/** <code>setHeader</code> or <code>readHeaderFrom</code> must have been * called first. */ @Override public RecordWriter<K,VariantContextWritable> getRecordWriter( TaskAttemptContext ctx) throws IOException { Configuration conf = ctx.getConfiguration(); boolean isCompressed = getCompressOutput(ctx); CompressionCodec codec = null; String extension = ""; if (isCompressed) { Class<? extends CompressionCodec> codecClass = getOutputCompressorClass(ctx, BGZFCodec.class); codec = ReflectionUtils.newInstance(codecClass, conf); extension = codec.getDefaultExtension(); } Path file = getDefaultWorkFile(ctx, extension); if (!isCompressed) { return getRecordWriter(ctx, file); } else { FileSystem fs = file.getFileSystem(conf); return getRecordWriter(ctx, codec.createOutputStream(fs.create(file))); } }
/** <code>setHeader</code> or <code>readHeaderFrom</code> must have been * called first. */ @Override public RecordWriter<K,VariantContextWritable> getRecordWriter( TaskAttemptContext ctx) throws IOException { Configuration conf = ctx.getConfiguration(); boolean isCompressed = getCompressOutput(ctx); CompressionCodec codec = null; String extension = ""; if (isCompressed) { Class<? extends CompressionCodec> codecClass = getOutputCompressorClass(ctx, BGZFCodec.class); codec = ReflectionUtils.newInstance(codecClass, conf); extension = codec.getDefaultExtension(); } Path file = getDefaultWorkFile(ctx, extension); if (!isCompressed) { return getRecordWriter(ctx, file); } else { FileSystem fs = file.getFileSystem(conf); return getRecordWriter(ctx, codec.createOutputStream(fs.create(file))); } }
/** <code>setHeader</code> or <code>readHeaderFrom</code> must have been * called first. */ @Override public RecordWriter<K,VariantContextWritable> getRecordWriter( TaskAttemptContext ctx) throws IOException { Configuration conf = ctx.getConfiguration(); boolean isCompressed = getCompressOutput(ctx); CompressionCodec codec = null; String extension = ""; if (isCompressed) { Class<? extends CompressionCodec> codecClass = getOutputCompressorClass(ctx, BGZFCodec.class); codec = ReflectionUtils.newInstance(codecClass, conf); extension = codec.getDefaultExtension(); } Path file = getDefaultWorkFile(ctx, extension); if (!isCompressed) { return getRecordWriter(ctx, file); } else { FileSystem fs = file.getFileSystem(conf); return getRecordWriter(ctx, codec.createOutputStream(fs.create(file))); } }