When the input FASTQ contains sequences with zero length and zero-length sequences are allowed on output with -l 0, the output contains mixtures of FASTQ records and FASTA records, which is clearly not right.
Fixed by PR#10, which changes skewer to tolerate zero-length FASTQ records.
When the input FASTQ contains sequences with zero length and zero-length sequences are allowed on output with -l 0, the output contains mixtures of FASTQ records and FASTA records, which is clearly not right.
Fixed by PR#10, which changes skewer to tolerate zero-length FASTQ records.