Add benchmarking to the rules

[gregorgorjanc]

@janaobsteter what should be the naming principle for these benchmark files. For log we, say, have:

        log: 'logs/Extract_aligned_alleles_from_VCF.log'

should I chuck benchmark in the same log file or separately?

        benchmark: 'logs/Extract_aligned_alleles_from_VCF.log'

or

        benchmark: 'benchmark/Extract_aligned_alleles_from_VCF.log'

or

        benchmark: 'logs/Extract_aligned_alleles_from_VCF.log_benchmark'

[janaobsteter]

@gregorgorjanc , option no 3 :)

[gregorgorjanc]

Guys, I think I need to focus on other bits, so will have to leave this to you guys - it’s an easy addition.