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Reducing memory allocation events

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Former-commit-id: c94e79ba116464504580fc397270ead154063971
This commit is contained in:
Eric Coissac
2024-06-22 22:32:31 +02:00
parent e6b87ecd02
commit 93f9dcb95f
8 changed files with 98 additions and 46 deletions
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34
pkg/obiformats/fastseq_obi_header.go
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@ -7,6 +7,7 @@ import (
"regexp"
"strconv"
"strings"
"unsafe"
log "github.com/sirupsen/logrus"
@ -298,17 +299,18 @@ func ParseFastSeqOBIHeader(sequence *obiseq.BioSequence) {
}
}
func FormatFastSeqOBIHeader(sequence *obiseq.BioSequence) string {
func WriteFastSeqOBIHeade(buffer *bytes.Buffer, sequence *obiseq.BioSequence) {
annotations := sequence.Annotations()
if annotations != nil {
var text strings.Builder
if len(annotations) > 0 {
for key, value := range annotations {
if key != "definition" {
switch t := value.(type) {
case string:
text.WriteString(fmt.Sprintf("%s=%s; ", key, t))
buffer.WriteString(fmt.Sprintf("%s=%s; ", key, t))
case map[string]int,
map[string]string,
map[string]interface{},
@ -318,16 +320,30 @@ func FormatFastSeqOBIHeader(sequence *obiseq.BioSequence) string {
log.Fatalf("Cannot convert %v value", value)
}
tv = bytes.ReplaceAll(tv, []byte(`"`), []byte("'"))
text.WriteString(fmt.Sprintf("%s=", key))
text.Write(tv)
text.WriteString("; ")
buffer.WriteString(fmt.Sprintf("%s=", key))
buffer.Write(tv)
buffer.WriteString("; ")
default:
text.WriteString(fmt.Sprintf("%s=%v; ", key, value))
buffer.WriteString(fmt.Sprintf("%s=%v; ", key, value))
}
}
}
return text.String() + " " + sequence.Definition()
if sequence.HasDefinition() {
buffer.WriteByte(' ')
buffer.WriteString(sequence.Definition())
}
}
}
func FormatFastSeqOBIHeader(sequence *obiseq.BioSequence) string {
annotations := sequence.Annotations()
if annotations != nil {
var text bytes.Buffer
WriteFastSeqOBIHeade(&text, sequence)
return unsafe.String(unsafe.SliceData(text.Bytes()), len(text.String()))
}
return ""