search

BEAST2-Dev / substBMA_archive

Automatically exported from code.google.com/p/subst-bma
0 stars 0 forks source link

subst-bma add-on doesn't show up in BEAUti #1

Open GoogleCodeExporter opened 9 years ago

GoogleCodeExporter commented 9 years ago 
What steps will reproduce the problem?

1. install SubstBMA add-on 
2. choose *BEAST template
3. import alignments

What is the expected output? What do you see instead?

I would expect to see "SubstBMA" as an option under substitution model in the 
site model tab, but I don't. I only see JC69, HKY, GTR, and RB.

What version of the product are you using? On what operating system?
v2.0.2pre (also tried 2.0.1) on OS 10.8.2

Please provide any additional information below.

Sorry if this is only for developers; I posted to the google group but haven't 
heard anything.

Original issue reported on code.google.com by tommydev...@gmail.com on 12 Feb 2013 at 3:22

GoogleCodeExporter commented 9 years ago 
I'm posting another comment because I don't think this issue has been resolved 
yet - I am getting the same problems and do not see any changes to Beauti when 
I install SubstBMA. I have tried this on windows, mac, and linux machines and 
can't seem to get it to work.

Original comment by MarkPhu...@gmail.com on 30 May 2013 at 12:48

GoogleCodeExporter commented 9 years ago 
Is this add-on can not be installed to BEAST 2.1 ? 

When I list add-ons in version 2.1, blow is showing up:

java -cp lib/beast.jar beast.util.AddOnManager -list
Access URL : http://www.beast2.org/wiki/index.php/Add-ons2.1.0
Getting list of add-ons ...Done!

Name : status : Description 
SNAPP         (v1.1.3 installed): SNAPP: SNP and AFLP Phylogenies
BDSKY         (not installed): BDSKY: birth death skyline -- handles serially 
sampled tips
BEASTii       (v1.1.0 installed): BEASTii: BEAST utilities, such as multi 
threaded treeliklihood
BEAST_CLASSIC (not installed): BEAST_CLASSIC: BEAST classes ported from BEAST 1 
in wrappers
RBS           (v1.1.0 installed): RB: Reversible-jump Based substitution model
CA            (not installed): CA: CladeAge plugin for fossil calibrations
SA            (not installed): SA: Sampled ancestor trees
phylodynamics (not installed): phylodynamics: birth death skyline model
MASTER        (not installed): MASTER: stochastic simulation

Original comment by wily...@gmail.com on 31 Dec 2013 at 2:56