[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 46147 sequences (4614700 bp)...
[M::mem_process_seqs] Processed 46147 reads in 3.256 CPU sec, 0.221 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem -t 16 ../influenzaA/2-alignment/pathogen/indices/bwa/influenzaA ../influenzaA/2-alignment/host/fastq/DRR051442.fastq
[main] Real time: 0.506 sec; CPU: 3.358 sec