Tim Fennell

I think there are two ways we could approach this - one would be to add a new kind of dependency. The other would be to add some sort of...

How about we shoot for the end of the week (9/2 ish)? I probably have some stuff on various branches that I could clean up and commit by then that...

FYI You can already do this today. The dependency operator `==>` accepts `Option[Dependable]` and does the right thing if you give it a `None`. So you can do things like:...

I'm curious why your second example will fail? Both `Some(task)` and `None` extend `Traversable[_

I'm also running into this issue, and have a couple of suggestions, at least one of which I hope might be feasible. `plot_plasmid_map` already automatically determines where there are overlapping...

Adding a little more fuel to the fire on this one. Our workaround for this for the time being was going to be to run HC twice - once to...

On a whim I took the latest code from master and commented out the two lines in HaplotypeCallerEngine:257-258 that disable phsyical phasing if `emitReferenceConfidence()` is false, and tried running HC...

Thanks @droazen, I suspected that was the case from looking at the history. Though it's not clear to me from @eitanbanks' commit why he would disable it for non-ERC modes....

@dpryan79 is it a matter of ongoing need for AWS credits or more of a one-time thing to get everything up and going and support building all the existing packages/recipes...

Can we talk a little bit about the desired behaviour here? I read through your comment and some of the tests to make sure I understood, and I think I...