Alanine:
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Since the patch didn't change anything other than in the continuous viewing mode, I believe the problem is very likely not related to this patch. Maybe I'll try to use the original ipdf binary to see if the problem exists there.
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That was my idea as well. I haven't tried the stock ipdf binary, but the problem only seems to occur if you flip pages with short intervals.
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As for the margin problem, actually if there is not enough space, it's probably a margin and should be skipped. Current threshold is 1/3 of the screen to detect this. If its not skipped, the display is not aligned to the edge of the page, but instead it follows previous display area.
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I experience 1/3 of a screen is a bit much. Mostly I zoom to 40% of an A4-page, then 1/3 of a screen is approx. 4 cm of the bottom of the page. Many papers have a margin of 2 cm, so perhaps 1/5 of the screen would be better? I wouldn't mind flipping a screen extra, but it is a little annoying to have to go back and move the screen down.
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Indeed my first solution was to align to the edge, but then I often found myself losing track of the text I was reading because the new content doesn't start from screen top. Ideally one should clip out old content (or gray them) and center new content that is displayed. But I didn't see a quick way to do the clipping. (maybe I'll figure it out if trying harder :-)
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I agree that that would be confusing, and graying out part of the screen seems a little complicated. Anyway, I noticed that the problem I described is also solved if zooming not too much.
By the way, how could I create and compile my own patch? How do you do that? Is there a way to test a patch before installing the new binary on the iLiad? Thanks in advance!