Just to clarify, by specifying the print order you can control the print order of loops, perimeter and infill, but not the order in which individual 'islands' get printed, which I think is what would probably make the most difference in Lewis's case, and what he was asking about.
To test this, I created a simple STL of a square block, with a square 'ring' around it, and then sliced it in Cura 13.04, with a.) loops, perimeter, infill and b.) perimeter, loops, infill. I used 0.8mm wall setting to give two passes around the walls, and I turned off the 'force first layer' option that overrides print order.
Here's what the first layer looks like viewed in Repetier host:
The numbering shows the print order, when requesting that loops print before perimeters. It starts with the inner pass of the ring's inner surface, then the inner pass of the rings outer surface. Then comes the ring's finished outer surface, followed by the ring's finished inner surface.
Then in does the infill for the ring, so that that part gets completed before it moves on to the inner block.
Then it does the inner pass around the skin of the block, followed by the outer surface of the block, and finally the block infill.
If you change the print order to perimeter, loops, infill, then it prints the finished surfaces first, followed by the interior passes along the skins. So, reusing the same numbers, the print order becomes: perimeters first - 3,4,7 - then the block loop, 6. Then the block infill, 8. Then it goes to finish the ring - doing the loops, 1, then 2. And finally the infill 5.
So the perimeters can be thought of as any finished surface that touches empty space (even if on the 'inside' of the object). Loops are any additional passes around the circumference of the print that touch other loops, or infill (or would touch infill if the infill % was greater than zero).
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gr5 2,266
This looks a lot like the "z seam" which is where the UM pauses and moves the Z axis to go up to the next layer. I'm not sure you can get rid of it. Other slices (non-cura) will let you place the z seam at a random spot on each successive layer. The seam usually tends to be near the front left corner I believe. This means you can rotate the part so that the seam is "in the back" (but in the case of letter blocks it might be "on the bottom").
Now you mentioned about the order of printing. You can change the order. See the "expert settings" menu and then under "sequence" section you can play with the order and print the outside first/last/whatever. The term "loop" includes all inner "walls" including if your outer wall is .8mm and it is two passes, someone said the inner pass is a loop but I don't think that's true.
You could also mess with the "joris" setting but that usually causes more problems than it's worth (there are a few bugs with joris so if you are not printing a cup it will probably be worse).
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