This mode splits a file in compact reads format into one or more files. It is implemented by edu.cornell.med.icb.goby.modes.SplitCompactReadsMode.java.

Mode Parameters

The following options are available in this mode

FlagArgumentsRequiredDescription
(-i|--input)inputyesName of the compact input file.
(-o|--output)outputyesName of the compact output output.
(-s|--start-position)start-positionyesThe start position for the split, which should be number of bytes into the file to start the split. The split will actually start at the first record on or after start-position.
(-e|--end-position)end-positionyesThe end position for the split, which should be number of bytes into the file to end the split. The split will actually end at the end of the record on or after end-position.
(-n|--sequence-per-chunk)sequence-per-chunknoThe number of sequences that will be written in each compressed chunk. Default is suitable for very many short sequences. Reduce to a few sequences per chunk if each sequence is very large.