Joseph W. Brown
Joseph W. Brown
This so old I forget! Also, must be `pxrlt`? But I _think_ the situation was this: you have, say, a BEAST tree with ugly labels. You use `pxrlt` to clean...
I am not currently working on this. Basically, we need a general Nexus tree writer that preserves the annotations. This should be made as an available output option for `pxrlt`...
By default it installs deep in the system (hence, root access). You can instead install it somewhere else that does not require such privileges. Normally this is your home directory....
What happens if you skip the `make distclean` step. It should still work. I would recommend communicating with the administrator to get the most recent version installed (v1.3).
Definitely!
Gah this clearly fell through the cracks. Didjya want to do this @jfwalker (since you wrote it)? If not, I can do it.
I _think_ the idea is to remove the stop codon, even if it is present in all the sequences.
Sorry this has taken forever, but it has been implemented as of 0154ac6d8f70dc26358c3c0e47b78f01df5bf9c9. Still need to add the bit about removing the stop codon. Will close this after merging to...
Thank you @jfwalker. I will put an enforced check. If necessary, I can put in a `-f --force` _do-it-anyway_ option for both.
Should also consider removing terminal (stop) codons here, as they can be a pain.