1 files changed, 208 insertions, 0 deletions
diff --git a/dependencies/pkg/mod/golang.org/x/exp@v0.0.0-20220613132600-b0d781184e0d/shootout/fasta.go b/dependencies/pkg/mod/golang.org/x/exp@v0.0.0-20220613132600-b0d781184e0d/shootout/fasta.go
new file mode 100644
index 0000000..3890113
--- /dev/null
+++ b/dependencies/pkg/mod/golang.org/x/exp@v0.0.0-20220613132600-b0d781184e0d/shootout/fasta.go
@@ -0,0 +1,208 @@
+//go:build ignore
+// +build ignore
+
+/*
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+    * Redistributions of source code must retain the above copyright
+    notice, this list of conditions and the following disclaimer.
+
+    * Redistributions in binary form must reproduce the above copyright
+    notice, this list of conditions and the following disclaimer in the
+    documentation and/or other materials provided with the distribution.
+
+    * Neither the name of "The Computer Language Benchmarks Game" nor the
+    name of "The Computer Language Shootout Benchmarks" nor the names of
+    its contributors may be used to endorse or promote products derived
+    from this software without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+ARE DISCLAIMED.  IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE
+LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
+CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
+SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
+INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
+CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
+ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
+POSSIBILITY OF SUCH DAMAGE.
+*/
+
+/* The Computer Language Benchmarks Game
+ * http://shootout.alioth.debian.org/
+ *
+ * contributed by The Go Authors.
+ * Based on C program by by Petr Prokhorenkov.
+ */
+
+package main
+
+import (
+	"flag"
+	"os"
+)
+
+var out = make(buffer, 0, 32768)
+
+var n = flag.Int("n", 1000, "length of result")
+
+const Line = 60
+
+func Repeat(alu []byte, n int) {
+	buf := append(alu, alu...)
+	off := 0
+	for n > 0 {
+		m := n
+		if m > Line {
+			m = Line
+		}
+		buf1 := out.NextWrite(m + 1)
+		copy(buf1, buf[off:])
+		buf1[m] = '\n'
+		if off += m; off >= len(alu) {
+			off -= len(alu)
+		}
+		n -= m
+	}
+}
+
+const (
+	IM = 139968
+	IA = 3877
+	IC = 29573
+
+	LookupSize          = 4096
+	LookupScale float64 = LookupSize - 1
+)
+
+var rand uint32 = 42
+
+type Acid struct {
+	sym   byte
+	prob  float64
+	cprob float64
+	next  *Acid
+}
+
+func computeLookup(acid []Acid) *[LookupSize]*Acid {
+	var lookup [LookupSize]*Acid
+	var p float64
+	for i := range acid {
+		p += acid[i].prob
+		acid[i].cprob = p * LookupScale
+		if i > 0 {
+			acid[i-1].next = &acid[i]
+		}
+	}
+	acid[len(acid)-1].cprob = 1.0 * LookupScale
+
+	j := 0
+	for i := range lookup {
+		for acid[j].cprob < float64(i) {
+			j++
+		}
+		lookup[i] = &acid[j]
+	}
+
+	return &lookup
+}
+
+func Random(acid []Acid, n int) {
+	lookup := computeLookup(acid)
+	for n > 0 {
+		m := n
+		if m > Line {
+			m = Line
+		}
+		buf := out.NextWrite(m + 1)
+		f := LookupScale / IM
+		myrand := rand
+		for i := 0; i < m; i++ {
+			myrand = (myrand*IA + IC) % IM
+			r := float64(int(myrand)) * f
+			a := lookup[int(r)]
+			for a.cprob < r {
+				a = a.next
+			}
+			buf[i] = a.sym
+		}
+		rand = myrand
+		buf[m] = '\n'
+		n -= m
+	}
+}
+
+func main() {
+	defer out.Flush()
+
+	flag.Parse()
+
+	iub := []Acid{
+		{prob: 0.27, sym: 'a'},
+		{prob: 0.12, sym: 'c'},
+		{prob: 0.12, sym: 'g'},
+		{prob: 0.27, sym: 't'},
+		{prob: 0.02, sym: 'B'},
+		{prob: 0.02, sym: 'D'},
+		{prob: 0.02, sym: 'H'},
+		{prob: 0.02, sym: 'K'},
+		{prob: 0.02, sym: 'M'},
+		{prob: 0.02, sym: 'N'},
+		{prob: 0.02, sym: 'R'},
+		{prob: 0.02, sym: 'S'},
+		{prob: 0.02, sym: 'V'},
+		{prob: 0.02, sym: 'W'},
+		{prob: 0.02, sym: 'Y'},
+	}
+
+	homosapiens := []Acid{
+		{prob: 0.3029549426680, sym: 'a'},
+		{prob: 0.1979883004921, sym: 'c'},
+		{prob: 0.1975473066391, sym: 'g'},
+		{prob: 0.3015094502008, sym: 't'},
+	}
+
+	alu := []byte(
+		"GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGG" +
+			"GAGGCCGAGGCGGGCGGATCACCTGAGGTCAGGAGTTCGAGA" +
+			"CCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAAT" +
+			"ACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCA" +
+			"GCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGG" +
+			"AGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCC" +
+			"AGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAA")
+
+	out.WriteString(">ONE Homo sapiens alu\n")
+	Repeat(alu, 2**n)
+	out.WriteString(">TWO IUB ambiguity codes\n")
+	Random(iub, 3**n)
+	out.WriteString(">THREE Homo sapiens frequency\n")
+	Random(homosapiens, 5**n)
+}
+
+type buffer []byte
+
+func (b *buffer) Flush() {
+	p := *b
+	if len(p) > 0 {
+		os.Stdout.Write(p)
+	}
+	*b = p[0:0]
+}
+
+func (b *buffer) WriteString(s string) {
+	p := b.NextWrite(len(s))
+	copy(p, s)
+}
+
+func (b *buffer) NextWrite(n int) []byte {
+	p := *b
+	if len(p)+n > cap(p) {
+		b.Flush()
+		p = *b
+	}
+	out := p[len(p) : len(p)+n]
+	*b = p[:len(p)+n]
+	return out
+}