The contracts manager is insisting on the tray stopping between floors and a 4" pipe with a fire collar around it to go through the flooor.Is this correct.
My first thought is that no, this isn't the correct approach.
As others have said, it may be a protected compartment, but even then I'd personally go with the belt & braces approach and firestop between floors as well - after all, just because all the doors are fire doors, doesn't stop someone ignoring the notices. A 4" pipe is a poor choice for this - it will be open and allow smoke through until the collar expands and blocks it off.
A better approach is as Leesparkykent says, run the cable tray all the way, then "someone" puts a tray across the riser with a gap where the tray is. The tray will itself be a fire break (either itself non-flammable or carrying something like intumescent material), leaving a gap around the cable tray to allow the installation/maintenance of cabling. When cabling is complete, the gap round the cable tray & cables will be packed with intumescent mastic or socks - socks are best for allowing further work as they can be easily removed and replaced. Something "solid" merely encourages people tasked with installing a cable at minimum cost to just hack a hole and not fix it when they've done.
At a previous job, doing in-house work, I'd put a length of galv trunking through walls and it would be "built in". I'd run my networks cables through and fit an intumescent sock - removing it when I needed to run further cables and refitting it when done. The galv trunking gave me a smooth hole to slide the sock into and be able to get it out again.
For anyone not familiar with the term, intumescent materials (mastic, putty, paint, foam) expands massively when exposed to heat/fire and thus seals up any holes. So an intumescent pad/sock stuffed in a steel trunking through a fire barrier will, if there's a fire, expand fully and completely seal the trunking.