Hi, Dear Sergei and other masters  here,

I was wondering about some questions about using the HYPHYMPI version on a Linux clusters, so it will be very helpful if anyone light a path for me.

1.I was intended to do a positive selection analysis on a ML tree obtained by Raxml, which including about 1500 sequences. When I wanna use the SubtreeSelectionComparison, the screen was unable to display all the options, the former was replaced by the later, so I can't find the number of the option which represent the subtree I interested in.Is there any way I can find
my interesting subtree number?

2.I try to view the tree on some windows software,like Figtree or Dendroscope, and then defined the lable of the node on some subtrees ,but when using HYPHY in Linux command line model, the node number defined by HYPHY was not equally comparing with tree file generate by former treeviewer software. So is there any software of file format fit HYPHY properly?

many thanks for your time,  guys!!!

Hi Sergei,

Thank you so much for your patiently reply, it truly help me a lot.

best,
Liwf

I accidentally edited your message instead of responding to it! Sorry about that.

The same solution should work in Linux as well, because if you go the route of using ExecuteAFile, then all menu inputs are specified by their value, not their index.

HTH,
Sergei

Dear sergei,

I've been use the wrapper to solve the problem,thanks very much. But in the progress, it always show such a ERROR megssage
Code:

Error:Ran out of input in buffer during a redirected standard input read.
Current BL Command:Print to File PROMPT_FOR_FILE:CLEAR_FILE
labels[0]
 

Is it my wrapper written has something wrong, here is the wrapper I write
Code:

inputRedirect = {};
inputRedirect["01"]="Universal";
inputRedirect["02"]="Restore";
inputRedirect["03"]="/home/dws/share/HYPHY_Source/TemplateBatchFiles/p";
inputRedirect["04"]="Subtree";
inputRedirect["05"]="POPO";
inputRedirect["06"]="0.05";
ExecuteAFile (HYPHY_BASE_DIRECTORY + "TemplateBatchFiles"+
DIRECTORY_SEPARATOR+"SubtreeSelectionComparison.bf", inputRedirect); 

Thanks for your precious time
best,
Liwf

It works out, please receive my sincerely thanks to you~

best,
Liwf