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2. Generate the manifest file

parallel -k echo {} ::: db1 db2 db3 db4 ::: /dir/to/all/the/*.fasta > manifest

There are other ways to generate a manifest file with one to multiple columns, using parallel is one of the easiest ways. Parallel is available as a software module and can be installed with mamba in a python env on the supercomputers, while this step can also be performed on your local computer with parallel installed. To find the parallel module on supercomputers:

module avail parallel.  # to find the correct module name
module load parallel-20220522-gcc-12.1.0  # for Sol
module load parallel-20220522-ie          # for Phoenix

parallel -k echo {} ::: db1 db2 db3 db4 ::: /dir/to/all/the/*.fasta > manifest

This line of code will mix and match the attributes {db1, db2, db3, db4} with all the fasta files in the given directory, then write the outputs line by line into a text file called manifest. Below is an example of the output. The -k flag means the sequence of the output lines should be the same order as the order of the given attributes.

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