Snakemake stuck at localrule All

[Bob]

Hi everyone,

I am running a test Snakemake pipeline on GCP with google-life-sciences. Each rule runs correctly untill I get to the final "rule All" where I specify my expected outputs.

I don't get any errors but the terminal keeps showing "Downloading from remote: test_ouput/test_file.txt"

It stays like this for hours and when I try to look at the current running jobs with htop, it shows that Snakemake is running with status "D". Meaning that it is waiting for I/O instruction and is in uninterruptible sleep, so I can't kill it with kill -9 jobid.

Since the test I am running only creates one file with one line, this should not take long to download. I can open the file on GCP and it looks correct as expected.

Does anyone know why the Snakemake run is getting stuck at the final step for downloading the expected output file?

Thanks in advance!