Add command line argument for output filename in evaluator scripts

[gaurav-kaushik]

I'd like the ability to specify the output filename for the evaluator scripts (in lieu of calling it 'result.out' each time). This would be helpful for evaluating a batch of bedpe's/tsv's produced from a batch of tests.

For example, the command line for the Fusion Evaluator tool could be:
evaluator.py evaluateFusionDet --gtf GRCh37.gtf --input sample1_star.bedpe --truth truth.bedpe --output "sample1_result.out"

This isn't a blocker, since it's possible to circumvent this by modifying the CWL, but it'd be cleaner to allow the user to pass an argument directly to the tool. Thanks! :)

[thomasyu888]

Thanks for the suggestion. I will definitely work on incorporating this.