Thank you for creating and publishing this tool. It has been very useful to many people and I'd like to contribute in a small way to your project. I noticed that the help text and arguments for fa2fq is not correct and appears to be copied from fq2fa without any changes:
./bin/fa2fq
not enough parameters
fq2fa - Convert Fastq sequences to Fasta sequences.
Usage: fq2fa tmp.fq tmp.fa [...]
fq2fa --paired tmp.fq tmp.fa
fq2fa --merge tmp_1.fq tmp_2.fq tmp.fa
Allowed Options:
--paired if the reads are paired-end in one file
--merge if the reads are paired-end in two files
--filter filter out reads containing 'N'
This is confusing as fa2fq only accepts two positional arguments (a fasta input filepath and a fastq output filepath). None of the options in the help text are used and if you follow the usage help you'll end up with unexpected results.
Thank you for creating and publishing this tool. It has been very useful to many people and I'd like to contribute in a small way to your project. I noticed that the help text and arguments for
fa2fqis not correct and appears to be copied fromfq2fawithout any changes:This is confusing as
fa2fqonly accepts two positional arguments (a fasta input filepath and a fastq output filepath). None of the options in the help text are used and if you follow the usage help you'll end up with unexpected results.