seqkit split writes an extra empty file when using --two-pass

[apcamargo]

I got an FASTA file with 847 sequences and I tried to split it into individual files with:

seqkit split -w 0 -2 -p 847 foo.fasta

848 files were created, the last one of which is empty. Omitting -2 solves the issue.

[shenwei356]

I see, I can reproduce this.

seqkit split2 is recommended, which doe not have this issue.

seqkit split2 -w 0 -s 1 foo.fasta

BTW, use -s 1 where you do not have to know the number of sequences before using -p 847, for splitting into individual files.

[apcamargo]

Thanks for the help!