dib-lab / 2022-branchwater-benchmarking Goto Github PK

        Command being timed: "/home/ctbrown/scratch/magsearch/bin/searcher -k 31 --scaled=1000 -o output.csv siglist-a.txt data/wort-list-a.txt"
        User time (seconds): 46185.31
        System time (seconds): 1329.98
        Percent of CPU this job got: 2593%
        Elapsed (wall clock) time (h:mm:ss or m:ss): 30:31.75
        Average shared text size (kbytes): 0
        Average unshared data size (kbytes): 0
        Average stack size (kbytes): 0
        Average total size (kbytes): 0
        Maximum resident set size (kbytes): 24259940
        Average resident set size (kbytes): 0
        Major (requiring I/O) page faults: 12
        Minor (reclaiming a frame) page faults: 428254673
        Voluntary context switches: 166157
        Involuntary context switches: 7161352
        Swaps: 0
        File system inputs: 196555504
        File system outputs: 2304
        Socket messages sent: 0
        Socket messages received: 0
        Signals delivered: 0
        Page size (bytes): 4096
        Exit status: 0

h:m:s   cpu_time        max_rss
0:23:14 40626.79        16106.77
0:23:14 38643.81        17553.49
0:22:37 37936.37        18257.87
0:25:05 39209.39        16107.48
0:26:36 37791.57        14046.44

%  scripts/intersect-ls-and-catalog.py data/ls-wort.txt data/metagenomes-catalog.txt
loaded 767277 accessions from 'data/metagenomes-catalog.txt'
example acc: ERR1083538
Loaded 767277 file sizes from 'data/ls-wort.txt'
average file size: 9716.0
median file size: 570

        Command being timed: "snakemake -j 32 --snakefile benchmarking.snakefile"
        User time (seconds): 3609042.48
        System time (seconds): 98105.28
        Percent of CPU this job got: 2963%
        Elapsed (wall clock) time (h:mm:ss or m:ss): 34:44:51
        Average shared text size (kbytes): 0
        Average unshared data size (kbytes): 0
        Average stack size (kbytes): 0
        Average total size (kbytes): 0
        Maximum resident set size (kbytes): 52518880
        Average resident set size (kbytes): 0
        Major (requiring I/O) page faults: 24
        Minor (reclaiming a frame) page faults: 30125462817
        Voluntary context switches: 9804070
        Involuntary context switches: 564183263
        Swaps: 0
        File system inputs: 14879893680
        File system outputs: 178544
        Socket messages sent: 0
        Socket messages received: 0
        Signals delivered: 0
        Page size (bytes): 4096
        Exit status: 0