k-nucleotide-parallel.go

Documentation: golang.org/x/exp/shootout

     1  //go:build ignore
     2  // +build ignore
     3  
     4  /*
     5  Redistribution and use in source and binary forms, with or without
     6  modification, are permitted provided that the following conditions are met:
     7  
     8      * Redistributions of source code must retain the above copyright
     9      notice, this list of conditions and the following disclaimer.
    10  
    11      * Redistributions in binary form must reproduce the above copyright
    12      notice, this list of conditions and the following disclaimer in the
    13      documentation and/or other materials provided with the distribution.
    14  
    15      * Neither the name of "The Computer Language Benchmarks Game" nor the
    16      name of "The Computer Language Shootout Benchmarks" nor the names of
    17      its contributors may be used to endorse or promote products derived
    18      from this software without specific prior written permission.
    19  
    20  THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
    21  AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
    22  IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
    23  ARE DISCLAIMED.  IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE
    24  LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
    25  CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
    26  SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
    27  INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
    28  CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
    29  ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
    30  POSSIBILITY OF SUCH DAMAGE.
    31  */
    32  
    33  /* The Computer Language Benchmarks Game
    34   * http://shootout.alioth.debian.org/
    35   *
    36   * contributed by The Go Authors.
    37   */
    38  
    39  package main
    40  
    41  import (
    42  	"bufio"
    43  	"bytes"
    44  	"fmt"
    45  	"io"
    46  	"os"
    47  	"runtime"
    48  	"sort"
    49  )
    50  
    51  func count(data string, n int) map[string]int {
    52  	counts := make(map[string]int)
    53  	top := len(data) - n
    54  	for i := 0; i <= top; i++ {
    55  		s := data[i : i+n]
    56  		counts[s]++
    57  	}
    58  	return counts
    59  }
    60  
    61  func countOne(data string, s string) int {
    62  	return count(data, len(s))[s]
    63  }
    64  
    65  type kNuc struct {
    66  	name  string
    67  	count int
    68  }
    69  
    70  type kNucArray []kNuc
    71  
    72  func (kn kNucArray) Len() int      { return len(kn) }
    73  func (kn kNucArray) Swap(i, j int) { kn[i], kn[j] = kn[j], kn[i] }
    74  func (kn kNucArray) Less(i, j int) bool {
    75  	if kn[i].count == kn[j].count {
    76  		return kn[i].name > kn[j].name // sort down
    77  	}
    78  	return kn[i].count > kn[j].count
    79  }
    80  
    81  func sortedArray(m map[string]int) kNucArray {
    82  	kn := make(kNucArray, len(m))
    83  	i := 0
    84  	for k, v := range m {
    85  		kn[i] = kNuc{k, v}
    86  		i++
    87  	}
    88  	sort.Sort(kn)
    89  	return kn
    90  }
    91  
    92  func printKnucs(a kNucArray) {
    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  	fmt.Print("\n")
   101  }
   102  
   103  func main() {
   104  	runtime.GOMAXPROCS(4)
   105  	in := bufio.NewReader(os.Stdin)
   106  	three := []byte(">THREE ")
   107  	for {
   108  		line, err := in.ReadSlice('\n')
   109  		if err != nil {
   110  			fmt.Fprintln(os.Stderr, "ReadLine err:", err)
   111  			os.Exit(2)
   112  		}
   113  		if line[0] == '>' && bytes.Equal(line[0:len(three)], three) {
   114  			break
   115  		}
   116  	}
   117  	data, err := io.ReadAll(in)
   118  	if err != nil {
   119  		fmt.Fprintln(os.Stderr, "ReadAll err:", err)
   120  		os.Exit(2)
   121  	}
   122  	// delete the newlines and convert to upper case
   123  	j := 0
   124  	for i := 0; i < len(data); i++ {
   125  		if data[i] != '\n' {
   126  			data[j] = data[i] &^ ' ' // upper case
   127  			j++
   128  		}
   129  	}
   130  	str := string(data[0:j])
   131  
   132  	var arr1, arr2 kNucArray
   133  	countsdone := make(chan bool)
   134  	go func() {
   135  		arr1 = sortedArray(count(str, 1))
   136  		countsdone <- true
   137  	}()
   138  	go func() {
   139  		arr2 = sortedArray(count(str, 2))
   140  		countsdone <- true
   141  	}()
   142  
   143  	interests := []string{"GGT", "GGTA", "GGTATT", "GGTATTTTAATT", "GGTATTTTAATTTATAGT"}
   144  	results := make([]chan string, len(interests))
   145  	for i, s := range interests {
   146  		ch := make(chan string)
   147  		results[i] = ch
   148  		go func(result chan string, ss string) {
   149  			result <- fmt.Sprintf("%d %s\n", countOne(str, ss), ss)
   150  		}(ch, s)
   151  	}
   152  	<-countsdone
   153  	<-countsdone
   154  	printKnucs(arr1)
   155  	printKnucs(arr2)
   156  	for _, rc := range results {
   157  		fmt.Print(<-rc)
   158  	}
   159  
   160  }
   161
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