Uses of Class
org.seqdoop.hadoop_bam.SAMRecordWritable

Packages that use SAMRecordWritable

Package	Description
org.seqdoop.hadoop_bam

Uses of SAMRecordWritable in org.seqdoop.hadoop_bam

Methods in org.seqdoop.hadoop_bam that return SAMRecordWritable

Modifier and Type	Method and Description
SAMRecordWritable	SAMRecordReader.getCurrentValue()
SAMRecordWritable	CRAMRecordReader.getCurrentValue()
SAMRecordWritable	BAMRecordReader.getCurrentValue()

Methods in org.seqdoop.hadoop_bam that return types with arguments of type SAMRecordWritable

Modifier and Type	Method and Description
org.apache.hadoop.mapreduce.RecordReader<org.apache.hadoop.io.LongWritable,SAMRecordWritable>	SAMInputFormat.createRecordReader(org.apache.hadoop.mapreduce.InputSplit split, org.apache.hadoop.mapreduce.TaskAttemptContext ctx) Returns a SAMRecordReader initialized with the parameters.
org.apache.hadoop.mapreduce.RecordReader<org.apache.hadoop.io.LongWritable,SAMRecordWritable>	CRAMInputFormat.createRecordReader(org.apache.hadoop.mapreduce.InputSplit split, org.apache.hadoop.mapreduce.TaskAttemptContext context)
org.apache.hadoop.mapreduce.RecordReader<org.apache.hadoop.io.LongWritable,SAMRecordWritable>	BAMInputFormat.createRecordReader(org.apache.hadoop.mapreduce.InputSplit split, org.apache.hadoop.mapreduce.TaskAttemptContext ctx) Returns a BAMRecordReader initialized with the parameters.
org.apache.hadoop.mapreduce.RecordReader<org.apache.hadoop.io.LongWritable,SAMRecordWritable>	AnySAMInputFormat.createRecordReader(org.apache.hadoop.mapreduce.InputSplit split, org.apache.hadoop.mapreduce.TaskAttemptContext ctx) Returns a BAMRecordReader or SAMRecordReader as appropriate, initialized with the given parameters.
org.apache.hadoop.mapreduce.RecordWriter<K,SAMRecordWritable>	KeyIgnoringCRAMOutputFormat.getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext ctx) setSAMHeader or readSAMHeaderFrom must have been called first.
org.apache.hadoop.mapreduce.RecordWriter<K,SAMRecordWritable>	KeyIgnoringBAMOutputFormat.getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext ctx) setSAMHeader or readSAMHeaderFrom must have been called first.
org.apache.hadoop.mapreduce.RecordWriter<K,SAMRecordWritable>	KeyIgnoringAnySAMOutputFormat.getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext ctx) setSAMHeader or readSAMHeaderFrom must have been called first.
org.apache.hadoop.mapreduce.RecordWriter<K,SAMRecordWritable>	KeyIgnoringCRAMOutputFormat.getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext ctx, org.apache.hadoop.fs.Path out)
org.apache.hadoop.mapreduce.RecordWriter<K,SAMRecordWritable>	KeyIgnoringBAMOutputFormat.getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext ctx, org.apache.hadoop.fs.Path out)
org.apache.hadoop.mapreduce.RecordWriter<K,SAMRecordWritable>	KeyIgnoringAnySAMOutputFormat.getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext ctx, org.apache.hadoop.fs.Path out)

Methods in org.seqdoop.hadoop_bam with parameters of type SAMRecordWritable

Modifier and Type	Method and Description
void	KeyIgnoringSAMRecordWriter.write(K ignored, SAMRecordWritable rec)
void	KeyIgnoringCRAMRecordWriter.write(K ignored, SAMRecordWritable rec)
void	KeyIgnoringBAMRecordWriter.write(K ignored, SAMRecordWritable rec)