public MemoryMapContext(final Mapper.Context context) throws IOException, InterruptedException {
super(
context.getConfiguration(),
context.getTaskAttemptID() == null ? new TaskAttemptID() : context.getTaskAttemptID(),
null,
null,
context.getOutputCommitter(),
null,
context.getInputSplit());
this.context = context;
this.globalConfiguration = context.getConfiguration();
}
@Override
public void setup(final Mapper.Context context) throws IOException, InterruptedException {
final FileSystem fs = FileSystem.get(context.getConfiguration());
try {
this.engine.eval(
new InputStreamReader(fs.open(new Path(context.getConfiguration().get(SCRIPT_PATH)))));
this.engine.put(ARGS, context.getConfiguration().getStrings(SCRIPT_ARGS));
this.engine.eval(SETUP_ARGS);
} catch (Exception e) {
throw new InterruptedException(e.getMessage());
}
this.outputs = new SafeMapperOutputs(context);
}
@Override
public void setup(final Mapper.Context context) throws IOException, InterruptedException {
this.map = new CounterMap<Object>();
this.property = context.getConfiguration().get(PROPERTY);
this.isVertex =
context
.getConfiguration()
.getClass(CLASS, Element.class, Element.class)
.equals(Vertex.class);
this.handler =
new WritableHandler(
context.getConfiguration().getClass(TYPE, Text.class, WritableComparable.class));
this.outputs = new SafeMapperOutputs(context);
}
private BWAAlnInstance(Mapper.Context context, String bin)
throws IOException, URISyntaxException {
super(context, bin);
taskId = context.getTaskAttemptID().toString();
taskId = taskId.substring(taskId.indexOf("m_"));
ref = HalvadeFileUtils.downloadBWAIndex(context, taskId);
alnCustomArgs = HalvadeConf.getCustomArgs(context.getConfiguration(), "bwa", "aln");
}
@Override
protected void setup(org.apache.hadoop.mapreduce.Mapper.Context context)
throws IOException, InterruptedException {
kMaxValues = context.getConfiguration().getInt("map.numberOfKWords", 10);
this.sortValues = new TreeSet<WordCount>();
}
@Override
public void setup(final Mapper.Context context) throws IOException, InterruptedException {
this.isVertex =
context
.getConfiguration()
.getClass(CLASS, Element.class, Element.class)
.equals(Vertex.class);
}
@Override
protected void setup(Mapper.Context ctx) throws IOException, InterruptedException {
maxSimilaritiesPerRow = ctx.getConfiguration().getInt(MAX_SIMILARITIES_PER_ROW, 0);
Preconditions.checkArgument(
maxSimilaritiesPerRow > 0, "Incorrect maximum number of similarities per row!");
}
protected void setup(Mapper.Context context) throws IOException, InterruptedException {
Configuration config = context.getConfiguration();
this.caseSensitive = config.getBoolean("wordcount.case.sensitive", false);
}
protected void setup(org.apache.hadoop.mapreduce.Mapper.Context context)
throws IOException, InterruptedException {
sourceColumn = ByteBuffer.wrap(context.getConfiguration().get(CONF_COLUMN_NAME).getBytes());
}