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From: Andy Vierstraete (andy.vierstraete_at_[hidden])
Date: 2006-02-03 10:23:48


Hi,

I have installed Migrate 2.1.2, but it fails to run on open-MPI (it
does run on LAM-MPI : see end of mail)

my system is Suse 10 on Athlon X2

hostfile : localhost slots=2 max_slots=2

I tried different commands :

1. does not start : error message :
******************************************

avierstr_at_muscorum:~/thomas> mpiexec -np 2 migrate-mpi
mpiexec noticed that job rank 1 with PID 0 on node "localhost" exited on
signal 11.
[muscorum:07212] ERROR: A daemon on node localhost failed to start as
expected.
[muscorum:07212] ERROR: There may be more information available from
[muscorum:07212] ERROR: the remote shell (see above).
[muscorum:07212] The daemon received a signal 11.
1 additional process aborted (not shown)

************************************************

2. starts a non-ending loop :
************************************************

avierstr_at_muscorum:~/thomas> mpirun -np 2 --hostfile ./hostfile migrate-mpi
migrate-mpi
  =============================================
  MIGRATION RATE AND POPULATION SIZE ESTIMATION
  using Markov Chain Monte Carlo simulation
  =============================================
  Version 2.1.2
  Program started at Fri Feb 3 15:58:57 2006

  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
igration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?

****************************************************************

3. with LAM-MPI on Suse 8.2 it works after lamboot hostfile :
****************************************************************

avierstr_at_molfyl1:~/migrate-2.1.0/src> mpiexec -np 2 ./migrate-n
  =============================================
  MIGRATION RATE AND POPULATION SIZE ESTIMATION
  using Markov Chain Monte Carlo simulation
  =============================================
  Version 2.1.0
  Program started at Fri Feb 3 14:05:05 2006

  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
  =============================================
  MIGRATION RATE AND POPULATION SIZE ESTIMATION
  using Markov Chain Monte Carlo simulation
  =============================================
  Version 2.1.0
  Program started at Fri Feb 3 14:05:05 2006

  Settings for this run:
  D Data type currently set to: DNA sequence model
  I Input/Output formats
  P Parameters [start, migration model]
  S Search strategy
  W Write a parmfile
  Q Quit the program

  Are the settings correct?
  (Type Y or the letter for one to change)
y

Reading BALTIC ...
Reading WE ...
Reading WS ...
Reading YTH ...
Reading SEI ...
Reading EL ...
Reading KILK ...
Reading GI ...
Reading RdA ...
Reading GU ...

Options in use:
---------------
Datatype: DNA sequence data
Random number seed (with internal timer) 1138971909
Start parameters:
   Theta values were generated from the FST-calculation
   M values were generated from the FST-calculation
Migration model:
 ...........

-- 
*********************************************************************
* Youth is a wonderful thing. What a crime to waste it on children. *
*                                             (George Bernard Shaw) *
*********************************************************************
Andy Vierstraete
Department of Biology
University of Ghent
K. L. Ledeganckstraat 35
B-9000 Gent
Belgium
phone : 09-264.52.66
fax : 09-264.87.93
http://allserv.UGent.be/~avierstr/