Uses of Class
org.seqdoop.hadoop_bam.SAMRecordWritable

Packages that use SAMRecordWritable

Package	Description
org.seqdoop.hadoop_bam
org.seqdoop.hadoop_bam.cli

Uses of SAMRecordWritable in org.seqdoop.hadoop_bam

Methods in org.seqdoop.hadoop_bam that return SAMRecordWritable

Modifier and Type	Method and Description
SAMRecordWritable	BAMRecordReader.getCurrentValue()
SAMRecordWritable	SAMRecordReader.getCurrentValue()
SAMRecordWritable	CRAMRecordReader.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>	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.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>	CRAMInputFormat.createRecordReader(org.apache.hadoop.mapreduce.InputSplit split, org.apache.hadoop.mapreduce.TaskAttemptContext context)
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>	KeyIgnoringCRAMOutputFormat.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>	KeyIgnoringBAMOutputFormat.getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext ctx, org.apache.hadoop.fs.Path out)
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>	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	KeyIgnoringCRAMRecordWriter.write(K ignored, SAMRecordWritable rec)
void	KeyIgnoringSAMRecordWriter.write(K ignored, SAMRecordWritable rec)
void	KeyIgnoringBAMRecordWriter.write(K ignored, SAMRecordWritable rec)

Uses of SAMRecordWritable in org.seqdoop.hadoop_bam.cli

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

Modifier and Type	Method and Description
org.apache.hadoop.mapreduce.RecordWriter<K,SAMRecordWritable>	CLIMergingAnySAMOutputFormat.getRecordWriter(org.apache.hadoop.mapreduce.TaskAttemptContext context)