Skip to content
Snippets Groups Projects
Commit ec1b9870 authored by Manavalan Gajapathy's avatar Manavalan Gajapathy
Browse files

tries out panoptes monitoring

parent 31bdea3f
No related branches found
No related tags found
1 merge request!1QuaC - First major review
......@@ -9,8 +9,11 @@ along with their required modules, and submits them as slurm job.
Run the script with --help flag to see its available options.
Example usage:
python src/run_quac.py --project_name CF_CFF_PFarrell --pedigree data/raw/ped/CF_CFF_PFarrell.ped -l -n
# First create environment as described in documentation
python src/run_quac.py --project_name CF_CFF_PFarrell --pedigree data/raw/ped/CF_CFF_PFarrell.ped
python src/run_quac.py --project_name HCC --pedigree data/raw/ped/HCC.ped --exome
python src/run_quac.py --project_name UnusualCancers_CMGalluzi --projects_path /data/project/sloss/cgds_path_cmgalluzzi/ \
--pedigree data/raw/ped/UnusualCancers_CMGalluzi.ped --exome
"""
import argparse
......@@ -57,6 +60,8 @@ def create_snakemake_command(args):
"--cluster 'sbatch --ntasks {cluster.ntasks} --partition {cluster.partition}"
" --cpus-per-task {cluster.cpus-per-task} --mem {cluster.mem}"
" --output {cluster.output} --parsable'",
"--wms-monitor http://10.111.161.152/panoptes",
f"--wms-monitor-arg name=22 id=4365",
]
# add any user provided extra args for snakemake
......
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment