tag:joss.theoj.org,2005:/papers/tagged/MPIJournal of Open Source Software2024-03-04T15:38:25ZJournal of Open Source Softwarehttps://joss.theoj.orgtag:joss.theoj.org,2005:Paper/48272024-03-04T15:38:25Z2024-03-05T01:12:22Z$hp\mathrm{3D}$: A Scalable MPI/OpenMP $hp$-Adaptive Finite Element Software Library for Complex Multiphysics Applicationsacceptedv1.0-beta2023-10-02 22:48:04 UTC952024-03-04 15:38:25 UTC920245946StefanHennekingOden Institute, The University of Texas at Austin, USA0000-0003-2177-8519SocratisPetridesLawrence Livermore National Laboratory, USA0000-0002-1284-5495FedericoFuentesInstitute for Mathematical and Computational Engineering, Pontificia Universidad Católica de Chile, Chile0000-0002-4039-082XJacobBadgerOden Institute, The University of Texas at Austin, USA0000-0001-6482-105XLeszekDemkowiczOden Institute, The University of Texas at Austin, USA0000-0001-7839-803710.21105/joss.05946https://doi.org/10.5281/zenodo.10763375Perl, Pythonhttps://joss.theoj.org/papers/10.21105/joss.05946.pdffinite element, hp-adaptivity, DPG methodtag:joss.theoj.org,2005:Paper/45742023-12-18T18:08:54Z2023-12-19T00:00:30Zparafields: A generator for distributed, stationary Gaussian processesacceptedv0.3.02023-07-03 12:18:52 UTC922023-12-18 18:08:54 UTC820235735DominicKempfScientific Software Center, Heidelberg University, Heidelberg, Germany, Interdisciplinary Center for Scientific Computing, Heidelberg University, Heidelberg, Germany0000-0002-6140-2332OleKleinIndependent Researcher, Heidelberg, Germany0000-0002-3295-7347RobertKutriInterdisciplinary Center for Scientific Computing, Heidelberg University, Heidelberg, Germany, Institute for Mathematics, Heidelberg University, Heidelberg, Germany0009-0004-8123-4673RobertScheichlInterdisciplinary Center for Scientific Computing, Heidelberg University, Heidelberg, Germany, Institute for Mathematics, Heidelberg University, Heidelberg, Germany0000-0001-8493-4393PeterBastianInterdisciplinary Center for Scientific Computing, Heidelberg University, Heidelberg, Germany10.21105/joss.05735https://doi.org/10.5281/zenodo.10355636Python, C++, Jupyter Notebookhttps://joss.theoj.org/papers/10.21105/joss.05735.pdfMPI, scientific computing, high performance computing, uncertainty quantification, random field generation, circulant embeddingtag:joss.theoj.org,2005:Paper/46002023-10-03T20:23:42Z2023-10-04T10:38:48ZepiworldR: Fast Agent-Based Epi Modelsaccepted0.0-22023-07-13 15:39:41 UTC902023-10-03 20:23:42 UTC820235781DerekMeyerDivision of Epidemiology, University of Utah, Salt Lake City, UT, United States of America0009-0005-1350-6988GeorgeG VegaYonDivision of Epidemiology, University of Utah, Salt Lake City, UT, United States of America0000-0002-3171-084410.21105/joss.05781https://doi.org/10.5281/zenodo.8327345R, M4, C++https://joss.theoj.org/papers/10.21105/joss.05781.pdfABM, epiworldR, parallel computingtag:joss.theoj.org,2005:Paper/36792023-01-13T19:54:53Z2023-01-14T00:00:57ZRHEA: an open-source Reproducible Hybrid-architecture flow solver Engineered for Academiaacceptedv1.0.02022-06-24 17:38:19 UTC812023-01-13 19:54:53 UTC820234637LluísJofreDepartment of Fluid Mechanics, Universitat Politècnica de Catalunya · BarcelonaTech (UPC), Barcelona 08019, Spain0000-0003-2437-259XAhmedAbdellatifDepartment of Fluid Mechanics, Universitat Politècnica de Catalunya · BarcelonaTech (UPC), Barcelona 08019, Spain0000-0002-8810-7480GuillermoOyarzunDepartment of Computer Applications in Science & Engineering, Barcelona Supercomputing Center, Barcelona 08034, Spain0000-0001-9524-378210.21105/joss.04637https://doi.org/10.5281/zenodo.7525886JavaScripthttps://joss.theoj.org/papers/10.21105/joss.04637.pdfCompressible flow, Fluid mechanics, Ideal- & real-gas thermodynamics, Turbulence, C++, MPI, OpenACC, HDF5, YAMLtag:joss.theoj.org,2005:Paper/38502022-12-16T19:00:02Z2022-12-17T00:01:07ZPDENLPModels.jl: An NLPModel API for Optimization Problems with PDE-Constraintsacceptedv0.3.22022-08-31 15:04:48 UTC802022-12-16 19:00:02 UTC720224736TangiMigotGERAD and Department of Mathematics and Industrial Engineering, Polytechnique Montréal, QC, Canada.0000-0001-7729-2513DominiqueOrbanGERAD and Department of Mathematics and Industrial Engineering, Polytechnique Montréal, QC, Canada.0000-0002-8017-7687AbelSoaresSiqueiraNetherlands eScience Center, Amsterdam, NL0000-0003-4451-281X10.21105/joss.04736https://doi.org/10.5281/zenodo.7447623Juliahttps://joss.theoj.org/papers/10.21105/joss.04736.pdfnonlinear optimization, large-scale optimization, constrained optimization, nonlinear programming, PDE-constrained optimizationtag:joss.theoj.org,2005:Paper/31962022-07-14T18:32:08Z2022-07-15T00:00:38ZKamodo: A functional API for space weather models and dataaccepted21.10.02021-11-29 21:36:02 UTC752022-07-14 18:32:08 UTC720224053AsherPembrokeAsher Pembroke, DBADarrenDeZeeuwCommunity Coordinated Modeling Center, NASA GSFC, Catholic University of AmericaLutzRastaetterCommunity Coordinated Modeling Center, NASA GSFCRebeccaRinguetteADNET Systems Inc., Community Coordinated Modeling Center, NASA GSFCOliverGerlandEnsemble Government ServicesDhruvPatelEnsemble Government ServicesMichaelContrerasEnsemble Government Services10.21105/joss.04053https://doi.org/10.5281/zenodo.6773395Python, JavaScripthttps://joss.theoj.org/papers/10.21105/joss.04053.pdfplasma physics, space weathertag:joss.theoj.org,2005:Paper/36232022-07-07T14:13:07Z2022-07-08T00:00:34Z`pygetpapers`: a Python library for automated retrieval of scientific literatureacceptedv1.2.32022-05-24 09:56:22 UTC752022-07-07 14:13:07 UTC720224451AyushGargUniversity of Richmond, Richmond, VA 23173, United States0000-0001-7016-747XRichardD.Smith-UnnaLabDAO, https://www.labdao.com/0000-0001-8721-7197PeterMurray-RustYusuf-Hamied Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK0000-0003-3386-397210.21105/joss.04451https://doi.org/10.5281/zenodo.6805842Python, Jupyter Notebookhttps://joss.theoj.org/papers/10.21105/joss.04451.pdfREST APItag:joss.theoj.org,2005:Paper/35892022-05-11T15:16:17Z2022-05-12T00:00:43Zunifir: A Unifying API for Working with Unity in Racceptedv0.2.02022-05-05 16:05:32 UTC732022-05-11 15:16:17 UTC720224388MichaelJ.MahoneyGraduate Program in Environmental Science, State University of New York College of Environmental Science and Forestry, Syracuse, New York, USA0000-0003-2402-304XColinM.BeierDepartment of Sustainable Resources Management, State University of New York College of Environmental Science and Forestry, Syracuse, New York, USA0000-0003-2692-7296AidanC.AckermanDepartment of Landscape Architecture, State University of New York College of Environmental Science and Forestry, Syracuse, New York, USA0000-0001-7106-095710.21105/joss.04388https://doi.org/10.5281/zenodo.6539478R, C#https://joss.theoj.org/papers/10.21105/joss.04388.pdfvirtual reality, GIS, Unitytag:joss.theoj.org,2005:Paper/29912021-12-17T02:40:50Z2021-12-18T00:01:44ZPDLSM-FEM: Solver of Coupled Peridynamics Least Squares Minimization with Finite Element Methodacceptedv1.02021-08-23 02:52:24 UTC682021-12-17 02:40:50 UTC620213668QibangLiuDepartment of Mechanical and Nuclear Engineering, Kansas State University, Manhattan, Kansas, USA0000-0001-7935-7907X.j.XinDepartment of Mechanical and Nuclear Engineering, Kansas State University, Manhattan, Kansas, USA10.21105/joss.03668https://doi.org/10.5281/zenodo.5784823C++https://joss.theoj.org/papers/10.21105/joss.03668.pdfPeridynamics, Finite element method, Least square minimization, MPItag:joss.theoj.org,2005:Paper/29172021-12-10T15:46:09Z2022-01-10T18:52:40ZGRChombo: An adaptable numerical relativity code for fundamental physicsacceptedv1.0.02021-08-03 11:05:56 UTC682021-12-10 15:46:09 UTC620213703TomasAndradeDepartament de Fısica Quantica i Astrofisica, Institut de Ciencies del Cosmos, Universitat de Barcelona, Marti i Franques 1, 08028 Barcelona, Spain0000-0002-2472-114XLlibertAresteSaloSchool of Mathematical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, United Kingdom0000-0002-3812-8523JosuC.AurrekoetxeaTheoretical Particle Physics and Cosmology, King's College London, Strand, London, WC2R 2LS, United Kingdom0000-0001-9584-5791JamieBamberAstrophysics, Oxford University, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH, United Kingdom0000-0001-7181-3365KatyCloughAstrophysics, Oxford University, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH, United Kingdom0000-0001-8841-1522RobinCroftDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0002-1236-6566Eloyde JongTheoretical Particle Physics and Cosmology, King's College London, Strand, London, WC2R 2LS, United Kingdom0000-0002-4505-0808AmeliaDrewDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0001-8252-602XAlejandroDuranIntel Iberia, Torre Picasso Plaza Pablo Ruiz Picasso 1 Madrid, 28020 SpainPedroG.FerreiraAstrophysics, Oxford University, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH, United Kingdom0000-0002-3021-2851PauFiguerasSchool of Mathematical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, United Kingdom0000-0001-6438-315XHalFinkelArgonne National Laboratory (ANL), 9700 S. Cass Avenue, Argonne, IL 60439-4815, United States0000-0002-7551-7122TiagoFran\c{c}aSchool of Mathematical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, United Kingdom0000-0002-1718-151XBo-XuanGeTheoretical Particle Physics and Cosmology, King's College London, Strand, London, WC2R 2LS, United Kingdom0000-0003-0738-3473ChenxiaGuSchool of Mathematical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, United Kingdom0000-0001-9537-6139ThomasHelferHenry A. Rowland Department of Physics & Astronomy, Johns Hopkins University, 3701 San Martin Drive, Baltimore, Maryland (MD) 21218, United States0000-0001-6880-1005JuhaJäykkäDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0002-5929-3931CristianJoanaCosmology, Universe and Relativity at Louvain (CURL), Institut de Recherche en Mathematique et Physique, University of Louvain, 2 Chemin du Cyclotron, 1348 Louvain-la-Neuve, Belgium0000-0003-4642-3028MarkusKuneschDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0003-3818-7897KacperKornetDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0001-8376-8231EugeneA.LimTheoretical Particle Physics and Cosmology, King's College London, Strand, London, WC2R 2LS, United Kingdom0000-0002-6227-9540FrancescoMuiaDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0002-4872-6172ZainabNazariDepartment of Physics, Bogazici University, 34342 Bebek, 80820 Istanbul, Turkey, HECAP Section, Abdus Salam International Centre for Theoretical Physics (ICTP), 34151, Trieste, Italy0000-0002-2955-7262MirenRadiaDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0001-8861-2025JustinRipleyDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0001-7192-0021PaulShellardDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United KingdomUlrichSperhakeDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom, California Institute of Technology, Pasadena, California 91125, USA0000-0002-3134-7088DinaTraykovaAstrophysics, Oxford University, Denys Wilkinson Building, Keble Road, Oxford OX1 3RH, United Kingdom0000-0002-3451-0987SaranTunyasuvunakoolDepartment of Applied Mathematics and Theoretical Physics (DAMTP), University of Cambridge, Centre for Mathematical Sciences, Wilberforce Road, Cambridge CB3 0WA, United Kingdom0000-0002-1620-6797ZipengWangHenry A. Rowland Department of Physics & Astronomy, Johns Hopkins University, 3701 San Martin Drive, Baltimore, Maryland (MD) 21218, United States0000-0002-4745-8209JamesY.WiddicombeTheoretical Particle Physics and Cosmology, King's College London, Strand, London, WC2R 2LS, United Kingdom0000-0003-2269-4544KazeWongHenry A. Rowland Department of Physics & Astronomy, Johns Hopkins University, 3701 San Martin Drive, Baltimore, Maryland (MD) 21218, United States0000-0001-8432-778810.21105/joss.03703https://doi.org/10.5281/zenodo.5771949C++, Mathematicahttps://joss.theoj.org/papers/10.21105/joss.03703.pdfc++, MPI, Open MP, vector intrinsics, gravity, general relativity, numerical relativity