LXS

For whatever reason, I think you need a space character at the end of the spades argument for it to work... so: `--spades_options "--untrusted-contigs test.fa "` and `--spades_options "--only-assembler "`...

Same issue on tutorial example. ``` $ snakemake -v 7.32.4 ``` Managed to get around it with `--notimestamps` but the command failed elsewhere.

Hi @ctb How does this compare with #2537 ? In case of a multifasta file, to work with `manysketch`, we'd first have to break down the entries into individual files,...