Changes

==Running the Automatic Test==

==Running the Automatic Test==

This verifies that GotCloud was installed correctly.

This verifies that GotCloud's alignment pipeline was installed correctly.

To run the test case automatically, change your current directory to GotCloud's root directory, and type in the following command:

To run the test case for the alignment pipeline automatically, change your current directory to GotCloud's root directory, and type in the following command:

  bin/gen_biopipeline.pl --test OUTPUT_DIR

  bin/gen_biopipeline.pl --test OUTPUT_DIR

where OUTPUT_DIR is the directory where you want to store the results.

where OUTPUT_DIR is the directory where you want to store the test results.

If you see "Test Passed", then you are ready to run a sample.

If you see "Test Passed", then you are ready to run a sample.