Modular MPI and PVM Components

Cotronis, John Yiannis; Tsiatsoulis, Z.

doi:10.1007/3-540-45825-5_41

Cited by 5 publications

(4 citation statements)

References 7 publications

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“…Chemical operator updates for a given column can be completed without information from neighboring columns. Solving for the chemical operator column by column reduces memory overhead and facilitates scalable single program, multiple data (SPMD; Cotronis and Dongarra, 2001) parallelization in a distributed computing environment using the message-passing interface (MPI). It may sometimes be preferable to apply the chemical operator to ensembles of columns, grouped independent of geography, to balance the computational burden and achieve performance gains (Long et al, 2013).…”

Section: Grid-independent Geos-chem Model Descriptionmentioning

confidence: 99%

Development of a grid-independent GEOS-Chem chemical transport model (v9-02) as an atmospheric chemistry module for Earth system models

et al. 2015

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Abstract. The GEOS-Chem global chemical transport model (CTM), used by a large atmospheric chemistry research community, has been re-engineered to also serve as an atmospheric chemistry module for Earth system models (ESMs). This was done using an Earth System Modeling Framework (ESMF) interface that operates independently of the GEOSChem scientific code, permitting the exact same GEOSChem code to be used as an ESM module or as a standalone CTM. In this manner, the continual stream of updates contributed by the CTM user community is automatically passed on to the ESM module, which remains state of science and referenced to the latest version of the standard GEOS-Chem CTM. A major step in this re-engineering was to make GEOS-Chem grid independent, i.e., capable of using any geophysical grid specified at run time. GEOS-Chem data sockets were also created for communication between modules and with external ESM code. The grid-independent, ESMF-compatible GEOS-Chem is now the standard version of the GEOS-Chem CTM. It has been implemented as an atmospheric chemistry module into the NASA GEOS-5 ESM. The coupled GEOS-5-GEOS-Chem system was tested for scalability and performance with a tropospheric oxidant-aerosol simulation (120 coupled species, 66 transported tracers) using 48-240 cores and message-passing interface (MPI) distributed-memory parallelization. Numerical experiments demonstrate that the GEOS-Chem chemistry module scales efficiently for the number of cores tested, with no degradation as the number of cores increases. Although inclusion of atmospheric chemistry in ESMs is computationally expensive, the excellent scalability of the chemistry module means that the relative cost goes down with increasing number of cores in a massively parallel environment.

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Section: Grid-independent Geos-chem Model Descriptionmentioning

confidence: 99%

Development of a grid-independent GEOS-Chem chemical transport model (v9-02) as an atmospheric chemistry module for Earth system models

et al. 2015

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“…Thus all communication is expressed in the code without any actual information about the receiver or the sender of messages. The code resembles the task/channel model [5], but in a two stage manner. Stage one is within component code (task to port) and stage 2 specified in the composition (port-port, context and root binding).…”

Section: The Ensemble Atm Componentmentioning

confidence: 99%

“…Consequently, Ensemble does not modify the capabilities of MP APIs and does not interfere with application communication. In this paper we concentrate on composing MPI applications, but the interested reader may refer to [5] for composing PVM applications.…”

Section: Introductionmentioning

confidence: 99%

Building Grid MPI applications from modular components

Cotronis

2003

Eleventh Euromicro Conference on Parallel, Distributed and Network-Based Processing, 2003. Proceedings.

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“…Το µεγαλύτερο µέρος του έργου µας, σχετίζεται µε µεθόδους και τεχνικές µε τις οποίες µπορούµε να µοντελοποιήσουµε τις τυπικές προδιαγραφές των εξαρτηµάτων λογισµικού της Ensemble, να µοντελοποιήσουµε τη σύνθεση αυτών των εξαρτηµάτων σε µια ενιαία παράλληλη εφαρµογή, καθώς και να καθορίσουµε τον τρόπο της αλληλεπίδραση της προσοµοίωσης των τυπικών προδιαγραφών µε την ανάλυση της εκτέλεσης των αντίστοιχων προγραµµάτων. Επίσης, ασχοληθήκαµε µε τον ανασχεδιασµό της µορφής των εξαρτηµάτων λογισµικού της Ensemble για το PVM, έτσι ώστε να αποκτήσουν µια όσο το δυνατό κοινή µορφή και λειτουργικότητα µε τα αντίστοιχα εξαρτήµατα λογισµικού της Ensemble για το MPI [33].…”

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Μέθοδοι Και Τεχνικές Για Την Ανάπτυξη Παράλληλων Και Κατανεμημένων Εφαρμογών

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In this PhD thesis a methodology for the objective error detection for the Ensemble composition architecture was proposed and developed. It can be used in the framework of the software life-cycle model, as a Parallel and Distributed Software Engineering process. It involves management of the software development process, and links design, implementation and testing in an integrated development process. Formal specifications of software components were used to validate the behaviour of composed applications. The logic followed is lightweight formal methods, which are applied during program execution as tools to assist error detection. A specifications composition technique, which is related to the composition of Ensemble and extends it to cover composition of formal specifications, was developed. An extension to the coloured Petri net model, called template CPN, which is capable to model the "pseudodynamic" modification of parametric interfaces of Ensemble components was proposed.Communication was modelled with Petri nets, covering all point to point communication operations for MPI and PVM. Finally the use of execution monitoring tools in synergy with specifications simulation tools was proposed. This synergy provides the ability to derive objective conclusions on the behaviour of the application and on the detection of possible errors.

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Modular MPI and PVM Components

Cited by 5 publications

References 7 publications

Development of a grid-independent GEOS-Chem chemical transport model (v9-02) as an atmospheric chemistry module for Earth system models

Development of a grid-independent GEOS-Chem chemical transport model (v9-02) as an atmospheric chemistry module for Earth system models

Building Grid MPI applications from modular components

Μέθοδοι Και Τεχνικές Για Την Ανάπτυξη Παράλληλων Και Κατανεμημένων Εφαρμογών

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