Installation of Migrate-N for parallel processing (MPI).
Download the current .tar.gz version into /opt
Assuming Openmpi has been properly installed and configured (/opt/openmpi) including the creation of a "hosts" file in
/opt/openmpi/etc. Our "hosts" file has a single line: localhost slots=33
unpack the migrate3.4.4.src.tar.gz file $ tar xfz migrate3.4.4.src.tar.gz
This creates a new directory /opt/migrate3.4.4 $ cd /opt/migrate3.4.4/src
$ sudo ./configure
$ sudo make mpis
This will create an executable named "migrate-n-mpi" in the /opt/migrate3.4.4/src directory.
Running Migrate example file$ cd /opt/migrate3.4.4/example $ sudo mpirun -np 7 --hostfile /opt/openmpi/etc/hosts ../src/migrate-n-mpi parmfile.testbayes
Running real data
Create a Migrate project directory (/data/Migrate/projectX) where your input data and parameter files will reside
(myMigrateData.txt, parmfile). "mpirun" will allocate multiple cores to the analysis with the -np option.
Use one core for each marker plus one for "overhead". The example below is for a data file with 6 markers so I set -np 7.$ cd /data/Migrate/projectX
$ sudo mpirun -np 7 --hostfile /opt/openmpi/etc/hosts /opt/migrate3.4.4/src/migrate-n-mpi parmfile
The output files will be written into this project directory.