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$ cat config.py | |
import os | |
from pathlib import Path | |
from dask_jobqueue import SLURMCluster | |
from prefect.executors import DaskExecutor | |
import prefect | |
def SLURM_exec(): | |
cluster = SLURMCluster(n_workers=30) | |
logging = prefect.context.get("logger") | |
logging.debug(f"Dask cluster started") | |
logging.debug(f"see dashboard {cluster.dashboard_link}") | |
return cluster | |
class Config: | |
# location in container | |
dm2mrc_loc = "/usr/local/IMOD/bin/dm2mrc" | |
mrc2tif_loc = "/usr/local/IMOD/bin/mrc2tif" | |
size_lg = "1024x1024" | |
size_sm = "300x300" | |
# the path to the Projects dir - can vary depending on mount point. | |
# assets_dir = "/hedwigqa_data/Assets/" | |
two_d_input_exts = ["dm4", "dm3", "tif", "tiff", "png", "jpg", "jpeg"] | |
SLURM_EXECUTOR = DaskExecutor(cluster_class=SLURM_exec) | |
brt_binary = "/opt/rml/imod/bin/batchruntomo" | |
# brt_binary = "/usr/local/IMOD/bin/batchruntomo" | |
# tmp_dir = "/gs1/home/macmenaminpe/tmp" | |
tmp_dir = "/gs1/Scratch/macmenaminpe_scratch/" | |
# tmp_dir = "/tmp/" | |
mount_point = "/mnt/ai-fas12/" | |
# mount_point = "/home/macmenaminpe/" | |
proj_dir = f"{mount_point}/data/" | |
# repo_dir = os.path.join(os.path.dirname(__file__), "..") | |
repo_dir = Path(os.path.dirname(__file__)) | |
template_dir = Path(f"{repo_dir.as_posix()}/templates") |
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