Potential bug: providing -o . deletes current directory

it seems that providing current working directory as output directory deletes entire content of the current directory.
The executed command line looked like this:

halla -x results/02_norm/metagenome.norm.txt \
      -y results/02_norm/mirna.norm.txt \
      -o .

excerpt from the stdout/stderr

And the result is empty directory.
Is that the intended behaviour of the tool?


Thanks for pointing this out. HAllA outputs several files, so it’s best to specify a dedicated output directory. I just pushed a patch that disallows specifying “.” as the output directory.