Patch a bug on writing to stdout, and add clearer error on openning data files

This commit is contained in:
Eric Coissac committed 2024-08-13 09:45:28 +02:00
1 parent bdb96dda94
commit 31bfc88eb9
43 files changed
+1654 -696

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@@ -3,8 +3,6 @@ package main
import (
"os"
log "github.com/sirupsen/logrus"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiiter"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obioptions"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obitools/obiconvert"
@@ -35,11 +33,7 @@ func main() {
_, args := optionParser(os.Args)
sequences, err := obiconvert.CLIReadBioSequences(args...)
if err != nil {
log.Errorf("Cannot open file (%v)", err)
os.Exit(1)
}
obiconvert.OpenSequenceDataErrorMessage(args, err)
amplicons, _ := obipcr.CLIPCR(sequences)
obiconvert.CLIWriteBioSequences(amplicons, true)