com.compomics.util.io.json.marshallers

Class PrideMarshaller

java.lang.Object

com.compomics.util.io.json.JsonMarshaller

com.compomics.util.io.json.marshallers.PrideMarshaller

public class PrideMarshaller
extends JsonMarshaller

A json marshaller for use with the PRIDE webservice.

Author:

Kenneth Verheggen

Field Summary

Fields inherited from class com.compomics.util.io.json.JsonMarshaller

builder, gson

Constructor Summary

Constructors

Constructor and Description
PrideMarshaller() Create a PRIDE marshaller.

Method Summary

Modifier and Type	Method and Description
uk.ac.ebi.pride.archive.web.service.model.assay.AssayDetailList	getAssayDetailList(String jsonURL) Convert from JSON to a list of AssaytDetails.
uk.ac.ebi.pride.archive.web.service.model.file.FileDetailList	getFileDetailList(String jsonURL) Convert from JSON to a list of FileDetails.
uk.ac.ebi.pride.archive.web.service.model.peptide.PsmDetailList	getPeptideDetailList(String jsonURL) Convert from JSON to a list of ProteinDetails.
uk.ac.ebi.pride.archive.web.service.model.project.ProjectDetail	getProjectDetail(String jsonURL) Convert from JSON to a list of ProjectDetails.
uk.ac.ebi.pride.archive.web.service.model.project.ProjectSummaryList	getProjectSummaryList(String jsonURL) Convert from JSON to a list of ProjectDetails.
uk.ac.ebi.pride.archive.web.service.model.protein.ProteinDetailList	getProteinDetailList(String jsonURL) Convert from JSON to a list of ProteinDetails.
protected void	init() Initializes the marshaller with (custom) type adapters and date format

Methods inherited from class com.compomics.util.io.json.JsonMarshaller

fromJson, fromJson, fromJson, fromJson, fromJson, fromJson, getJsonStringFromFile, saveObjectToJson, toJson

Methods inherited from class java.lang.Object

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

Constructor Detail

PrideMarshaller

public PrideMarshaller()

Create a PRIDE marshaller.

Method Detail

init

protected void init()

Description copied from class: JsonMarshaller

Initializes the marshaller with (custom) type adapters and date format

Overrides:

init in class JsonMarshaller

getProjectDetail

public uk.ac.ebi.pride.archive.web.service.model.project.ProjectDetail getProjectDetail(String jsonURL)
                                                                                 throws IOException

Convert from JSON to a list of ProjectDetails.

Parameters:

jsonURL - the URL for the JSON object

Returns:

an instance of the objectType containing the JSON information

Throws:

IOException - thrown if the webservice is down or the json response was invalid

getProjectSummaryList

public uk.ac.ebi.pride.archive.web.service.model.project.ProjectSummaryList getProjectSummaryList(String jsonURL)
                                                                                           throws IOException

Convert from JSON to a list of ProjectDetails.

Parameters:

jsonURL - the URL for the JSON object

Returns:

an instance of the objectType containing the JSON information

Throws:

IOException - thrown if the webservice is down or the json response was invalid

getAssayDetailList

public uk.ac.ebi.pride.archive.web.service.model.assay.AssayDetailList getAssayDetailList(String jsonURL)
                                                                                   throws IOException

Convert from JSON to a list of AssaytDetails.

Parameters:

jsonURL - the URL for the JSON object

Returns:

an instance of the objectType containing the JSON information

Throws:

IOException - thrown if the webservice is down or the json response was invalid

getFileDetailList

public uk.ac.ebi.pride.archive.web.service.model.file.FileDetailList getFileDetailList(String jsonURL)
                                                                                throws IOException

Convert from JSON to a list of FileDetails.

Parameters:

jsonURL - the URL for the JSON object

Returns:

an instance of the objectType containing the JSON information

Throws:

IOException - thrown if the webservice is down or the json response was invalid

getProteinDetailList

public uk.ac.ebi.pride.archive.web.service.model.protein.ProteinDetailList getProteinDetailList(String jsonURL)
                                                                                         throws IOException

Convert from JSON to a list of ProteinDetails.

Parameters:

jsonURL - the URL for the JSON object

Returns:

an instance of the objectType containing the JSON information

Throws:

IOException - thrown if the webservice is down or the json response was invalid

getPeptideDetailList

public uk.ac.ebi.pride.archive.web.service.model.peptide.PsmDetailList getPeptideDetailList(String jsonURL)
                                                                                     throws IOException

Convert from JSON to a list of ProteinDetails.

Parameters:

jsonURL - the URL for the JSON object

Returns:

an instance of the objectType containing the JSON information

Throws:

IOException - thrown if the webservice is down or the json response was invalid