[Pw_forum] ph.x: Avoiding the recalculation of the band structure in distributed phonon dispersion jobs

Karttunen Antti antti.j.karttunen at jyu.fi
Mon Feb 25 19:16:23 CET 2013


Dear Andrea,

The new 'only_init' keyword is exactly what we needed! Thank you very much for this addition, I will download the SVN version and adapt my scripts to the new workflow.

Best wishes,
Antti

-- 
Dr. Antti Karttunen
Department of Chemistry
University of Jyväskylä, Finland
Tel: +358-50-3473475
WWW: http://www.iki.fi/ankarttu 

-----Original Message-----
From: pw_forum-bounces at pwscf.org [mailto:pw_forum-bounces at pwscf.org] On Behalf Of Andrea Dal Corso
Sent: Monday, February 25, 2013 7:36 PM
To: PWSCF Forum
Subject: Re: [Pw_forum] ph.x: Avoiding the recalculation of the band structure in distributed phonon dispersion jobs


On Mon, 2013-02-11 at 18:30 +0000, Karttunen Antti wrote:
> Dear all, 
> 
> We are using the start_q/last_q and start_irr/last_irr keywords to execute phonon dispersion jobs within a HPC grid service. The scheme works really nicely and we are able to run fairly large phonon dispersion calculations very efficiently. However it would be great to know if we could further increase the efficiency by avoiding the recalculation of the band structure at all irreps for every q.
> 
> A concrete example: We are using a 4x4x4 q-point grid to investigate the phonon dispersions of cubic silicon clathrate (FCC structure with 34 atoms in the primitive cell),requiring the calculation of 8 q-points in total. While the number of symmetry-independent q-points is rather low, the individual q-points can contain as many as 101 irreps (558 (q,irrep) calculations in total). While in "normal" phonon dispersion calculations the band structure is solved once for every q, in the distributed phonon dispersion calculations every single (q,irrep) job calculates the band structure before doing the actual phonon calculation (except q=1). So, the band structure is "re-calculated" numerous times in the distributed scheme. The overhead is not negligible: For a single (q,irrep) job at the q-points with the lowest symmetry,  the band structure calculation can typically take ~10 CPU hours of the total execution time of ~60 CPU hours (we are running the jobs in the grid with just one
 
  CPU).
> 
> For systems like this, it would be really great if we could do something like this:
> 1) Precalculate the band structure for every q (for example, for irrep=1),
> 2) Write the results of the band structure calculation to a file for every q 
> 3) For all other irreps, just read the precalculated band structure from the file.
> 
> We are already using a similar scheme to avoid the re-calculation of the dielectric constant for all q=1 irreps:
> 1) Precalculate the dielectric constant for (q=1,irrep=1)
> 2) Use data-file.1.xml with DIELECTRIC_CONSTANT and EFFECTIVE_CHARGES as the starting point for other q=1 irreps.
> 3) With recover=.true., the re-calculation of the dielectric constant is avoided
> 
> However, we have not been able to devise a similar scheme to avoid the re-calculation of the band structure for q>1. I've been reading the source code but at least based on check_initial_status.f90 it seems that reading the bands is only possible if there is a restart file available (i.e. the calculation has been interrupted).  So, while the built-in logic supports restarting "normal" phonon dispersion calculations, we haven't been able to find out a way to read the band structure into a single (q,irrep) job. 
> 

I thought that this procedure was already working if you copied all the
files produced by ph.x using start_irr=1 and last_irr=1 as a preparatory
run, but there were still some problems. I commited a script in the SVN
version inspired to your suggestion (see GRID_example/run_example_3).
Hopefully you can adapt it to your cases. 

HTH,

Andrea




> We would really appreciate any comments or ideas on how to avoid the overhead from the band structure calculations in the above scenario.
> 
> Best wishes,
> Antti Karttunen
> 
-- 
Andrea Dal Corso                    Tel. 0039-040-3787428
SISSA, Via Bonomea 265              Fax. 0039-040-3787249
I-34136 Trieste (Italy)             e-mail: dalcorso at sissa.it


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