[FLASH-USERS] [EXT] Problem with restart: almost empty output files
Mattia Cipriani
mattia.cipriani at enea.it
Tue May 14 09:53:24 EDT 2024
Dear Adam,
thank you very much!
Following your advice solved the issue.
Best regards,
Mattia
---------------------------------------------
Dr Mattia Cipriani, PhD
ENEA
NUC-PLAS-FIPI
45, Via E. Fermi
00044 Frascati (Rome)
Italy
Office: Building 12
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Tel: +39 069400 5145
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Il giorno 14 mag 2024, alle ore 09:18, Reyes, Adam <adam.reyes at rochester.edu> ha scritto:
Hi Mattia,
I can confirm this bug, it seems to be specific to the "IO/IOMain/hdf5/parallel/NoFbs” implementation and maybe also all of the "IO/IOMain/hdf5/parallel” subunits. You do have two conflicting setup arguments: "+hdf5TypeIO -unit=IO/IOMain/hdf5/parallel/NoFbs” and the latter is winning out. The “+hdf5TypeIO” is preferred and will still work even with the UG grids and doesn’t seem to have the same affliction.
The good news is that all the hdf5 implementations can restart from each other so you should be able to recompile using just the “+hdf5TypeIO” and restart from your previous checkpoint.
*********************************************
Adam Reyes
<FLASH.jpg>
Code Group Leader, Flash Center for Computational Science
Research Scientist, Dept. of Physics and Astronomy
University of Rochester
River Campus: Bausch and Lomb Hall, 369
500 Wilson Blvd. PO Box 270171, Rochester, NY 14627
Email adam.reyes at rochester.edu
Web https://flash.rochester.edu
(he / him / his)
<FLASH-pride-sml.png>
*********************************************
On May 14, 2024, at 8:09 AM, Mattia Cipriani <mattia.cipriani at enea.it> wrote:
Hi Adam,
Yes, sorry, version 4.7.1.
Best regards
Mattia
---------------------------------------------
Dr Mattia Cipriani, PhD
ENEA
FSN-PLAS-PAX
45, Via E. Fermi
00044 Frascati (Rome)
Italy
Office: Building 12
Room 12223
Tel: +39 069400 5145
Mobile: +39 328 5552077
Skype: matcipriani
Researchgate<https://urldefense.com/v3/__https://www.researchgate.net/profile/Mattia-Cipriani-2__;!!CGUSO5OYRnA7CQ!ecROYnbUw5AJW_mYDqLQ9ZLej_GtbDDto6c5xkFcdfknWZOScYGO95cklt42VpBwAFELRhGimfvEFTjInwTm9aZlR0S3WVA$>
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---------------------------------------------
Il giorno 14 mag 2024, alle ore 08:05, Reyes, Adam <adam.reyes at rochester.edu<mailto:adam.reyes at rochester.edu>> ha scritto:
Hi Mattia,
Can you confirm which version of FLASH that you’re using?
*********************************************
Adam Reyes
<FLASH.jpg>
Code Group Leader, Flash Center for Computational Science
Research Scientist, Dept. of Physics and Astronomy
University of Rochester
River Campus: Bausch and Lomb Hall, 369
500 Wilson Blvd. PO Box 270171, Rochester, NY 14627
Email adam.reyes at rochester.edu<mailto:adam.reyes at rochester.edu>
Web https://flash.rochester.edu<https://flash.rochester.edu/>
(he / him / his)
<FLASH-pride-sml.png>
*********************************************
On May 14, 2024, at 6:10 AM, Mattia Cipriani <mattia.cipriani at enea.it> wrote:
Hi all,
I am running a 3D simulation derived from LaserSlab.
The simulation cannot be run entirely with a single run for the time limit on the queue, then I stop the simulation by setting wall_clock_time_limit appropriately and FLASH outputs a checkpoint file about one hour before the time limit of the queue on the cluster.
When I restart the simulation from this checkpoint file, everything goes fine but the first about 10 output plot files have a size of 110 kB, compared to the size of the files from the first run of 471 MB. As a confirmation of this, from the flash log file (attached) I can see that the plot file stays open for only a couple of seconds in the second run, compared to three minutes of the first.
The size of the checkpoint file used for restart is normal.
I also tried to free up some space on the storage on the cluster, even though I check that I am far from my quota limit. And in fact this did not solve the issue.
What could be the problem?
Thank you in advance.
Best regards,
Mattia
---------------------------------------------
Dr Mattia Cipriani, PhD
ENEA
NUC-PLAS-FIPI
45, Via E. Fermi
00044 Frascati (Rome)
Italy
Office: Building 12
Room 12223
Tel: +39 069400 5145
Mobile: +39 328 5552077
Skype: matcipriani
Researchgate<https://urldefense.com/v3/__https://www.researchgate.net/profile/Mattia-Cipriani-2__;!!CGUSO5OYRnA7CQ!ecROYnbUw5AJW_mYDqLQ9ZLej_GtbDDto6c5xkFcdfknWZOScYGO95cklt42VpBwAFELRhGimfvEFTjInwTm9aZlR0S3WVA$>
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ResearcherID AAG-9269-2021<https://urldefense.com/v3/__https://publons.com/researcher/AAG-9269-2021/__;!!CGUSO5OYRnA7CQ!ecROYnbUw5AJW_mYDqLQ9ZLej_GtbDDto6c5xkFcdfknWZOScYGO95cklt42VpBwAFELRhGimfvEFTjInwTm9aZl9wmICEQ$>
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---------------------------------------------
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Questo messaggio e i suoi allegati sono indirizzati esclusivamente alle persone indicate e la casella di posta elettron ica da cui è stata inviata è da qualificarsi quale strumento aziendale.
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Questo messaggio e i suoi allegati sono indirizzati esclusivamente alle persone indicate e la casella di posta elettron ica da cui è stata inviata è da qualificarsi quale strumento aziendale.
La diffusione, copia o qualsiasi altra azione derivante dalla conoscenza di queste informazioni sono rigorosamente viet ate (art. 616 c.p, D.Lgs. n. 196/2003 s.m.i. e GDPR Regolamento - UE 2016/679).
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