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etetoolkit / ete

Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.
http://etetoolkit.org
GNU General Public License v3.0
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ETE4.0.0 manual #651

Closed sarscov2 closed 10 months ago

sarscov2 commented 1 year ago

ETE4.0.0 beta contains an old ETE manual (2009) and a README file for ETE4. Is there an updated ETE4 manual beyond etetoolkit.org/docs/latest/index.html or the README of ETE4?

lm-jkominek commented 10 months ago

I know it's a bit of necro, but I wanted to second this request - while the current docs work fine enough for ETE3, they have diverged quite far from ETE4 and there's a bunch of errors that come through when using the latest version that have no explanation...

jhcepas commented 10 months ago

absolutely. We are finishing some final changes to the core of ETE4 and will start with the documentation. In the mean time, @jordibc has a list of most important changes regarding compatibility. Could you share somewhere as a wiki page @jordibc ?

jordibc commented 10 months ago

Yes, we are working on an updated version of the manual to be released with ete4. In the meantime, most of the old code can be run with some of the changes mentioned in the part of the wiki on migrating from ete3 to ete4.

@lm-jkominek and @sarscov2 thanks and hope this helps for the moment!

sarscov2 commented 10 months ago

Thanks jordibc much appreciated and thanks for keeping the wiki page updated.