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Patch the empty batch bug

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Former-commit-id: fcee04b58f2c4a0bf2c27792f991391c0b6ce78e
This commit is contained in:
Eric Coissac
2023-03-07 20:16:06 +07:00
parent 1e7756ec91
commit 5fbe52368c
6 changed files with 11 additions and 35 deletions
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31
pkg/obitools/obiconvert/sequence_reader.go
View File

@@ -138,7 +138,7 @@ func CLIReadBioSequences(filenames ...string) (obiiter.IBioSequence, error) {
}
iterator = obiformats.ReadSequencesBatchFromFiles(
filenames,
list_of_files,
reader,
nreader,
opts...,
@@ -162,34 +162,11 @@ func CLIReadBioSequences(filenames ...string) (obiiter.IBioSequence, error) {
}
// list_of_files = list_of_files[1:]
// others := make([]obiiter.IBioSequenceBatch, 0, len(list_of_files))
// for _, fn := range list_of_files {
// r, err := reader(fn, opts...)
// if err != nil {
// return obiiter.NilIBioSequenceBatch, err
// }
// others = append(others, r)
// }
// if len(others) > 0 {
// if CLINoInputOrder() {
// iterator = iterator.Pool(others...)
// } else {
// iterator = iterator.Concat(others...)
// }
// }
}
// if SequencesToSkip() > 0 {
// iterator = iterator.Skip(SequencesToSkip())
// }
// if AnalyzeOnly() > 0 {
// iterator = iterator.Head(AnalyzeOnly())
// }
if CLIProgressBar() {
iterator = iterator.Speed()
}
return iterator, nil
}

3
pkg/obitools/obiconvert/sequence_writer.go
View File

@@ -35,9 +35,6 @@ func BuildPairedFileNames(filename string) (string, string) {
func CLIWriteBioSequences(iterator obiiter.IBioSequence,
terminalAction bool, filenames ...string) (obiiter.IBioSequence, error) {
if CLIProgressBar() {
iterator = iterator.Speed()
}
var newIter obiiter.IBioSequence
opts := make([]obiformats.WithOption, 0, 10)