Custom animations and animation overrides
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GotoFinal
If you use custom animation - Animation component added to avatar GameObject, like custom blinking that use shape keys, and then you also add animation override (like to EMOTE1) that use this same shape key as that other animation - it will stop working.
This should be fixed, as it does not make sense to disable avatar animation just because some other animation also use this same shape key.
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euan
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HardLight670
Sounds like that's more of a Mecanim problem than VRChat. Mecanim is notoriously bad about completely taking over things and preventing other systems from using them. Since your animation is controlling the blendshape weight, Mecanim will force it to 0 whenever the animation is not in use and prevent VRChat's blinking script from changing it.
Best advice is to duplicate the blendshape in Blender and use the duplicated one instead.
GotoFinal
HardLight670: I just removed not used properties from .anim file, so seems to be fine ¯\_(ツ)_/¯