Mark DePristo 9bf1d138d9 New GATK argument interface for data and cpu threads ... -- Closes GSA-515 Nanoscheduler GSA-542 Good interface to nanoScheduler -- Old -nt means dataThreads -- New -cnt (--num_cpu_threads_per_data_thread) gives you n cpu threads for each data thread in the system -- Cleanup logic for handling data and cpu threading in HMS, LMS, and MS -- GATKRunReport reports the total number of threads in use by the GATK, not just the nt value -- Removed the io,cpu tags for nt. Stupid system if you ask me. Cleaned up the GenomeAnalysisEngine and ThreadAllocation handling to be totally straightforward now		2012-09-05 15:45:24 -04:00
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GATKRunReport.java	New GATK argument interface for data and cpu threads	2012-09-05 15:45:24 -04:00