Filepaths

This module contains commonly-used filepaths and directories.

easylink.utilities.paths.DEV_IMAGES_DIR = '/mnt/team/simulation_science/priv/engineering/er_ecosystem/images'

Path to the directory where the development/dummy pipeline images are stored.

easylink.utilities.paths.DEFAULT_IMAGES_DIR = PosixPath('/home/docs/.easylink_images')

Default subdirectory for storing downloaded images.

easylink.utilities.paths.IMPLEMENTATION_METADATA = PosixPath('/home/docs/checkouts/readthedocs.org/user_builds/easylink/envs/latest/lib/python3.11/site-packages/easylink/implementation_metadata.yaml')

Path to the implementation metadata file.

easylink.utilities.paths.EASYLINK_TEMP = {'local': PosixPath('/tmp/easylink'), 'slurm': PosixPath('/tmp')}

Paths to the easylink tmp/ directory to get bound to the container’s /tmp directory. When running on slurm, we bind /tmp (rather than /tmp/easylink) to avoid creating a subdir with a prolog script

easylink.utilities.paths.SPARK_SNAKEFILE = PosixPath('/home/docs/checkouts/readthedocs.org/user_builds/easylink/envs/latest/lib/python3.11/site-packages/easylink/utilities/spark.smk')

Path to the Snakemake snakefile containing spark-specific rules.