performance measurements

Each table row shows performance measurements for this Ruby program with a particular command-line input value N.

 N  CPU secs Elapsed secs Memory KB Code B ≈ CPU Load
50,0000.460.4843,336507  2% 0% 6% 100%
500,0003.883.9022,448507  1% 1% 1% 100%
5,000,00037.9437.97198,108507  1% 1% 1% 100%

Read the ↓ make, command line, and program output logs to see how this program was run.

Read regex-dna benchmark to see what this program should do.

 notes

ruby 2.1.5p273 (2014-11-13 revision 48405) [i686-linux]

 regex-dna Ruby #7 program source code

# The Computer Language Benchmarks Game
# http://benchmarksgame.alioth.debian.org
#
# contributed by jose fco. gonzalez
# optimized & parallelized by Rick Branson
# further optimised by Scott Leggett

seq = STDIN.readlines.join
ilen = seq.size

seq.gsub!(/>.*\n|\n/,"")
clen = seq.length

MATCHERS = [
  /agggtaaa|tttaccct/,
  /[cgt]gggtaaa|tttaccc[acg]/,
  /a[act]ggtaaa|tttacc[agt]t/,
  /ag[act]gtaaa|tttac[agt]ct/,
  /agg[act]taaa|ttta[agt]cct/,
  /aggg[acg]aaa|ttt[cgt]ccct/,
  /agggt[cgt]aa|tt[acg]accct/,
  /agggta[cgt]a|t[acg]taccct/,
  /agggtaa[cgt]|[acg]ttaccct/
]

if RUBY_PLATFORM == "java"
  threads = MATCHERS.map do |f|
    Thread.new do
      Thread.current[:result] = "#{f.source} #{seq.scan(f).size}"
    end
  end

  threads.each do |t|
    t.join
  end

  threads.each do |t|
    puts t[:result]
  end
else
  children = MATCHERS.map do |f|
    r, w = IO.pipe
    p = Process.fork do
      r.close
      w.write "#{f.source} #{seq.scan(f).size}"
      w.close
    end
  
    w.close
    [p, r, w]
  end

  children.each do |p, r, w|
    puts r.read
    r.close
  end

  Process.waitall
end

seq.gsub!(/[BDHKMNRSVWY]/, {
    'B' => '(c|g|t)', 'D' => '(a|g|t)', 'H' => '(a|c|t)', 'K' => '(g|t)',
    'M' => '(a|c)', 'N' => '(a|c|g|t)', 'R' => '(a|g)', 'S' => '(c|t)',
    'V' => '(a|c|g)', 'W' => '(a|t)', 'Y' => '(c|t)'
})

puts
puts ilen
puts clen
puts seq.length

 make, command-line, and program output logs

Fri, 14 Nov 2014 23:11:47 GMT

COMMAND LINE:
/usr/local/src/ruby/bin/ruby regexdna.yarv-7.yarv 0 < regexdna-input5000000.txt

PROGRAM OUTPUT:
agggtaaa|tttaccct 356
[cgt]gggtaaa|tttaccc[acg] 1250
a[act]ggtaaa|tttacc[agt]t 4252
ag[act]gtaaa|tttac[agt]ct 2894
agg[act]taaa|ttta[agt]cct 5435
aggg[acg]aaa|ttt[cgt]ccct 1537
agggt[cgt]aa|tt[acg]accct 1431
agggta[cgt]a|t[acg]taccct 1608
agggtaa[cgt]|[acg]ttaccct 2178

50833411
50000000
66800214

Revised BSD license

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