func kmerFreq(filename string, localFreq map[int]int32, kmer_len int) {
genome := readGenome(os.Args[1] + "/" + filename)
var wg sync.WaitGroup
numCores := runtime.NumCPU()
result := make(chan int, numCores)
for i := 0; i < numCores; i++ {
wg.Add(1)
go func(i int) {
defer wg.Done()
start := len(genome) * i / numCores
end := len(genome) * (i + 1) / numCores
if start != 0 {
start = start - kmer_len + 1
}
kmers.Slide(genome, kmer_len, start, end, result)
}(i)
}
go func() {
wg.Wait()
close(result)
}()
for k := range result {
localFreq[k]++
}
}
func main() {
if len(os.Args) != 2 {
panic("must provide sequence folder file.")
}
files, _ := ioutil.ReadDir(os.Args[1])
gsm := make(map[int]int)
numCores := runtime.NumCPU()
runtime.GOMAXPROCS(numCores)
kmer_len := 14
for index, file := range files {
genome := readGenome(os.Args[1] + "/" + file.Name())
var wg sync.WaitGroup
result := make(chan int, numCores)
for i := 0; i < numCores; i++ {
wg.Add(1)
go func(i int) {
defer wg.Done()
start := len(genome) * i / numCores
end := len(genome) * (i + 1) / numCores
if start != 0 {
start = start - kmer_len
}
fmt.Println(start, end)
kmers.Slide(genome, kmer_len, start, end, result)
}(i)
}
go func() {
wg.Wait()
close(result)
}()
for k := range result {
if gsm[k] == 0 {
gsm[k] = index + 1
} else if gsm[k] == index+1 {
} else {
gsm[k] = -1
}
}
}
var keys []int
for k := range gsm {
keys = append(keys, k)
}
sort.Ints(keys)
for _, k := range keys {
fmt.Println("Key:", kmers.NumToKmer(k, kmer_len), k, "Value:", gsm[k], "end")
}
}
