Closed mmelendrez closed 8 years ago
This isn't a bug, but a check I added very recently to prevent the use of ancestral state reconstruction on compressed patterns (because the ancestral reconstructions won't be correct). This was to address issue #779.
In the above file, why is the sequence likelihood using 'ancestralTreeLikelihood'? Are you trying to reconstruct the ancestral sequences? If not, then changing 'ancestralTreeLikelihood' to 'treeLikelihood' (for the sequences) should fix this.
Ah OK. I can make that change. No I was just reconstructing ancestral states for my traits not the sequences. On Jan 14, 2016 17:24, "rambaut" notifications@github.com wrote:
This isn't a bug, but a check I added very recently to prevent the use of ancestral state reconstruction on compressed patterns (because the ancestral reconstructions won't be correct).
In the above file, why is the sequence likelihood using 'ancestralTreeLikelihood'? Are you trying to reconstruct the ancestral sequences? If not, then changing 'ancestralTreeLikelihood' to 'treeLikelihood' (for the sequences) should fix this.
— Reply to this email directly or view it on GitHub https://github.com/beast-dev/beast-mcmc/issues/788#issuecomment-171801365 .
Just recently updated to version 1.8.3 and an XML![8 ha_beast_e_phylogeo_strict xml](https://cloud.githubusercontent.com/assets/2855130/12304025/7f87ea44-b9fb-11e5-9d1e-1e915477e1c3.png)
file that previously ran fine with beast v1.8.0 is now giving me the following error:
Suggestions?
I uploaded my XML - just remove the .png