| Records |
| Author |
Gimenez-Alventosa, V.; Gimenez, V.; Oliver, S. |
Title  |
PenRed: An extensible and parallel Monte-Carlo framework for radiation transport based on PENELOPE |
Type |
Journal Article |
| Year |
2021 |
Publication |
Computer Physics Communications |
Abbreviated Journal |
Comput. Phys. Commun. |
| Volume |
267 |
Issue |
|
Pages |
108065 - 12pp |
| Keywords |
Radiation transport; Monte Carlo simulation; Electron-photon showers; Parallel computing; MPI; Medical physics |
| Abstract |
Monte Carlo methods provide detailed and accurate results for radiation transport simulations. Unfortunately, the high computational cost of these methods limits its usage in real-time applications. Moreover, existing computer codes do not provide a methodology for adapting these kinds of simulations to specific problems without advanced knowledge of the corresponding code system, and this restricts their applicability. To help solve these current limitations, we present PenRed, a general-purpose, standalone, extensible and modular framework code based on PENELOPE for parallel Monte Carlo simulations of electron-photon transport through matter. It has been implemented in C++ programming language and takes advantage of modern object-oriented technologies. In addition, PenRed offers the capability to read and process DICOM images as well as to construct and simulate image-based voxelized geometries, so as to facilitate its usage in medical applications. Our framework has been successfully verified against the original PENELOPE Fortran code. Furthermore, the implemented parallelism has been tested showing a significant improvement in the simulation time without any loss in precision of results. Program summary Program title: PenRed: Parallel Engine for Radiation Energy Deposition. CPC Library link to program files: https://doi .org /10 .17632/rkw6tvtngy.1 Licensing provision: GNU Affero General Public License (AGPL). Programming language: C++ standard 2011. Nature of problem: Monte Carlo simulations usually require a huge amount of computation time to achieve low statistical uncertainties. In addition, many applications necessitate particular characteristics or the extraction of specific quantities from the simulation. However, most available Monte Carlo codes do not provide an efficient parallel and truly modular structure which allows users to easily customise their code to suit their needs without an in-depth knowledge of the code system. Solution method: PenRed is a fully parallel, modular and customizable framework for Monte Carlo simulations of the passage of radiation through matter. It is based on the PENELOPE [1] code system, from which inherits its unique physics models and tracking algorithms for charged particles. PenRed has been coded in C++ following an object-oriented programming paradigm restricted to the C++11 standard. Our engine implements parallelism via a double approach: on the one hand, by using standard C++ threads for shared memory, improving the access and usage of the memory, and, on the other hand, via the MPI standard for distributed memory infrastructures. Notice that both kinds of parallelism can be combined together in the same simulation. Moreover, both threads and MPI processes, can be balanced using the builtin load balance system (RUPER-LB [30]) to maximise the performance on heterogeneous infrastructures. In addition, PenRed provides a modular structure with methods designed to easily extend its functionality. Thus, users can create their own independent modules to adapt our engine to their needs without changing the original modules. Furthermore, user extensions will take advantage of the builtin parallelism without any extra effort or knowledge of parallel programming. Additional comments including restrictions and unusual features: PenRed has been compiled in linux systems withg++ of GCC versions 4.8.5, 7.3.1, 8.3.1 and 9; clang version 3.4.2 and intel C++ compiler (icc) version 19.0.5.281. Since it is a C++11-standard compliant code, PenRed should be able to compile with any compiler with C++11 support. In addition, if the code is compiled without MPI support, it does not require any non standard library. To enable MPI capabilities, the user needs to install whatever available MPI implementation, such as openMPI [24] or mpich [25], which can be found in the repositories of any linux distribution. Finally, to provide DICOM processing support, PenRed can be optionally compiled using the dicom toolkit (dcmtk) [32] library. Thus, PenRed has only two optional dependencies, an MPI implementation and the dcmtk library. |
| Address |
[Gimenez-Alventosa, V] Univ Politecn Valencia, Inst Instrumentac Imagen Mol I3M, Ctr Mixto CSIC, Cami Vera S-N, Valencia 46022, Spain, Email: vicent.gimenez@i3m.upv.es; |
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| Publisher |
Elsevier |
Place of Publication |
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| Language |
English |
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Series Issue |
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| ISSN |
0010-4655 |
ISBN |
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Expedition |
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Conference |
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| Notes |
WOS:000678508900001 |
Approved |
no |
| Is ISI |
yes |
International Collaboration |
no |
| Call Number |
IFIC @ pastor @ |
Serial |
4907 |
| Permanent link to this record |
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| Author |
Gariazzo, S.; de Salas, P.F.; Pisanti, O.; Consiglio, R. |
| Title |
PArthENoPE revolutions |
Type |
Journal Article |
| Year |
2022 |
Publication |
Computer Physics Communications |
Abbreviated Journal |
Comput. Phys. Commun. |
| Volume |
271 |
Issue |
|
Pages |
108205 - 13pp |
| Keywords |
Primordial nucleosynthesis; Cosmology; Neutrino physics |
| Abstract |
This paper presents the main features of a new and updated version of the program PArthENoPE, which the community has been using for many years for computing the abundances of light elements produced during Big Bang Nucleosynthesis. This is the third release of the PArthENoPE code, after the 2008 and the 2018 ones, and will be distributed from the code's website, http://parthenope.na.infn.it. Apart from minor changes, the main improvements in this new version include a revisited implementation of the nuclear rates for the most important reactions of deuterium destruction, H-2(p,gamma) He-3, H-2(d, n)He-3 and H-2(d, p)H-3, and a re-designed GUI, which extends the functionality of the previous one. The new GUI, in particular, supersedes the previous tools for running over grids of parameters with a better management of parallel runs, and it offers a brand-new set of functions for plotting the results. Program summary Program title: PArthENoPE 3.0 CPC Library link to program files: https://doi.org/10.17632/wygr7d8yt9.2 Developer's repository link: http://parthenope.na.infn.it Licensing provisions: GPLv3 Programming language: Fortran 77 and Python Nature of problem: Computation of yields of light elements synthesized in the primordial universe Solution method: Livermore Solver for Ordinary Differential Equations (LSODE) for stiff and nonstiff systems, Python GUI for running and plotting Journal reference of previous version: Comput. Phys. Commun. 233 (2018) 237-242 Does the new version supersede the previous version?: Yes Reasons for the new version: Update of the physics and improvements in the GUI Summary of revisions: Update of the physics implemented in the Fortran code and improvements in the GUI functionalities, in particular new plotting functions. |
| Address |
[Gariazzo, S.] INFN, Sez Torino, Via P Giuria 1, I-10125 Turin, Italy, Email: pisanti@na.infn.it |
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Elsevier |
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English |
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0010-4655 |
ISBN |
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Expedition |
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Conference |
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| Notes |
WOS:000720461800020 |
Approved |
no |
| Is ISI |
yes |
International Collaboration |
yes |
| Call Number |
IFIC @ pastor @ |
Serial |
5027 |
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| Author |
Consiglio, R.; de Salas, P.F.; Mangano, G.; Miele, G.; Pastor, S.; Pisanti, O. |
| Title |
PArthENoPE reloaded |
Type |
Journal Article |
| Year |
2018 |
Publication |
Computer Physics Communications |
Abbreviated Journal |
Comput. Phys. Commun. |
| Volume |
233 |
Issue |
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Pages |
237-242 |
| Keywords |
Primordial nucleosynthesis; Cosmology; Neutrino physics |
| Abstract |
We describe the main features of a new and updated version of the program PArthENoPE, which computes the abundances of light elements produced during Big Bang Nucleosynthesis. As the previous first release in 2008, the new one, PArthENoPE2.0, is publicly available and distributed from the code site, http://parthenope.na.infn.it . Apart from minor changes, which will be also detailed, the main improvements are as follows. The powerful, but not freely accessible, NAG routines have been substituted by ODEPACK libraries, without any significant loss in precision. Moreover, we have developed a Graphical User Interface (GUI) which allows a friendly use of the code and a simpler implementation of running for grids of input parameters. New Version program summary Program Title: PArthENoPE2.0 Program Files doi : http://dx.doi.org/10.17632/wvgr7d8yt9.1 Licensing provisions: GPLv3 Programming language: Fortran 77 and Python Supplementary material: User Manual available on the web page http://parthenope.na.infn.it Journal reference of previous version: Comput. Phys. Commun. 178 (2008) 956 971 Does the new version supersede the previous version?: Yes Reasons for the new version: Make the code more versatile and user friendly Summary of revisions: (1) Publicly available libraries (2) GUI for configuration Nature of problem: Computation of yields of light elements synthesized in the primordial universe Solution method: Livermore Solver for Ordinary Differential Equations (LSODE) for stiff and nonstiff systems |
| Address |
[Consiglio, R.; Miele, G.; Pisanti, O.] Univ Napoli Federico II, Dipartimento Fis E Pancini, Via Cintia, I-80126 Naples, Italy, Email: pisanti@na.infn.it |
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| Publisher |
Elsevier Science Bv |
Place of Publication |
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English |
Summary Language |
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0010-4655 |
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Expedition |
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Conference |
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| Notes |
WOS:000444667100020 |
Approved |
no |
| Is ISI |
yes |
International Collaboration |
yes |
| Call Number |
IFIC @ pastor @ |
Serial |
3729 |
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| Author |
Aiola, S.; Amhis, Y.; Billoir, P.; Jashal, B.K.; Henry, L.; Oyanguren, A.; Marin Benito, C.; Polci, F.; Quagliani, R.; Schiller, M.; Wang, M. |
| Title |
Hybrid seeding: A standalone track reconstruction algorithm for scintillating fibre tracker at LHCb |
Type |
Journal Article |
| Year |
2021 |
Publication |
Computer Physics Communications |
Abbreviated Journal |
Comput. Phys. Commun. |
| Volume |
260 |
Issue |
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Pages |
107713 - 5pp |
| Keywords |
Track reconstruction; Pattern Recognition; LHCb |
| Abstract |
We describe the Hybrid seeding, a stand-alone pattern recognition algorithm aiming at finding charged particle trajectories for the LHCb upgrade. A significant improvement to the charged particle reconstruction efficiency is accomplished by exploiting the knowledge of the LHCb magnetic field and the position of energy deposits in the scintillating fibre tracker detector. Moreover, we achieve a low fake rate and a small contribution to the overall timing budget of the LHCb real-time data processing. |
| Address |
[Billoir, P.; Polci, F.; Quagliani, R.] Sorbonne Univ, Paris Diderot Sorbonne Paris Cite, LPNHE, CNRS IN2P3, Paris, France, Email: louis.henry@cern.ch; |
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| Publisher |
Elsevier |
Place of Publication |
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English |
Summary Language |
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0010-4655 |
ISBN |
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Medium |
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| Area |
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Expedition |
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Conference |
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| Notes |
WOS:000608243400007 |
Approved |
no |
| Is ISI |
yes |
International Collaboration |
yes |
| Call Number |
IFIC @ pastor @ |
Serial |
4685 |
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| Author |
Allanach, B.C.; Bednyakov, A.; Ruiz de Austri, R. |
| Title |
Higher order corrections and unification in the minimal supersymmetric standard model: SOFTSUSY3.5 |
Type |
Journal Article |
| Year |
2015 |
Publication |
Computer Physics Communications |
Abbreviated Journal |
Comput. Phys. Commun. |
| Volume |
189 |
Issue |
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Pages |
192-206 |
| Keywords |
Sparticle; MSSM |
| Abstract |
We explore the effects of three-loop minimal supersymmetric standard model renormalisation group equation terms and some leading two-loop threshold corrections on gauge and Yukawa unification: each being one loop higher order than current public spectrum calculators. We also explore the effect of the higher order terms (often 2-3 GeV) on the lightest CP even Higgs mass prediction. We illustrate our results in the constrained minimal supersymmetric standard model. Neglecting threshold corrections at the grand unified scale, the discrepancy between the unification scale alpha(s) and the other two unified gauge couplings changes by 0.1% due to the higher order corrections and the difference between unification scale bottom-tau Yukawa couplings neglecting unification scale threshold corrections changes by up to 1%. The difference between unification scale bottom and top Yukawa couplings changes by a few percent. Differences due to the higher order corrections also give an estimate of the size of theoretical uncertainties in the minimal supersymmetric standard model spectrum. We use these to provide estimates of theoretical uncertainties in predictions of the dark matter relic density (which can be of order one due to its strong dependence on sparticle masses) and the LHC sparticle production cross-section (often around 30%). The additional higher order corrections have been incorporated into SOFTSUSY, and we provide details on how to compile and use the program. We also provide a summary of the approximations used in the higher order corrections. Program Summary Nature of problem: Calculating supersymmetric particle spectrum and mixing parameters in the minimal supersymmetric standard model. The solution to the renormalisation group equations must be consistent with boundary conditions on supersymmetry breaking parameters, as well as the weak-scale boundary condition on gauge couplings, Yukawa couplings and the Higgs potential parameters. Program title: SOFTSUSY Catalogue identifier: ADPMv50 Program summary URL: http://cpc.cs.qub.ac.uk/summaries/ADPMv50.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: Standard CPC licence, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 240528 No. of bytes in distributed program, including test data, etc.: 2597933 Distribution format: tar.gz Programming language: C++, Fortran. Computer: Personal computer. Operating system: Tested on Linux 3.4.6. Word size: 64 bits. Classification: 11.1, 11.6. External routines: At least GiNaC1.3.5 [1] and CLN1.3.1 (both freely obtainable from http://www.ginac.de). Does the new version supersede the previous version?: Yes Catalogue identifier of previous version: ADPMv40 Journal reference of previous version: Comput. Phys. Comm. 185 (2014) 2322 Solution method: Nested iterative algorithm. Reasons for new version: Extension to include additional two and three-loop terms. Summary of revisions: All quantities in the minimal supersymmetric standard model are extended to have three-loop renormalisation group equations (including 3-family mixing) in the limit of real parameters and some leading two-loop threshold corrections are incorporated to the third family Yukawa couplings and the strong gauge coupling. Restrictions: SOFTSUSY will provide a solution only in the perturbative regime and it assumes that all couplings of the model are real (i.e. CP-conserving). If the parameter point under investigation is non-physical for some reason (for example because the electroweak potential does not have an acceptable minimum), SOFTSUSY returns an error message. The higher order corrections included are for the real R-parity conserving minimal supersymmetric standard model (MSSM) only. Running time: A minute per parameter point. The tests provided with the package only take a few seconds to run. |
| Address |
[Allanach, B. C.] Univ Cambridge, DAMTP, CMS, Cambridge CB3 0WA, England, Email: rruiz@ific.uv.es |
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Thesis |
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| Publisher |
Elsevier Science Bv |
Place of Publication |
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Editor |
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| Language |
English |
Summary Language |
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Original Title |
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Series Title |
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Edition |
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0010-4655 |
ISBN |
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Expedition |
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Conference |
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| Notes |
WOS:000350087300021 |
Approved |
no |
| Is ISI |
yes |
International Collaboration |
yes |
| Call Number |
IFIC @ pastor @ |
Serial |
2142 |
| Permanent link to this record |
