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Is it possible to execute some plugin in batch mode to modify one picture multiple times? I'd like to use Channel Mixer and execute it with different settings.

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There is the BIMP package but I think it is geared more towards running one function against several files.

Otherwise you can script your own, see an example here. You'll be using:

 pdb.plug_in_colors_channel_mixer(image, drawable, monochrome, rr_gain, rg_gain, rb_gain, gr_gain, gg_gain, gb_gain, br_gain, bg_gain, bb_gain)

But it will likely be simpler to use ImageMagick's and its color-matrix operator from a shell script.

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