Exporting CS6 Premiere Pro Sequence in AE

I'm trying to export a CS6 Premiere Pro sequence through CS6 After Effects and some of the content that is present on my timeline is coming up with colour bars or just black when I'm trying to export from AE..... how can this be resolved?

Thanks for your help Rick!
I'm working on a 2008 Mac Pro with Dual Quad Core 2.8Mhz Processors and 32GB RAM.
The sequence is .r3d 4K FF and the footage on the timeline is a mix of 4K FF r3d footage, some Animation codec (graphics from Cinema 4D exported via After Effects), some up-scaled 1080p and some 5k FF r3d footage.
The strange thing is that when I play the timeline in Premiere it all works fine but when I try to export the sequence in AE, that's when content shows up as colour bars or just black. It's all there though. I've tried disconnecting the media and reconnecting it, I've copied and pasted it to a new timeline, I've nested it as a sequence and tried exporting that but each time it's the same result.
I was thinking that I should uninstall CS6 and then try and reinstall it, but my Mac Pro I'm working off isn't connected online. I'd have to relocate the tower to where the internet modem is and I currently have a broken leg so it's not really possible.
Any other suggestions for getting this to work?

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