I never seen a HPC center where use of containers was encouraged. It is just running binaries from user directories on disk under different users.
Attempts to introduce containers in a way which doesn't stand in the way are treated as revolutionary. Such as the Fuzzball scheduler (I found no good written source on a quick skim so have a talk) https://youtu.be/Pbmxq3dg35E
I don't know about encouraged, but HPC-oriented container systems are certainly demanded, particularly Singularity (which I'd avoid). There was Shifter originally and now also at least Charliecloud and Enroot. The normal resource manager could do the namespacing itself, which is what you really want, but it's often possible just to run with an unpacked distribution and suitable environment variables in lieu of a different root.
Attempts to introduce containers in a way which doesn't stand in the way are treated as revolutionary. Such as the Fuzzball scheduler (I found no good written source on a quick skim so have a talk) https://youtu.be/Pbmxq3dg35E