Hello.

I am running Branch-site REL analyses with the HyPhy package, which have generally been successful, but occasionally I get the following error message:

"An error occurred: Cannot reuse the filter 'def' because it is already being used by likelihood function 'three_LF', and the two likelihood functions impose different leaf-to-sequence mapping. Create a copy the filter and pass it to the second likelihood function to resolve. Current operation/job has been terminated."

I have run other analyses with HyPhy using the same files without issue. Any advice on how to deal with this problem would be appreciated.
Thanks.