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ARCC is aware that the exact details and versions presented here are out-of-date, but the general process is still valid. We will endeavor to update this page as soon as we can. |
Overview
Dadi is a powerful software tool for simulating the joint frequency spectrum (FS) of genetic variation among multiple populations and employing the FS for population-genetic inference.
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The basic environment will:
Step though creating a basic Conda environment. Dadi uses PyCuda and scikit-cuda as packages to assist with interfacing with GPUs.
Provide a template for a bash script to submit jobs using sbatch.
Provide a very simple script that tests dadi has been imported and can identify the allocated GPU.
Note:
This is a short page and assumes some familiarization with using Conda. The “Package and Dependency Management with Conda” can be found on ARCC’s Training/Consultation page.
The installation of dadi within the conda environment will also install related dependencies, but nothing else. Since you’re creating the conda environment, you can extend and install other packages. You can view the conda packages installed using
conda listwhile in an active environment.The bash script only uses a single node and single core. It is up to the user to explore other configurations.
In the scripts and examples below, please remember to appropriately edit to use your account, email address, folder locations etc.
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