Refactoring codes for removing buffer size options. An some other changes...

Former-commit-id: 10b57cc1a27446ade3c444217341e9651e89cdce

pkg/obitools/obicsv/obicsv.go

@@ -0,0 +1,61 @@
+package obicsv
+
+import (
+	"log"
+
+	"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiformats"
+	"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiiter"
+	"git.metabarcoding.org/lecasofts/go/obitools/pkg/obioptions"
+	"git.metabarcoding.org/lecasofts/go/obitools/pkg/obitools/obiconvert"
+)
+
+func CLIWriteCSV(iterator obiiter.IBioSequence,
+	terminalAction bool, filenames ...string) (obiiter.IBioSequence, error) {
+
+	if obiconvert.CLIProgressBar() {
+		iterator = iterator.Speed()
+	}
+
+	var newIter obiiter.IBioSequence
+
+	opts := make([]obiformats.WithOption, 0, 10)
+
+	nworkers := obioptions.CLIParallelWorkers() / 4
+	if nworkers < 2 {
+		nworkers = 2
+	}
+
+	opts = append(opts, obiformats.OptionsParallelWorkers(nworkers))
+	opts = append(opts, obiformats.OptionsBatchSize(obioptions.CLIBatchSize()))
+
+	opts = append(opts, obiformats.OptionsQualityShift(obiconvert.CLIOutputQualityShift()))
+	opts = append(opts, obiformats.OptionsCompressed(obiconvert.CLICompressed()))
+
+	opts = append(opts, obiformats.CSVId(CLIPrintId()),
+		obiformats.CSVCount(CLIPrintCount()),
+		obiformats.CSVTaxon(CLIPrintTaxon()),
+		obiformats.CSVDefinition(CLIPrintDefinition()),
+		obiformats.CSVKeys(CLIToBeKeptAttributes()),
+	)
+
+	var err error
+
+	if len(filenames) == 0 {
+		newIter, err = obiformats.WriteCSVToStdout(iterator, opts...)
+	} else {
+		newIter, err = obiformats.WriteCSVToFile(iterator, filenames[0], opts...)
+	}
+
+	if err != nil {
+		log.Fatalf("Write file error: %v", err)
+		return obiiter.NilIBioSequence, err
+	}
+
+	if terminalAction {
+		newIter.Recycle()
+		return obiiter.NilIBioSequence, nil
+	}
+
+	return newIter, nil
+
+}