There is command in the oiiotool to swap the channels of a image by using the --ch command like so:
oiiotool rgba.tif --ch R=B,G,B=R,A -o bgra.tif
What Im asking is if there is an option to load two images to the stack and add lets say the Red channel from Image A to the green channel of image B.
In case somebody needs the answer here it is:
oiiotool A.exr --ch R B.exr --ch B --chappend A.exr --ch G --chappend --chnames R,G,B -o mix.exr
To break down what that means,
* read A, take just its R channel
* read B, take just its G channel
* Append channels of the the top two images, yielding A.r,B.g on the top of the stack
* read A again, take just its B channel
* Append the channels of the top two images, now you have A.r,B.g,A.b
* Force new channel names R,G,B just in case they carry their old names or got confused
* Output to mix.exr