pfh / weitrix Goto Github PK

Hi Paul,

I'm the maintainer of the DelayedArray package. In the next few days I'm planning to make a small change to the behavior of realize() that could potentially affect packages that use this function (weitrix is one of them).

What will change?

Only the behavior of the default realize() method will change, and it will change only when the BACKEND argument is set to NULL. Right now (i.e. in DelayedArray <= 0.29.0), realize(x, BACKEND=NULL) realizes x in memory (as an ordinary array) and returns the in-memory array wrapped in a DelayedArray object. The change I'm considering is to get rid of the DelayedArray wrap, that is, to return the in-memory array naked.

Note that for any other BACKEND value, nothing will change, i.e. realize() will still be guaranteed to return a DelayedArray derivative (e.g. an HDF5Array object if BACKEND is set to "HDF5Array").

How will this affect your code?

If it's important for your code that realize() always returns a DelayedArray object or derivative, like it does at the moment, then simply replace any call to realize(...) with DelayedArray(realize(...)). This will preserve the current behavior even after the change. Note that calling the DelayedArray() constructor function on a DelayedArray object or derivative is a no-op. In other words, this extra step won't add the DelayedArray wrap again if there's already one.

Where/when will this change happen?

I will make this change to the devel branch of the DelayedArray package in the next few days. It will only (potentially) affect packages in BioC 3.19. Nothing will change in the RELEASE_3_18 branch of DelayedArray (BioC 3.18).

Let me know if you have any question about this.

Thanks,
H.