treesub

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Not really an issue but more a feature request. Is is possible to include/incorporate bootstrap values for the generated "substitutions" tree somehow? Best, Jurre

jurresiegers

ERROR: java.io.FileNotFoundException: C:\Users\...\RAxML_bestTree.RECON (The system cannot find the file specified)

4

Hello, I'm new to phylogenetic analysis and so would be grateful for advice. I attempted to implement treesub on Windows - however when I run it, I'm getting the following...

Jwongwh

6/6] Parsing PAML results and building tree for substitutions. ERROR: java.lang.NullPointerException

1

Hi Asif and Ziheng, I've been trying unsuccessfully to get this to run on either Linux (Ubuntu 1804 LTS) or MacOS catalina (10.15.1). Seems that even with the example alignment...

Steven-Kemp

error in treesub java.io.IOException: Cannot run program "/usr/bin/unbuffer" (in directory "/home/..."): error=2, No such file or directory

3

How do I solve the error: java.io.IOException: Cannot run program "/usr/bin/unbuffer" (in directory "/home/DARWINION/jacosta/Documents/prueba-ts"): error=2, No such file or directory at java.lang.ProcessBuilder.start(ProcessBuilder.java:1048) at treesub.gui.AnnotatorGUI$RunAction$RunWorker.doInBackground(Unknown Source) at treesub.gui.AnnotatorGUI$RunAction$RunWorker.doInBackground(Unknown Source) at javax.swing.SwingWorker$1.call(SwingWorker.java:295)...

JuaninAR

Hi, when running treesub on incomplete sequences (i.e. alignment with gaps) stop codons emerge (e.g. I96*) in the output. This happens for entire stretches of sequences. Is there a way...

thierryjanssens

I run into this error RAxML_bestTree.RECON (No such file or directory)

1

Hi, I am running into following error while running treesub on a server. [1/6] Copying file from '/home/my/data.fasta' to '/home/my/alignment'. Successfully copied file. [2/6] Converting FASTA file 'alignment' to PHYLIP...

akang1414