no amino acids detected

[jaredbernard]

Hi there,
I'm not getting any results and I'm getting error messages that no amino acids are found. I installed version 1.5 alongside MAFFT 7.525, and moved the mafft-linsi executable into the codon_alignment directory. Any ideas?
Thanks

[taprs]

Hi Jared!

I had the same issue, so I decided to check the code and found that the script uses MUSCLE instead of MAFFT! I replaced muscle calls with mafft-linsi as stated in readme, and now the script runs fine in my fork: https://github.com/taprs/codon_alignment

[taprs]

After a second look, I found that these changes are already made in the release version of the pipeline as opposed to the master branch.

[lyy005]

Dear taprs and Jared,
Thank you for your interest in our package. Yes, please use the released version https://github.com/lyy005/codon_alignment/releases/tag/v1.5 . Please let me know if you run into any other issue!

YY