Potential bug: providing -o . deletes current directory

Downstream analysis and statistics HAllA
1

Hello,
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

image
image701×420 51.8 KB

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

Thanks

2

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.