Workflow functions

Install Module

Snakecdysis offer the facility to easy install workflow configuration on Local or HPC.

install_local

Run installation for running in local computer.

The process downloading singularity images automatically.

PKGNAME install_local [OPTIONS]

Options

--bash_completion, --no-bash_completion

Allow bash completion of PKGNAME commands on the bashrc file

Default:

True

install_cluster

Run installation of tool for HPC cluster

PKGNAME install_cluster [OPTIONS]

Options

-s, --scheduler <scheduler>

Type the HPC scheduler (for the moment, only slurm is available ! )

Default:

slurm

Options:

slurm

-e, --env <env>

Mode for tools dependencies

Default:

modules

Options:

modules | singularity

--bash_completion, --no-bash_completion

Allow bash completion of PKGNAME commands on the bashrc file

Default:

True