github.com/razvanm/vanadium-go-1.3@v0.0.0-20160721203343-4a65068e5915/test/bench/shootout/k-nucleotide.go (about)

     1  /*
     2  Redistribution and use in source and binary forms, with or without
     3  modification, are permitted provided that the following conditions are met:
     4  
     5      * Redistributions of source code must retain the above copyright
     6      notice, this list of conditions and the following disclaimer.
     7  
     8      * Redistributions in binary form must reproduce the above copyright
     9      notice, this list of conditions and the following disclaimer in the
    10      documentation and/or other materials provided with the distribution.
    11  
    12      * Neither the name of "The Computer Language Benchmarks Game" nor the
    13      name of "The Computer Language Shootout Benchmarks" nor the names of
    14      its contributors may be used to endorse or promote products derived
    15      from this software without specific prior written permission.
    16  
    17  THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
    18  AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
    19  IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
    20  ARE DISCLAIMED.  IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE
    21  LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
    22  CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
    23  SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
    24  INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
    25  CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
    26  ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
    27  POSSIBILITY OF SUCH DAMAGE.
    28  */
    29  
    30  /* The Computer Language Benchmarks Game
    31   * http://shootout.alioth.debian.org/
    32   *
    33   * contributed by The Go Authors.
    34   */
    35  
    36  package main
    37  
    38  import (
    39  	"bufio"
    40  	"bytes"
    41  	"fmt"
    42  	"io/ioutil"
    43  	"os"
    44  	"sort"
    45  )
    46  
    47  var in *bufio.Reader
    48  
    49  func count(data string, n int) map[string]int {
    50  	counts := make(map[string]int)
    51  	top := len(data) - n
    52  	for i := 0; i <= top; i++ {
    53  		s := data[i : i+n]
    54  		counts[s]++
    55  	}
    56  	return counts
    57  }
    58  
    59  func countOne(data string, s string) int {
    60  	return count(data, len(s))[s]
    61  }
    62  
    63  type kNuc struct {
    64  	name  string
    65  	count int
    66  }
    67  
    68  type kNucArray []kNuc
    69  
    70  func (kn kNucArray) Len() int      { return len(kn) }
    71  func (kn kNucArray) Swap(i, j int) { kn[i], kn[j] = kn[j], kn[i] }
    72  func (kn kNucArray) Less(i, j int) bool {
    73  	if kn[i].count == kn[j].count {
    74  		return kn[i].name > kn[j].name // sort down
    75  	}
    76  	return kn[i].count > kn[j].count
    77  }
    78  
    79  func sortedArray(m map[string]int) kNucArray {
    80  	kn := make(kNucArray, len(m))
    81  	i := 0
    82  	for k, v := range m {
    83  		kn[i].name = k
    84  		kn[i].count = v
    85  		i++
    86  	}
    87  	sort.Sort(kn)
    88  	return kn
    89  }
    90  
    91  func print(m map[string]int) {
    92  	a := sortedArray(m)
    93  	sum := 0
    94  	for _, kn := range a {
    95  		sum += kn.count
    96  	}
    97  	for _, kn := range a {
    98  		fmt.Printf("%s %.3f\n", kn.name, 100*float64(kn.count)/float64(sum))
    99  	}
   100  }
   101  
   102  func main() {
   103  	in = bufio.NewReader(os.Stdin)
   104  	three := []byte(">THREE ")
   105  	for {
   106  		line, err := in.ReadSlice('\n')
   107  		if err != nil {
   108  			fmt.Fprintln(os.Stderr, "ReadLine err:", err)
   109  			os.Exit(2)
   110  		}
   111  		if line[0] == '>' && bytes.Equal(line[0:len(three)], three) {
   112  			break
   113  		}
   114  	}
   115  	data, err := ioutil.ReadAll(in)
   116  	if err != nil {
   117  		fmt.Fprintln(os.Stderr, "ReadAll err:", err)
   118  		os.Exit(2)
   119  	}
   120  	// delete the newlines and convert to upper case
   121  	j := 0
   122  	for i := 0; i < len(data); i++ {
   123  		if data[i] != '\n' {
   124  			data[j] = data[i] &^ ' ' // upper case
   125  			j++
   126  		}
   127  	}
   128  	str := string(data[0:j])
   129  
   130  	print(count(str, 1))
   131  	fmt.Print("\n")
   132  
   133  	print(count(str, 2))
   134  	fmt.Print("\n")
   135  
   136  	interests := []string{"GGT", "GGTA", "GGTATT", "GGTATTTTAATT", "GGTATTTTAATTTATAGT"}
   137  	for _, s := range interests {
   138  		fmt.Printf("%d %s\n", countOne(str, s), s)
   139  	}
   140  }