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This is an unfortunate side effect of having to detect QR codes in fuzzy images. There's a lot of interpolation and rounding going on. In the case where the QR is an exact size pixel-for-pixel, the calculated locations are sliiightly off (0.5px in x direction, 1px in y direction :P) and and such the alignment pattern can't be found, and the data extraction fails as well. Some extra code would be needed to see that it's a 1px-QR and adjust accordingly.
When the modules are 2px wide already the rounding doesn't matter anymore.
I can't decode this test barcode:
But I can if I size it up by 2x with no interpolation:
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