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using wavelets . Many-body wavefunctions requiring six-dimensional spatial representations are also implemented (e.g. MP2). The parallel runtime inside of MADNESS has been used to implement a wide variety of features, including graph optimization . From a mathematical perspective, MADNESS emphasizes
334:
to evaluate the stability and performance of their latest supercomputers. It has users around the world, including the United States and Japan . MADNESS has been a workhorse code for computational chemistry in the DOE INCITE program at the
258:
is an ongoing research effort. . Adapting the irregular computation in MADNESS to heterogeneous platforms is nontrivial due to the size of the kernel, which is too small to be offloaded via compiler directives (e.g.
1196:
Natarajan, Bhaarathi; Genovese, Luigi; Casida, Mark E.; Deutsch, Thierry; Burchak, Olga N.; Philouze, Christian; Balakirev, Maxim Y. (2012). "Wavelet-based linear-response time-dependent density-functional theory".
1142:
Pei, J. C.; Stoitsov, M. V.; Fann, G. I.; Nazarewicz, W.; Schunck, N.; Xu, F. R. (December 2008). "Deformed coordinate-space
Hartree-Fock-Bogoliubov approach to weakly bound nuclei and large deformations".
217:
in many (1-6+) dimensions. Finally, built upon the numerical tools are new applications with initial focus upon chemistry, , atomic and molecular physics, material science, and nuclear structure. It is
1497:
1019:"Multiresolution quantum chemistry in multiwavelet bases: time-dependent density functional theory with asymptotically corrected potentials in local density and generalized gradient approximations"
2151:
1089:
Pei, J.C.; Fann, G.I.; Harrison, R.J.; Nazarewicz, W.; Hill, J.; Galindo, D.; Jia, J. (2012). "Coordinate-Space
Hartree-Fock-Bogoliubov Solvers for Superfluid Fermi Systems in Large Boxes".
373:
205:
environment that aims to increases programmer productivity and code performance/scalability while maintaining backward compatibility with current programming tools such as the
516:
703:
Slavici, Vlad; Varier, Raghu; Cooperman, Gene; Harrison, Robert J. (September 2012). "Adapting
Irregular Computations to Large CPU-GPU Clusters in the MADNESS Framework".
636:
Stock, Kevin; Henretty, Thomas; Murugandi, I.; Sadayappan, P.; Harrison, Robert J. (2011). "Model-Driven SIMD Code
Generation for a Multi-resolution Tensor Kernel".
315:
rigorous numerical precision without loss of computational performance . This is useful not only in quantum chemistry and nuclear physics, but also the modeling of
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1501:
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1516:
1973:
336:
1252:"Computing many-body wave functions with guaranteed precision: The first-order Moller-Plesset wave function for the ground state of helium atom"
568:
Fosso-Tande, Jacob; Harrison, Robert (2013). "Confinement effects of solvation on a molecule physisorbed on a polarizable continuum particle".
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653:
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961:"Basis set limit Hartree--Fock and density functional theory response property evaluation by multiresolution multiwavelet basis"
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Fann, George; Beylkin, Gregory; Harrison, Robert J.; Jordan, Kirk E. (2004). "Singular operators in multiwavelet bases".
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1943:
103:
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2648:
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1449:"Accurate Numerical Simulations Of Chemical Phenomena Involved in Energy Production and Storage with MADNESS and MPQC"
327:
243:
213:. The numerical capabilities built upon the parallel tools provide a high-level environment for composing and solving
77:
58:
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1462:
1406:
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960:
537:
Fosso-Tande, Jacob; Harrison, Robert (2013). "Implicit solvation models in a multiresolution multiwavelet basis".
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902:
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1369:"Solving PDEs in irregular geometries with multiresolution methods I: Embedded Dirichlet boundary conditions"
1600:
1479:
254:-optimized matrices) is the primary computational kernel in MADNESS; thus, an efficient implement on modern
765:
188:
50:
903:"Multiresolution quantum chemistry: Analytic derivatives for Hartree--Fock and density functional theory"
2458:
2348:
2292:
1527:
683:"Autotuning and specialization: Speeding up matrix multiply for small matrices with compiler technology"
247:
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in many dimensions using adaptive and fast harmonic analysis methods with guaranteed precision based on
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2014:
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30:
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Yanai, Takeshi; George I., Fann; Gan, Zhengting; Harrison, Robert J.; Beylkin, Gregory (2004).
843:
Yanai, Takeshi; George I., Fann; Gan, Zhengting; Harrison, Robert J.; Beylkin, Gregory (2004).
785:
Harrison, Robert J.; Fann, George I.; Yanai, Takeshi; Gan, Zhengting; Beylkin, Gregory (2004).
414:
Beylkin, Gregory; Fann, George; Harrison, Robert J.; Kurcz, Christopher; MonzĂłn, Lucas (2012).
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1480:"Far from home - Japanese graduate student journeys to UT to study computational chemistry"
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416:"Multiresolution representation of operators with boundary conditions on simple domains"
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supercomputing sites and is being used by both the leadership computing facilities at
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MADNESS was recognized by the R&D 100 Awards in 2011. It is an important code to
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484:"Multiresolution separated representations of singular and weakly singular operators"
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systems . Intel has publicly stated that MADNESS is one of the codes running on the
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690:
Proceedings of the Fourth
International Workshop on Automatic Performance Tuning
1498:"Chemistry and Materials Simulations Speed Clean Energy Production and Storage"
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Sekino, Hideo; Maeda, Yasuyuki; Yanai, Takeshi; Harrison, Robert J. (2008).
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Beylkin, Gregory; Cramer, Robert; Fann, George; Harrison, Robert J. (2007).
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112:
1308:
Sullivan, Blair D.; Weerapurage, Dinesh P.; Groer, Christopher S. (2012).
787:"Multiresolution quantum chemistry: Basic theory and initial applications"
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program for computers with up to millions of cores running already on the
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1065:"UNEDF SciDAC Collaboration Universal Nuclear Energy Density Functional"
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Multiresolution
Adaptive Numerical Environment for Scientific Simulation
2211:
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1999:
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2011 IEEE International
Parallel & Distributed Processing Symposium
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in chemistry (including analytic derivatives, response properties and
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1309:
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Bischoff, Florian A.; Harrison, Robert J.; Valeev, Edward F. (2012).
517:"Introducing the MADNESS numerical framework for petascale computing"
303:
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There are three main components to MADNESS. At the lowest level is a
1368:
1319:
1311:
Parallel
Algorithms for Graph Optimization using Tree Decompositions
1018:
1515:
Bland, A.; Kendall, R.; Kothe, D.; Rogers, J.; Shipman, G. (2010).
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2004:
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Reuter, Matthew G.; Hill, Judith C.; Harrison, Robert J. (2012).
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Thornton, W. Scott; Vence, Nicholas; Harrison, Robert E. (2009).
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Yanai, Takeshi; Harrison, Robert J.; Handy, Nicholas C. (2005).
340:
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architecture but no performance data has been published yet.
595:
Vence, Nicholas; Harrison, Robert; Krstic, Predrag (2012).
183:) is a high-level software environment for the solution of
2152:
List of quantum chemistry and solid-state physics software
845:"Multiresolution quantum chemistry: Hartree-Fock exchange"
681:; Chame, Jacqueline; Chen, Chun; Hovland, Paul D. (2009).
597:"Attosecond electron dynamics: A multiresolution approach"
374:
List of quantum chemistry and solid state physics software
339:
and is noted as one of the important codes to run on the
1068:
766:"Hot Intel teraflops MIC coprocessor action in a hotel"
706:
2012 IEEE International
Conference on Cluster Computing
751:"Intel Xeon Phi coprocessor support by software tools"
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with asymptotically corrected potentials ) as well as
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306:are the two most widely known codes that perform
1545:"Cray unveils 100 petaflop XC30 supercomputer"
1585:
1524:Proceedings of the Cray User Group Conference
1333:Harrison, Robert J.; Fann, George I. (2007).
524:Proceedings of the Cray User Group Conference
8:
1517:"Jaguar: The world's most powerful computer"
764:Timothy Prickett Morgan (16 November 2011).
19:
488:Applied and Computational Harmonic Analysis
420:Applied and Computational Harmonic Analysis
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2155:
2051:
1977:
1802:
1711:
1614:
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1570:
1407:"Free framework for scientific simulation"
1335:"SPEED and PRECISION in QUANTUM CHEMISTRY"
122:
18:
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1102:
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499:
431:
288:time-dependent density functional theory
1974:List of protein-ligand docking software
570:Computational and Theoretical Chemistry
449:IBM Journal of Research and Development
384:
337:Oak Ridge Leadership Computing Facility
278:MADNESS' chemistry capability includes
1091:Journal of Physics: Conference Series
7:
749:James Reinders (20 September 2012).
361:Free and open-source software portal
369:List of numerical analysis software
1799:List of molecular graphics systems
1435:"MADNESS Named R&D 100 Winner"
14:
292:nuclear density functional theory
263:), but has been demonstrated for
2634:Computational chemistry software
353:
226:design, and is designed to be a
195:and separated representations .
2033:Molecular Operating Environment
1934:Molecular Operating Environment
1463:"Application Readiness at ORNL"
1373:Computer Physics Communications
1256:The Journal of Chemical Physics
965:The Journal of Chemical Physics
907:The Journal of Chemical Physics
849:The Journal of Chemical Physics
791:The Journal of Chemical Physics
16:High-level software environment
1626:Avalon Cheminformatics Toolkit
1229:10.1016/j.chemphys.2012.03.024
1121:10.1088/1742-6596/402/1/012035
317:partial differential equations
139:Scientific simulation software
1:
1500:. 1 June 2011. Archived from
332:Oak Ridge National Laboratory
236:Oak Ridge National Laboratory
47:Oak Ridge National Laboratory
1043:10.1080/00268970412331319236
582:10.1016/j.comptc.2013.05.006
555:10.1016/j.cplett.2013.01.065
328:Argonne National Laboratory
244:Argonne National Laboratory
59:Argonne National Laboratory
2670:
1345:(3): 54–65. Archived from
1175:10.1103/PhysRevC.78.064306
622:10.1103/PhysRevA.85.033403
501:10.1016/j.acha.2007.01.001
433:10.1016/j.acha.2011.10.001
2639:Free mathematics software
1640:Chemistry Development Kit
1393:10.1016/j.cpc.2011.07.001
284:density functional theory
207:message-passing interface
98:
72:
539:Chemical Physics Letters
193:multiresolution analysis
1601:Computational chemistry
718:10.1109/CLUSTER.2012.42
646:10.1109/IPDPS.2011.101
640:. pp. 1058–1067.
343:Cascade architecture.
189:differential equations
51:Stony Brook University
2644:Mathematical software
1262:(10): 104103–104112.
248:matrix multiplication
85:; 9 years ago
83:0.10 / 6 July 2015
1314:(Technical report).
1151:(6): 064306–064317.
971:(3): 034111–034117.
541:. 561–562: 179–184.
324:Department of Energy
302:theory. MADNESS and
250:(relative to large,
203:parallel programming
2538:JME Molecule Editor
1787:Molecular modelling
1385:2012CoPhC.183....1R
1268:2012JChPh.137j4103B
1221:2012CP....402...29N
1167:2008PhRvC..78f4306P
1113:2012JPhCS.402a2035P
1035:2005MolPh.103..413Y
977:2008JChPh.129c4111S
919:2004JChPh.121.2866Y
861:2004JChPh.121.6680Y
803:2004JChPh.12111587H
797:(23): 11587–11598.
613:2012PhRvA..85c3403V
547:2013CPL...561..179F
461:10.1147/rd.482.0161
228:parallel processing
21:
2654:Parallel computing
2649:Numerical software
2473:Skeletal structure
2047:Molecular dynamics
1753:Chemical WorkBench
1547:. 8 November 2012.
280:Hartree–Fock
215:numerical problems
35:Robert J. Harrison
26:Original author(s)
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2467:
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2146:Quantum chemistry
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1968:Molecular docking
1962:
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1889:Atomistix ToolKit
1813:Ascalaph Designer
1781:
1780:
1707:Chemical kinetics
1701:
1700:
1504:on 6 August 2011.
1276:10.1063/1.4747538
1145:Physical Review C
1023:Molecular Physics
985:10.1063/1.2955730
927:10.1063/1.1768161
869:10.1063/1.1790931
855:(14): 6680–6688.
811:10.1063/1.1791051
727:978-0-7695-4807-4
655:978-1-61284-372-8
601:Physical Review A
174:
173:
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2600:Materials Studio
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2277:Quantum ESPRESSO
2156:
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1978:
1803:
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1693:Discovery Studio
1615:
1594:
1587:
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1561:MADNESS Homepage
1549:
1548:
1541:
1535:
1534:
1532:
1526:. Archived from
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1512:
1506:
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1482:. Archived from
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1415:. 14 August 2011
1412:R&D Magazine
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1286:. Archived from
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1199:Chemical Physics
1193:
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1067:. Archived from
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1029:(2–3): 413–424.
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995:. Archived from
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937:. Archived from
913:(7): 2866–2876.
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879:. Archived from
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821:. Archived from
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712:. pp. 1–9.
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2589:CrystalExplorer
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1610:Cheminformatics
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65:Initial release
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1949:UCSF Chimera
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1635:Blue Obelisk
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1417:. Retrieved
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42:Developer(s)
2520:BIOVIA Draw
2508:Proprietary
2369:GAMESS (US)
2364:GAMESS (UK)
2307:Proprietary
2094:Proprietary
2015:Proprietary
1872:Proprietary
1741:Proprietary
1688:Chemicalize
1675:Proprietary
1565:Google Code
220:open-source
90:6 July 2015
68:Forthcoming
31:George Fann
2628:Categories
2533:ChemWindow
2524:ChemDoodle
2489:JChemPaint
2298:YAMBO code
2252:OpenMolcas
1924:MarvinView
1899:ChemWindow
1660:Open Babel
1379:(1): 1–7.
1353:2012-11-19
1294:2019-05-15
1075:2012-11-19
1003:2019-05-15
945:2019-05-15
887:2019-05-15
829:2019-05-15
380:References
300:Bogoliubov
104:Repository
2610:OpenChrom
2499:XDrawChem
2494:Molsketch
2444:TURBOMOLE
2424:Quantemol
1630:Bioclipse
1212:1108.3475
1205:: 29–40.
1183:119281109
1158:0807.3036
1129:119215739
1104:1204.5254
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273:Intel MIC
222:, has an
200:petascale
2573:EXC code
2528:ChemDraw
2439:TeraChem
2429:Scigress
2399:OpenAtom
2374:Gaussian
2267:PyQuante
2192:CONQUEST
2187:COLUMBUS
1990:AutoDock
1929:MODELLER
1909:Gaussian
1894:ChemDraw
1838:Ghemical
1818:Avogadro
1748:Autochem
1603:software
1284:22979846
1237:96589229
1051:96910088
993:18647020
935:15291596
877:15473723
819:15634124
664:17880870
399:14 March
347:See also
238:and the
232:Cray XT5
185:integral
168:/madness
119:/madness
2614:SASHIMI
2584:Mercury
2475:drawing
2434:Spartan
2359:Firefly
2354:CRYSTAL
2279:(PWscf)
2247:Octopus
2227:MADNESS
2212:DP code
2173:(CFOUR)
2122:Desmond
2102:Abalone
2069:GROMACS
2000:FlexAID
1944:Spartan
1914:Maestro
1879:Abalone
1858:QuteMol
1848:Molekel
1833:Gabedit
1773:Khimera
1763:COSILAB
1758:CHEMKIN
1727:Cantera
1381:Bibcode
1264:Bibcode
1217:Bibcode
1163:Bibcode
1109:Bibcode
1031:Bibcode
973:Bibcode
915:Bibcode
857:Bibcode
799:Bibcode
736:5637880
609:Bibcode
543:Bibcode
469:7385463
298:–
267:–
261:OpenACC
177:MADNESS
157:Website
150:GNU GPL
145:License
88: (
20:MADNESS
2605:Molden
2556:Others
2454:WIEN2k
2419:Q-Chem
2394:ONETEP
2389:MOLPRO
2384:MOLCAS
2379:Jaguar
2349:CRUNCH
2339:CASTEP
2334:CASINO
2329:CADPAC
2293:VB2000
2288:SIESTA
2257:PARSEC
2242:NWChem
2222:FreeON
2202:Dalton
2182:BigDFT
2177:AIMAll
2166:ABINIT
2127:GROMOS
2112:CHARMM
2084:PLUMED
2079:OpenMM
2074:LAMMPS
2028:LeDock
1939:SAMSON
1863:RasMol
1828:Biskit
1768:DelPhi
1683:Canvas
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304:BigDFT
162:github
113:github
2568:Eulim
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2409:PLATO
2324:DMol3
2319:AMPAC
2272:PySCF
2232:MOPAC
2217:FLEUR
2207:DIRAC
2107:AMBER
2023:Glide
2005:rDock
1904:EzMol
1853:PyMOL
1665:RDKit
1655:OELib
1531:(PDF)
1520:(PDF)
1466:(PDF)
1233:S2CID
1207:arXiv
1179:S2CID
1153:arXiv
1125:S2CID
1099:arXiv
1047:S2CID
732:S2CID
710:(PDF)
686:(PDF)
660:S2CID
520:(PDF)
465:S2CID
312:TDDFT
2580:GSim
2577:GenX
2459:XMVB
2449:VASP
2404:ORCA
2344:CPMD
2237:MPQC
2197:CP2K
2171:ACES
2132:NAMD
2117:CPMD
2064:CP2K
1843:Jmol
1823:BALL
1790:and
1722:APBS
1645:ECCE
1421:2012
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815:PMID
722:ISBN
650:ISBN
574:1017
401:2018
341:Cray
330:and
310:and
294:and
282:and
256:CPUs
252:BLAS
209:and
187:and
164:.com
135:Type
115:.com
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179:(
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Text is available under the Creative Commons Attribution-ShareAlike License. Additional terms may apply.
