Thalhammer: Fixed link

2018-06-21T10:34:16Z

Fixed link

Lorenz: Created page with "=== Parallel Error Calculation with MPI and SLmpi === * For interactive error calculation in isis you can use `conf` or `conf_loop` (using Isis_Slaves.n..."

2018-04-12T14:19:33Z

Created page with "=== Parallel Error Calculation with MPI and SLmpi === * For interactive error calculation in isis you can use <code>conf</code> or <code>conf_loop</code> (using Isis_Slaves.n..."

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=== Parallel Error Calculation with MPI and SLmpi ===

* For interactive error calculation in isis you can use <code>conf</code> or <code>conf_loop</code> (using Isis_Slaves.num_slaves+1 cores on the host machine).
* Fast possibility: <code>mpi_fit_pars</code>. It's a routine in the isisscripts, which uses MPI to calculate the confidence intervals in parallel on different machines.

* Requirements:
*# SLmpi installed: [http://www.sternwarte.uni-erlangen.de/git.public/?p=slmpi.git http://www.sternwarte.uni-erlangen.de/git.public/?p=slmpi.git]
*# A Portable Batch System (PBS), e.g., Torque (see [[torque:start|Torque]] for an Introduction)
*# the Remeis-isisscripts [http://www.sternwarte.uni-erlangen.de/git.public/?p=isisscripts http://www.sternwarte.uni-erlangen.de/git.public/?p=isisscripts]

* Create an isisscript to be submitted via PBS:
*# load and group data, load best fit model
*# call <code>result = mpi_fit_pars([pars]);</code>
*# if you have the isisscripts you can store everything in a fits-file via <code>fits_save_fit(filename,result)</code>

* How to start the Job on the Remeis Cluster?
** Create a job-file with mpi-Option (e.g. by <code>qsub_array -p %%--%%mpi file.com</code>)
** the Command File <code>file.com</code> contains the list of scripts to be executed.
** Set nodes to the number of free parameters. (See below for an example).

<pre>
#!/bin/bash
#PBS -S /bin/bash -V
#PBS -t 0-0\%10000
#PBS -l nodes=11
#PBS -l walltime=03:00:00
#PBS -N file.com
#PBS -o example_script.out
#PBS -e example_script.err
cd /home/user/datadir
COMMAND[0]="mpiexec isis-script example_script.sl"
/usr/bin/nice -n +15 ${COMMAND[$PBS_ARRAYID]}
</pre>

[[Category:Isis / Slang]]

@@ Line 6: / Line 6: @@
 * Requirements:
 *# SLmpi installed: [http://www.sternwarte.uni-erlangen.de/git.public/?p=slmpi.git http://www.sternwarte.uni-erlangen.de/git.public/?p=slmpi.git]
-*# A Portable Batch System (PBS), e.g., Torque (see [[torque:start|Torque]] for an Introduction)
+*# A Portable Batch System (PBS), e.g., Torque (see [[Torque]] for an Introduction)
 *# the Remeis-isisscripts [http://www.sternwarte.uni-erlangen.de/git.public/?p=isisscripts http://www.sternwarte.uni-erlangen.de/git.public/?p=isisscripts]

Parallel Error Calculation using MPI and SLmpi - Revision history

Thalhammer: Fixed link

Lorenz: Created page with "=== Parallel Error Calculation with MPI and SLmpi === * For interactive error calculation in isis you can use conf or conf_loop (using Isis_Slaves.n..."

Lorenz: Created page with "=== Parallel Error Calculation with MPI and SLmpi === * For interactive error calculation in isis you can use `conf` or `conf_loop` (using Isis_Slaves.n..."