I tried to update with the new planets after not having launched for 3 months and get the error between lignumis and Krastorio2-spaced-out of:
Failed to load mods: Error in assignID: item with name 'aop-lumber-mill' does not exist. It was removed by lignumis.

Source: kr-crush-aop-lumber-mill (recipe).
I even tried installing all the optional mods on lignumis page but none of them fixed the error

What are your startup settings for both mods? I have both mods running without issues.

I forget exactly what it was now but it was some mod jank while swaping to the new version, I ended up not running Lignumis due to it breaking the production on my base anyways, sorry I can't be more help