.lang.String uri,
                                                     RemoteAPI remoteAPI)

Get a local copy of a SequenceFile with a default MediaType of application/fastq

Specified by:

downloadRemoteSequenceFile in interface SequenceFileRemoteRepository

Parameters:

uri - The URI to get sequence data for

remoteAPI - The RemoteAPI this file resides on

Returns:

A temporary Path to the sequence file data