The Computer Language
24.06 Benchmarks Game

k-nucleotide Dart jit program

source code

/* The Computer Language Benchmarks Game

   https://salsa.debian.org/benchmarksgame-team/benchmarksgame/

   Contributed by Philip Rogers
   Based on a javascript implementation by Jesse Millikan and Matt Baker
   + null safety 
*/

import 'dart:io';
import 'dart:collection';

String readLine() => stdin.readLineSync() ?? '>>>>>>';

String readInput() {
  while (readLine().substring(0, 6) != '>THREE');

  final lines = <String>[];
  String line = readLine();
  while (line[0] != '>') {
    lines.add(line);
    line = readLine();
  }
  ;
  return lines.join('').toUpperCase();
}

HashMap<String, int> frequency(String sequence, int length) {
  HashMap<String, int> freq = new HashMap<String, int>();
  int n = sequence.length - length + 1;
  String sub;
  for (int i = 0; i < n; i++) {
    sub = sequence.substring(i, i + length);
    if (freq.containsKey(sub))
      freq[sub] = (freq[sub] ?? 0) + 1;
    else
      freq[sub] = 1;
  }
  return freq;
}

void sort(String sequence, int length) {
  HashMap<String, int> freq = frequency(sequence, length);
  List<String> keys = freq.keys.toList();
  int n = sequence.length - length + 1;

  keys.sort((a, b) {
    int _a = freq[a] ?? 0;
    int _b = freq[b] ?? 0;
    return _b - _a;
  });

  for (String key in keys) {
    String count = ((freq[key] ?? 0) * 100 / n).toStringAsFixed(3);
    print('$key $count');
  }
  print('');
}

void find(String sequence, String string) {
  HashMap<String, int> freq = frequency(sequence, string.length);
  print('${(freq[string])}\t$string');
}

void main(args) {
  String sequence = readInput();

  sort(sequence, 1);
  sort(sequence, 2);
  find(sequence, 'GGT');
  find(sequence, 'GGTA');
  find(sequence, 'GGTATT');
  find(sequence, 'GGTATTTTAATT');
  find(sequence, 'GGTATTTTAATTTATAGT');
}
    

notes, command-line, and program output

NOTES:
64-bit Ubuntu quad core
Dart SDK version: 3.4.1 (stable)
Tue May 21 15:46:25 2024



 Tue, 28 May 2024 22:26:36 GMT

MAKE:
/opt/src/dart-sdk/bin/dart analyze 
Analyzing tmp...
No issues found!

1.78s to complete and log all make actions

COMMAND LINE:
 /opt/src/dart-sdk/bin/dart run  knucleotide.dartjit 0 < knucleotide-input25000000.txt

PROGRAM OUTPUT:
A 30.295
T 30.151
C 19.800
G 19.754

AA 9.177
TA 9.132
AT 9.131
TT 9.091
CA 6.002
AC 6.001
AG 5.987
GA 5.984
CT 5.971
TC 5.971
GT 5.957
TG 5.956
CC 3.917
GC 3.911
CG 3.909
GG 3.902

1471758	GGT
446535	GGTA
47336	GGTATT
893	GGTATTTTAATT
893	GGTATTTTAATTTATAGT