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Adds the ability to read gzip-tar file for the taxonomy dump

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This commit is contained in:
Eric Coissac
2025-01-24 11:47:59 +01:00
parent ffd67252c3
commit 3137c1f841
17 changed files with 305 additions and 64 deletions
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6
pkg/obiformats/universal_read.go
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@ -172,15 +172,15 @@ func OBIMimeTypeGuesser(stream io.Reader) (*mimetype.MIME, io.Reader, error) {
// - error: An error if any occurred during the reading process.
func ReadSequencesFromFile(filename string,
options ...WithOption) (obiiter.IBioSequence, error) {
var file *Reader
var file *obiutils.Reader
var reader io.Reader
var err error
options = append(options, OptionsSource(obiutils.RemoveAllExt((path.Base(filename)))))
file, err = Ropen(filename)
file, err = obiutils.Ropen(filename)
if err == ErrNoContent {
if err == obiutils.ErrNoContent {
log.Infof("file %s is empty", filename)
return ReadEmptyFile(options...)
}