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== Running the GotCloud Mapping Pipeline ==
== Running the GotCloud Mapping Pipeline ==
The mapping pipeline is run using the <code>gen_biopipeline.pl</code> script found in the <code>bin/</code> directory under the <code>gotcloud/</code> installation.
The mapping pipeline is run using the <code>gen_biopipeline.pl</code> script found in the <code>bin/</code> directory under the <code>gotcloud/</code> installation.
===Running the Automatic Test===
===Running the Automatic Test===
The automatic tests run GotCloud on small testsets and check the results against expected results validating that GotCloud is installed correctly.
The automatic test runs the mapping pipeline on a small testset and checks the results against expected results validating that GotCloud is installed correctly.
*Run alignment pipeline test:
*Run alignment pipeline test:
