This program uses the Work Queue system to distributed tasks among processors. After starting sand_filter_master, you must start a number of work_queue_worker(1) processes on remote machines. The workers will then connect back to the master process and begin executing tasks. The actual filtering is performed by sand_filter_kernel(1) on each machine.
|Port number for queue master to listen on. (default: 9123)|
|Number of sequences in each filtering task. (default: 1000)|
|A meryl file of repeat mers to be filtered out.|
|Automatically retry failed jobs up to n times. (default: 100)|
|The k-mer size to use in candidate selection (default is 22).|
|The minimizer window size. (default is 22).|
|-u||If set, do not unlink temporary binary output files.|
|Checkpoint filename; will be created if necessary.|
|Enable debugging for this subsystem. (Try -d all to start.)|
|Work Queue fast abort multiplier. (default is 10.)|
|Select port at random and write it out to this file.|
|Send debugging to this file.|
|-v||Show version string|
|-h||Show this help screen|
% sand_compress_reads mydata.fasta mydata.cfa % work_queue_worker localhost 9123 & % sand_filter_master mydata.cfa mydata.candTo speed up the process, run more work_queue_worker(1) processes on other machines, or use condor_submit_workers(1) or sge_submit_workers(1) to start hundreds of workers in your local batch system.