I think we fixed this over this last weekend. I believe the problem
was our mis-handling of standard input in some cases. I believe I was
able to get the application running (but I could be fooling myself
there...). Could you download the latest nightly build from the URL
below and see if it works for you? The fixes are scheduled to be
part of Open MPI 1.0.2, which should be out real soon now.
http://www.open-mpi.org/nightly/trunk/
Thanks,
Brian
On Feb 3, 2006, at 10:23 AM, Andy Vierstraete wrote:
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@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@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@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/
_______________________________________________
users mailing list
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http://www.open-mpi.org/mailman/listinfo.cgi/users
--
Brian Barrett
Open MPI developer
http://www.open-mpi.org/
