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I have seen that layer colors changed in the layer toolbox are not saved by "File/Save All".
In fact after reopening the document I see again the original (unchanged colors).
Same thing if I make a "File/Save Layer Properties".
The relevant layer technology file (.lyt extension placed in my hidden .klayout directory) doesn't include any color information.
I am not very sure but it seems to me that also the dxf file doesn't include any color information.
So I am wondering where layers colors are stored and why they can not be saved ?