Possible methods for further development of vcf_filter UnitTest

[Jiu9Shen]

No description provided.

[Jiu9Shen]

One test can be performed by setting parameters to filter out all SNPs, then it will be much easier to check files generated from different format.

[laceysanderson]

For each file format we should have a check that the file generated is of the expected format. I would create a helper method in your class for each format: like checkABHformatCompliance($file). Then you can call this function within your existing tests.

Also, the advantage of a testing suite is it can do much more intensive checks. I would do checks like: if I say filter "Only include Bi-allelic SNPs " that all the SNPs in the output file are bi-allelic and that you get the same number of SNPs after filtering that you do when this is done on the command-line. I would do this for all filter criteria, for all formats. Remember to use helper methods & arguements rather then copy/paste code.