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

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This commit is contained in:
Eric Coissac
2024-08-13 09:45:28 +02:00
parent bdb96dda94
commit 31bfc88eb9
43 changed files with 1654 additions and 696 deletions
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5
pkg/obiformats/fastseq_write_fastq.go
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@@ -97,7 +97,6 @@ func WriteFastq(iterator obiiter.IBioSequence,
options ...WithOption) (obiiter.IBioSequence, error) {
opt := MakeOptions(options)
iterator = iterator
file, _ = obiutils.CompressStream(file, opt.CompressedFile(), opt.CloseFile())
@@ -147,7 +146,9 @@ func WriteFastq(iterator obiiter.IBioSequence,
func WriteFastqToStdout(iterator obiiter.IBioSequence,
options ...WithOption) (obiiter.IBioSequence, error) {
options = append(options, OptionDontCloseFile())
// options = append(options, OptionDontCloseFile())
options = append(options, OptionCloseFile())
return WriteFastq(iterator, os.Stdout, options...)
}