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BEAST2-Dev / SNAPP

A package for BEAST2 implementing SNAPP
http://beast2.org/snapp/
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TreeSetAnalyser does not run from CLI via appstore #8

Closed rbouckaert closed 8 years ago

rbouckaert commented 8 years ago

use the following command: /Applications/BEAST2.3.1/bin/appstore TreeSetAnalyser -tree "((SpeciesA,SpeciesB),SpeciesC)" -file sample.trees

However, when I run this command the GUI pops up and ask for a "run" prompt before executing the treesetanalyser. Interestingly, when I press the "run" command in the GUI, nothing happens, such that the app closes immediately and no analyses is conducted. Secondly, when I use the command: /Applications/BEAST2.3.1/bin/appstore TreeSetAnalyser -tree "((SpeciesA,SpeciesB),SpeciesC)" -window -file sample.trees

I get the following: Unrecognized argument: -window

I receive the same error when specifying the -options command (hoping that I could specify a "no-window" argument here)