We read every piece of feedback, and take your input very seriously.
To see all available qualifiers, see our documentation.
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
@johanneskoester I am very close to getting this working! The step runs successfully:
rule calc_pi: input: "pi_MPI", output: "pi.calc", log: "logs/calc_pi.log", resources: mem_mb=0, tasks=1, mpi="mpiexec", shell: "chmod +x {input};" "{resources.mpi} -hostfile $BATCH_HOSTS_FILE -n {resources.tasks} {input} 10 > {output} 2> {log};"
And I'm copying the logic from https://github.com/snakemake/snakemake/blob/6aabb5db16634c077ba808dbd000a3ed67d6a3c0/tests/test_slurm_mpi/Snakefile#L48-L49 but adding the hostfile. However when I download pi.calc, the output is empty. Are we sure this is the correct usage? When this last step is running I can open a PR to add this full example for intel mpi on Google batch!
The text was updated successfully, but these errors were encountered:
No branches or pull requests
@johanneskoester I am very close to getting this working! The step runs successfully:
And I'm copying the logic from https://github.com/snakemake/snakemake/blob/6aabb5db16634c077ba808dbd000a3ed67d6a3c0/tests/test_slurm_mpi/Snakefile#L48-L49 but adding the hostfile. However when I download pi.calc, the output is empty. Are we sure this is the correct usage? When this last step is running I can open a PR to add this full example for intel mpi on Google batch!
The text was updated successfully, but these errors were encountered: