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Start to use leveled log

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This commit is contained in:
Eric Coissac
2022-02-24 12:14:52 +01:00
parent f18cc034bb
commit abcf02e488
43 changed files with 156 additions and 67 deletions
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11
pkg/obiformats/fastseq_read.go
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@ -8,10 +8,11 @@ import "C"
import (
"fmt"
"log"
"os"
"unsafe"
log "github.com/sirupsen/logrus"
"git.metabarcoding.org/lecasofts/go/obitools/pkg/cutils"
"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiiter"
"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiseq"
@ -61,7 +62,7 @@ func _FastseqReader(seqfile C.fast_kseq_p,
slice = append(slice, rep)
ii++
if ii >= batch_size {
// log.Printf("\n==> Pushing sequence batch\n")
//log.Printf("\n==> Pushing sequence batch\n")
// start := time.Now()
iterator.Push(obiiter.MakeBioSequenceBatch(i, slice))
@ -100,7 +101,7 @@ func ReadFastSeqBatchFromFile(filename string, options ...WithOption) (obiiter.I
fi, err := os.Stat(filename)
if err == nil {
size = fi.Size()
log.Printf("File size of %s is %d bytes\n", filename, size)
log.Debugf("File size of %s is %d bytes\n", filename, size)
} else {
size = -1
}
@ -110,10 +111,10 @@ func ReadFastSeqBatchFromFile(filename string, options ...WithOption) (obiiter.I
go func() {
newIter.WaitAndClose()
log.Println("End of the fastq file reading")
log.Debugln("End of the fastq file reading")
}()
log.Println("Start of the fastq file reading")
log.Debugln("Start of the fastq file reading")
go _FastseqReader(pointer, newIter, opt.BatchSize())
parser := opt.ParseFastSeqHeader()