@wdecoster I tested the performance of this pull version against the last version I submitted also using DM.fastq.gz. The performance is comparable, differences within 3 seconds.

@JMencius ，Yes, this version only adds support for two additional compressed files (xz and bzip2), and fixes the problem that data will be lost when there are multiple members of GZ files

Hi @wdecoster, i did a test
step1:

build multiple members gz file ,testGC.fastq in test-data dir

gzip -c testGC.fastq testGC.fastq > mutl.fq.gz

step2:
run command
chopper -i mutl.fq.gz --mingc 0.5

output :

result in chopper 0.8.0: Kept 6 reads out of 11 reads

in this pr version: Kept 12 reads out of 22 reads

run chopper without any args will report Error: stdin not detected and exit

Do you mean this was an error that is now fixed? It still works on stdin, right?

Awesome!