Barclay parser doesn't render embedded html as text in usage output

[cmnbroad]

LegacyCommandLineArgumentParser does some limited html tag/entity->text rendering when displaying command line help summary, but the CommandLineArgumentParser doesn't do this, but it should.

[magicDGS]

@cmnbroad - this can be solved with the markdown support in #68, because markdown also supports html and the conversion to text will take care of html tags (as far as I remember). Maybe it is time to have a look to that PR adding mocking tests...

[vdauwera]

Let me know if you guys want me to look at anything; last time I checked everything looked good to me in terms of output, but you guys were discussing technicalities around testing, which I'm fairly agnostic on.

[cmnbroad]

@magicDGS @vdauwera I think this specific issue can be easily fixed pretty easily (at least so we achieve parity with the legacy parser) by just integrating the code the legacy parser uses. I'd love to get markdown in, but I don't realistically expect that will happen until after the GATK release.

[vdauwera]

Happy to follow your recommendation @cmnbroad.