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|
package fastx
import (
// "fmt"
"io"
"testing"
)
func TestFastaReader2(t *testing.T) {
file := "test.fa"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
for {
_, err := reader.Read()
if err != nil {
if err == io.EOF {
break
}
t.Error(err)
break
}
// fmt.Print(record)
}
}
func TestFastaReader3(t *testing.T) {
file := "test.fa"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
for chunk := range reader.ChunkChan(0, 1) {
if chunk.Err != nil {
t.Error(chunk.Err)
}
// for _, record := range chunk.Data {
// // fmt.Print(record)
// }
}
}
func TestFastqReadern(t *testing.T) {
file := "test.fq"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
for {
_, err := reader.Read()
if err != nil {
if err == io.EOF {
break
}
t.Error(err)
break
}
// fmt.Print(record)
}
}
// -----------------------------
func TestFastaReader(t *testing.T) {
file := "test.fa"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
n := 0
for chunk := range reader.ChunkChan(0, 1) {
if chunk.Err != nil {
t.Error(chunk.Err)
}
n += len(chunk.Data)
// for _, record := range chunk.Data {
// fmt.Println(record)
// }
}
if n != 6 {
t.Errorf("seq number mismatch %d != %d", 6, n)
}
}
func TestFastqReader(t *testing.T) {
file := "test.fq"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
n := 0
for chunk := range reader.ChunkChan(0, 1) {
if chunk.Err != nil {
t.Error(chunk.Err)
}
n += len(chunk.Data)
// for _, record := range chunk.Data {
// fmt.Println(record)
// }
}
if n != 8 {
t.Errorf("seq number mismatch %d != %d", 8, n)
}
}
func TestFastqReader2(t *testing.T) {
file := "test2.fq"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
n := 0
for chunk := range reader.ChunkChan(0, 1) {
if chunk.Err != nil {
t.Error(chunk.Err)
}
n += len(chunk.Data)
// for _, record := range chunk.Data {
// fmt.Println(record)
// }
}
if n != 5 {
t.Errorf("seq number mismatch %d != %d", 5, n)
}
}
func TestFastqReader3(t *testing.T) {
file := "test3.fq"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
n := 0
l := -1
for chunk := range reader.ChunkChan(0, 1) {
if chunk.Err != nil {
t.Error(chunk.Err)
}
n += len(chunk.Data)
for _, record := range chunk.Data {
// fmt.Println(record)
if l == -1 {
l = len(record.Seq.Seq)
} else {
if l != len(record.Seq.Seq) {
t.Errorf("parse error")
return
}
}
}
}
if n != 3 {
t.Errorf("seq number mismatch %d != %d", 5, n)
}
}
func TestBlankFile(t *testing.T) {
file := "blank.fx"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
for chunk := range reader.ChunkChan(0, 1) {
if chunk.Err != nil {
if chunk.Err != ErrNotFASTXFormat {
t.Error(chunk.Err)
}
}
}
}
func TestBlankFile2(t *testing.T) {
file := "blank1.fx"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
for chunk := range reader.ChunkChan(0, 1) {
// should not reach here
t.Errorf("should not reach here. error: %s", chunk.Err)
return
}
}
func TestEmptyFile(t *testing.T) {
file := "empty.fx"
reader, err := NewDefaultReader(file)
if err != nil {
t.Error(err)
}
for chunk := range reader.ChunkChan(0, 1) {
// should not reach here
t.Errorf("should not reach here. error: %s", chunk.Err)
return
}
}
|
