Example usage for org.springframework.batch.item.file.transform PassThroughLineAggregator PassThroughLineAggregator

Introduction

In this page you can find the example usage for org.springframework.batch.item.file.transform PassThroughLineAggregator PassThroughLineAggregator.

Prototype

PassThroughLineAggregator

Source Link

Usage

From source file:de.codecentric.batch.jobs.FlatFileJobConfiguration.java

@Bean
public ItemWriter<String> writer() {
    FlatFileItemWriter<String> writer = new FlatFileItemWriter<String>();
    writer.setResource(new FileSystemResource(new File("target/out-javaconfig.txt")));
    writer.setLineAggregator(new PassThroughLineAggregator<String>());
    return writer;
}

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From source file:org.cbio.portal.pipelines.foundation.ClinicalDataWriter.java

@Override
public void open(ExecutionContext executionContext) throws ItemStreamException {
    String stagingFile = outputDirectory + "data_clinical.txt";

    PassThroughLineAggregator aggr = new PassThroughLineAggregator();
    flatFileItemWriter.setLineAggregator(aggr);
    flatFileItemWriter.setHeaderCallback(new FlatFileHeaderCallback() {
        @Override//from ww w  .j a v  a2 s. co  m
        public void writeHeader(Writer writer) throws IOException {
            writer.write(getHeader());
        }
    });
    flatFileItemWriter.setResource(new FileSystemResource(stagingFile));
    flatFileItemWriter.open(executionContext);
}

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From source file:org.cbio.portal.pipelines.foundation.CnaDataWriter.java

@Override
public void open(ExecutionContext executionContext) throws ItemStreamException {
    // retrieve list of foundation cases from execution context
    final Map<String, CaseType> fmiCaseTypeMap = (Map<String, CaseType>) executionContext.get("fmiCaseTypeMap");

    String stagingFile = outputDirectory + "data_CNA.txt";
    PassThroughLineAggregator aggr = new PassThroughLineAggregator();
    flatFileItemWriter.setLineAggregator(aggr);
    flatFileItemWriter.setHeaderCallback(new FlatFileHeaderCallback() {
        @Override/*from   w  w  w.j  a va  2 s.  com*/
        public void writeHeader(Writer writer) throws IOException {
            writer.write(getHeader(fmiCaseTypeMap.keySet()));
        }
    });
    flatFileItemWriter.setResource(new FileSystemResource(stagingFile));
    flatFileItemWriter.open(executionContext);
}

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From source file:org.cbio.portal.pipelines.foundation.FusionDataWriter.java

@Override
public void open(ExecutionContext executionContext) throws ItemStreamException {
    String stagingFile = outputDirectory + "data_fusions.txt";

    PassThroughLineAggregator aggr = new PassThroughLineAggregator();
    flatFileItemWriter.setLineAggregator(aggr);
    flatFileItemWriter.setHeaderCallback(new FlatFileHeaderCallback() {
        @Override/*from w ww. j  a  v a 2s .c o  m*/
        public void writeHeader(Writer writer) throws IOException {
            writer.write(getHeader());
        }
    });
    flatFileItemWriter.setResource(new FileSystemResource(stagingFile));
    flatFileItemWriter.open(executionContext);
}

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From source file:org.cbioportal.annotation.pipeline.MutationRecordWriter.java

@Override
public void open(ExecutionContext ec) throws ItemStreamException {
    stagingFile = Paths.get(outputFilename);

    PassThroughLineAggregator aggr = new PassThroughLineAggregator();
    flatFileItemWriter.setLineAggregator(aggr);
    flatFileItemWriter.setResource(new FileSystemResource(stagingFile.toString()));
    flatFileItemWriter.setHeaderCallback(new FlatFileHeaderCallback() {
        @Override//  w w w. ja  va 2s  .  c o  m
        public void writeHeader(Writer writer) throws IOException {
            AnnotatedRecord record = new AnnotatedRecord();

            // first write out the comment lines, then write the actual header
            for (String comment : commentLines) {
                writer.write(comment + "\n");
            }
            writer.write(StringUtils.join(header, "\t"));
        }
    });
    flatFileItemWriter.open(ec);
}

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From source file:org.cbio.portal.pipelines.foundation.MutationDataWriter.java

@Override
public void open(ExecutionContext executionContext) throws ItemStreamException {
    // retrieve list of foundation cases from execution context
    final List<CaseType> fmiCaseList = (List<CaseType>) executionContext.get("fmiCaseList");

    String stagingFile = outputDirectory + "data_mutations_extended.txt";
    PassThroughLineAggregator aggr = new PassThroughLineAggregator();
    flatFileItemWriter.setLineAggregator(aggr);
    flatFileItemWriter.setHeaderCallback(new FlatFileHeaderCallback() {
        @Override//  ww  w  . ja v a  2  s . c o m
        public void writeHeader(Writer writer) throws IOException {
            writer.write(getHeader(fmiCaseList));
        }
    });
    flatFileItemWriter.setResource(new FileSystemResource(stagingFile));
    flatFileItemWriter.open(executionContext);
}

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From source file:org.jboss.examples.spring.batch.BatchConfiguration.java

@Bean
public FlatFileItemWriter<AggregateItem<Trade>> writer() {
    FlatFileItemWriter rc = new FlatFileItemWriter();
    rc.setLineAggregator(new PassThroughLineAggregator());
    rc.setResource(new FileSystemResource("./target/multistep.txt"));
    return rc;// w  w  w.j  ava2s .c o  m
}

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From source file:org.cbio.portal.pipelines.foundation.MetaDataTasklet.java

/**
 * Create and Write meta data file./*from   www .j  a  v  a 2s .c o  m*/
 * @param executionContext
 * @throws Exception 
 */
private void writeMetaStagingFile(ExecutionContext executionContext, String metaFilename, List<String> metaData)
        throws Exception {
    FlatFileItemWriter<String> flatFileItemWriter = new FlatFileItemWriter<>();
    PassThroughLineAggregator aggr = new PassThroughLineAggregator();

    try {
        flatFileItemWriter.setLineAggregator(aggr);
        flatFileItemWriter.setResource(new FileSystemResource(metaFilename));
        flatFileItemWriter.open(executionContext);
        flatFileItemWriter.write(metaData);
        flatFileItemWriter.close();
    } catch (Exception ex) {
        LOG.error("Error writing meta data file: " + metaFilename);
        ex.printStackTrace();
    }

}

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