Uses of Class
org.oncoblocks.centromere.core.dataimport.component.DataImportException

Packages that use DataImportException

Package	Description
org.oncoblocks.centromere.core.dataimport.component
org.oncoblocks.centromere.core.dataimport.pipeline

Uses of DataImportException in org.oncoblocks.centromere.core.dataimport.component

Methods in org.oncoblocks.centromere.core.dataimport.component that throw DataImportException

Modifier and Type	Method and Description
void	RepositoryRecordWriter.doAfter() Performs no action.
void	RepositoryRecordUpdater.doAfter() Performs no action.
void	RecordWriter.doAfter() Executes after the last writeRecord call.
void	RecordReader.doAfter() To be executed after the last readRecord call.
void	AbstractRecordFileWriter.doAfter() Closes the open file writer.
void	RepositoryRecordWriter.doBefore(String destination) Performs no action.
void	RepositoryRecordUpdater.doBefore(String destination) Performs no action.
void	RecordWriter.doBefore(String destination) Executes before the first writeRecord method call.
void	RecordReader.doBefore(String input) To be executed before the readRecord method is called.
void	AbstractRecordFileWriter.doBefore(String destination) Opens a new output file for writing.
void	AbstractRecordFileReader.doBefore(String input) Closes any open readers and opens the new target file.
void	RecordImporter.importFile(String filePath) Runs the data import on the specified temp file.
void	AbstractRecordFileWriter.open(String outputFilePath) Creates or overwrites an output file, creates a FileWriter for writing records to the file.
void	AbstractRecordFileReader.open(String inputFilePath) Opens the target file and creates a BufferedReader, which can be referenced via its getter method.
T	RecordReader.readRecord() Generates and returns a single Model entity from the input data source.
void	RecordProcessor.run(String path) Executes the pipeline and processes the input through the individual components.
void	GenericRecordProcessor.run(String inputFilePath) RecordProcessor.run(String)
void	RecordWriter.writeRecord(T record) Writes a single Model entity to the target destination.

Uses of DataImportException in org.oncoblocks.centromere.core.dataimport.pipeline

Methods in org.oncoblocks.centromere.core.dataimport.pipeline that throw DataImportException

Modifier and Type	Method and Description
protected void	ImportJobRunner.configurationCheck() Checks that all necessary configurations have taken place place before the import job runs.
protected RecordProcessor	ImportJobRunner.getProcessorInstanceByDataType(String name) Returns reference to existing RecordProcessor bean, given an associated data type.
ImportJob	JsonJobFileParser.parseJobFile(String inputPath) JobFileParser.parseJobFile(String)
ImportJob	JobFileParser.parseJobFile(String inputPath) Reads an input file and converts its contents to an ImportJob object.
protected void	ImportJobRunner.processDataSet(DataSetMetadata dataSet, InputFile inputFile) Processes the current data set record.
void	ImportJobRunner.runImport() Executes the import pipeline and processes all of the files in the ImportJob.
void	ImportJobRunner.setImportJob(ImportJob importJob)
protected void	ImportJobRunner.validateImportJob() Checks that the submitted ImportJob object contains all the required components.