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http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl HYPHY Package >> HyPhy feedback >> Problem running GA branch http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1280405337 Message started by prm42 on Jul 29^th, 2010 at 5:08am

Title: Problem running GA branch
Post by prm42 on Jul 29^th, 2010 at 5:08am

Hi All,
I am trying to run GA branch in HyPhy. These are the steps I follow:
1- I open de batch file (ModelSelectorBranchLocal.bf)
2- Choose the Genetic code (Universal).
3- Select the codon file to analyse: Lysozyme.nex (from the example provided).
4-Accept to use the tree in the file.
5-Provide a model (in this case 010010)
And after the preliminary steps 1, 2, and 3, I get the following error message:
Error:Invalid Matrix Index [0][0] in a -2 by 2 matrix.
Current BL Command:sortedScores[0][0]=-crapAIC
Could you please help me with this problem?
Thanks,
prm42

Title: Re: Problem running GA branch
Post by Sergei on Jul 29^th, 2010 at 11:03am

Hi prm42,

That's an error that occurs when this code is run NOT in an MPI environment.
The analysis ASSUMES that it is started as an MPI process with more than 1 processor.
I apologize for its being uninformative.

Sergei

Title: Re: Problem running GA branch
Post by prm42 on Jul 30^th, 2010 at 10:51am

Thanks Sergei, another question: can I ran GA-branch from the GUI or do I have to run it from the command line?
Bye,
prm42

Title: Re: Problem running GA branch
Post by Sergei on Jul 30^th, 2010 at 10:54am

Hi prm42,

Only the command line at the moment, as the GUI version does not properly support MPI.

Sergei