33 lines
1.1 KiB
ReStructuredText
33 lines
1.1 KiB
ReStructuredText
.. _analysis-workflow-example
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Analysis Workflow Example
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==========================
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This is a quick guide for creating and running a simple pipeline to analysis an example dataset with 2 participants.
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#. Install RAPIDS. See :ref:`Installation Section <install-page>`.
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#. Make sure your database connection credentials in ``.env`` have write permission and set the correct ``MY_GROUP`` parameter in ``example_profile/example_config.yaml`` file. See step 1 of :ref:`Usage Section <db-configuration>`.
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#. Make sure your Conda (python) environment is active. See step 6 of :ref:`install-page`.
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#. Run the following command to restore database from ``rapids_example.sql`` file::
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sankemake -j1 restore_sql_file
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#. Create example participants files with the following command::
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snakemake -j1 create_example_participant_files
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#. Run the following command to analysis the example dataset.
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- Execute over a single core::
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snakemake -j1 --profile example_profile
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- Execute over multiple cores (here, we use 8 cores)::
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snakemake -j8 --profile example_profile
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