Peter Audano

I am seeing the same behavior on Snakemake versions 7.32.4 with `--slurm` and 8.1.0 with `--executor slurm` (snakemake-executor-plugin-slurm 0.1.4). Jobs are scheduled with the right number of cores, but `threads`...

@johanneskoester Is there someone that can take on this case? It's a real pain for pipelines using profiles to set resources.

I start a Snakemake job with: snakemake -j 20 --profile profiles/slurm The job outputs the command it's going to run to the screen where I ran Snakemake (note "-num_threads 16"):...

Are you running ant from the downloaded files? Ant works from the repository (e.g. `git clone ...`). Run `ant package` to build a tar.gz file, and it will show up...

I think we are talking about two different things. There is a release tarball (latest is now "kestrel-1.0.2-linux.tar.gz"). That one is already compiled, and there is no "build.xml" or source...

Looks like this may be a bug handling ambiguous bases. It's failing building the array of k-mer counts for chromosome 1 (249250621 - 31 + 1 = 249250591). Running Kestrel...