read.seq end with read.name when using pyfastx.Fastq in parsing long read FASTQ file

Question

read.seq end with read.name when using pyfastx.Fastq in parsing long read FASTQ file

Opened this issue 10 months ago · 4 comments

Hi,
I found an error when I use pyfastx.Fastq to parsing the long read FASTQ file.
The read.name untimely appearance in the end of read.seq string, such as 'GGCATTTTTCCGTTTGTCACTTCTTCTTCGCTATCCTGTT@390872df-5709-4012-8278-1f4969a328af ch=103 start_time=2021-01-21T19:40:20.617'.
The pyfastx version is 2.0.2. Can you check what this issue is?

code:
fq = pyfastx.Fastq('../test/ecoli.fq.gz')
for read in fq:
if '@' in read.seq:
print(read.name)
print(read.seq)
print(read.qual)

Answer 1 · 2024-02-25T07:35:48.000Z

QYanwei commented 10 months ago

Answer 2 · 2024-02-26T01:49:51.000Z

I have the same problem.

Answer 3 · 2024-02-27T04:33:42.000Z

Thanks, I will check this issue.

Answer 4 · 2024-02-28T14:31:13.000Z

I have fixed it in v2.1.0.