Dear Simon and Sergei.

We have some trouble in implementing GABranch locally in a Ubuntu system. Is GABranch still incorporated in the most recent HYPhy package?

We used to succeed by using the Hyphy version 1 we downloaded last year. referring to command showing in the manual of GABranch.
"‘mpiexec -np 17 HYPHYMPI BASEPATH=/prog/HYPHY_Source GABranchFiles/ModelSelectorBranchLocal.bf’"

Now in a newly bought machine with Ubuntu,  we downloaded both Hyphy version 1 and 2 (most recently release) and built in a "MPI" option, but we did not see a file called "HYPHYMPI" but we found one called "HYPHYMP". We tried to run GABranch using the similar command "‘mpiexec -np 17 HYPHYMPI BASEPATH=/prog/HYPHY_Source GABranchFiles/ModelSelectorBranchLocal.bf"excepting changing "HYPHYMPI" to "HYPHYMP".
It did not work and kept show a HYphy interface, which is not the same as GABranch input interface we saw before.

And It seems the problem is not due to a MPI build or thread program.

So we are wondering is GABranch still implemented in the most recent hyphy package? IF yes, what should be the command look like, if different from before?

Thanks a lot for your kind help in advance,
Best,
Jingjing

Hi Jingjing,

1. Compile HyPhy using the MPI flag. Assuming that HYPHY_DIR is the path to where you downloaded the SVN tree (from Multimedia File Viewing and Clickable Links are available for Registered Members only!!  You need to Login


Code (]
$cd HYPHY_DIR/HYPHY
$bash build.sh MPI
[/code):

2. When you call HyPhy, BASEPATH is the argument used to supply the path to HyPhy distribution, not the file to execute. So, you need to call [code] mpiexec -np 17 HYPHYMPI BASEPATH=/path/to/hyphy /prog/HYPHY_Source GABranchFiles/ModelSelectorBranchLocal.bf

Sergei