Trying to run muscle on a file to build a tree. I successfully used muscle to align this file in .clw format yesterday. Now I tried running these two lines of code and received the same error each time. Anyone know what the error means and how to fix it?
muscle -maketree -in seqs.afa -out seqs.phy
And I tried this:
muscle -maketree -in seqs.afa -out seqs.phy -cluster neighborjoining
Internal error MSA::ExpandCache, ColCount change
I ran this code with success (output .afa and .phy):
muscle -in seqs.fa -out seqs.afa -tree1 first.phy -maxiters 1
But it's not the type of tree that I want.
Here's my file to be built into a tree: https://drive.google.com/open?id=1QXXSJ2DJjJHz8K1WHuERFPQBTSvsWrcL