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GPUs: Are they linked as a single logical unit?
Every other computer that has passed TB certification has had embedded GPUs on the motherboard. It is unlikely that Apple is going to get any special "get out of jail free" card on that aspect.
How do they connect to the motherboard?
If it could have done trivially with a standard PCI-e connector some mainstream motherboard vendor would have already instead of some of the Rube Golberg contraptions that have floated out early at some trade shows that never passed certification.
There are more TB designs out there than just Apple's. If paying attention to what has succeed and failed elsewhere there is lots of information in what Apple has done then you are making it out to be so empty.
Even if hoping some 3rd party vendor marketplace is going to open up someone would reverse engineer the socket if there was viable demand.
( Lighting connector was re-mapped quite quickly. ) So the specifics of the connector don't matter much.
However, it is relatively obvious from the pictures though of the internals that these not standard PCI-e edge cards. If Apple was trying to leverage that large market of cards this device would not look the way it does.
Thunderbolt: There's the whole two GPUs, three controllers thing. How does the video signal get split up?
Rhetorically, how does a normal mainstream card split up video singles to three physical DisplayPort sockets. Why would the split up be any different for Thunderbolt? Instead of running the output to a physical socket you run it into the TB controller's input pads/pins.
Since each controller needs two, so probably don't want to make it odd. So a simplistic way is
GPU1 output 1 ---> TB1 DP input 1.
GPU1 output 2 ---->TB1 DP input 2
GPU1 output 3 ---> TB2 DP input 1
GPU1 output 4 ----> TB2 DP input 2
GPU2 output 1 ----> TB3 DP input 1
GPU2 output 2 ----> TB3 DP input 2
The last GPU2 to TB3 is really not much different than what goes on now. (minus DP switch to alterntive to iGPU output). Bascially it is going to be some varition on that.
Depending up the mapping some folks will or will not by the Mac Pro... I don't buy that is a significant number of folks. Some stuff isn't know exactly, but it also really doesn't impact buying and/or using significantly either.
It is extremely likely though it is not overly complicated or flexible mapping. It is a "small as possble" box and complicted typically leads to a bigger more expensive box.
. But if they had every detail set in stone, they would have given us more details and given a shipping date. Clearly something is still being done.
I'm not sure you have not been listening to Tim Cook or watching Steve Jobs. Cooks' comments has been something to the effect of "customers love surprises" . Or the Steve Jobs "one more thing" show. The absolutely easiest way to do "one more thing" is not to tell everyone exactly what you are about to tell them.
It was a sneak peak. Telling you everything is a like the movie trailers that have every single significant story plot event of the movie in the trailer. Why go if you just essentially told me the whole story? And WWDC has lots more items to cover than the Mac Pro. They told folks enough to keep many people interested until probably very late Fall. Mission accomplished.
In a technical presentation you "tell them what going to talk about", "talk about it" , and then "tell them what you told them".
That is not how Apple works. They don't really tell you what they are going to talk about. Tell you some of it. And then spring one more detail at the end that is a surprise. They make it an action adventure mystery story.
The sneak peek is overtly intended to be a mystery story. That they left out details now is only so that there is something to revel later. If they said everything now.... there is nothing left to say or release later. No mystery.
My main point is that we have very little information to go by and there's more questions than answers.
if expecting Apple to hand you all the answer in advance on a silver platter, your not really dealing with what Apple really does.
I think anyone making bold claims or decisions would be wiser to wait and see.
Frankly, most of the extremely bold claims are being made by many of the same folks who were making the same bold claims before WWDC as after. Either overtly in these forums or to others.
Generally the folks making the broad sweeping generalizations from very small sample sizes (i.e., like "my set up is like ... so it does/doesn't work") the issue is not the limited (or not) information that Apple has presented. It is making the broad sweeping generalization. Humans are generally bad at that. There is lots of published experiment data to back that up. It is not a sweeping generalization itself, but has been researched for a long time.
I'll agree that some folks are reading what they want to read in the what is there. However, there is significant amount of information out there about problems and issues that other folks have had with Thunderbolt, custom daughter cards, weaving discrete GPUs into thunderbolt systems etc. that this new Mac Pro is also subject to. Just because Apple didn't spell the exact details out on a web page or white paper doesn't mean some of it isn't already out there.