Thanks for sharing @coralgal! This runs as expected on my machine --- I wonder if you are running out of memory while trying to perform this alignment? It looks like you might be using a QIIME 2 VirtualBox image --- how much memory is allocated on the machine?
If you have more available system memory, maybe you can send some more towards your VM's base memory? In the picture above, my VM has 2048 MB allocated toward base memory, but my system has up to 16384 MB available. VirtualBox recommends I could set this value up to ~12000 MB before running into issues on my host system (this is the green bar in the image). Maybe you can bump yours up a bit more?