@article{aehle_exploration_2023,

title = {Exploration of Differentiability in a Proton Computed Tomography Simulation Framework},

author = {M. Aehle, J. Alme, G. Barnaföldi, J. Blühdorn, T. Bodova, V. Borshchov, A. van den Brink, V. Eikeland, G. Feofilov, C. Garth, N. R. Gauger, et al.},

url = {https://iopscience.iop.org/article/10.1088/1361-6560/ad0bdd},

doi = {10.1088/1361-6560/ad0bdd},

year  = {2023},

date = {2023-11-10},

urldate = {2023-11-10},

journal = {Physics in Medicine and Biology},

howpublished = {arXiv:2202.05551},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{SchillingEtAl2023,

title = {Uncertainty-aware spot rejection rate as quality metric for proton therapy using a digital tracking calorimeter},

author = {A. Schilling, M. Aehle, J. Alme, G. Barnaföldi, T. Bodova, V. Borshchov, A. van den Brink, V. Eikeland, G. Feofilov, C. Garth, N.R. Gauger, et al.},

url = {https://iopscience.iop.org/article/10.1088/1361-6560/acf5c2/pdf},

year  = {2023},

date = {2023-09-20},

journal = {Phys. Med. Biol.},

volume = {68},

number = {194001},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{MODE2023a,

title = {Toward the end-to-end optimization of particle physics instruments with differentiable programming},

author = {T. Dorigo, A. Giammanco, P. Vischia, M. Aehle, M. Bawaj, A. Boldyrev, P. de Castro Manzano, D. Derkach, J. Donini, A. Edelen, F. Fanzago, N.R. Gauger, et al.},

url = {https://doi.org/10.1016/j.revip.2023.100085},

year  = {2023},

date = {2023-05-25},

urldate = {2023-05-25},

journal = {Reviews in Physics},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{SBGetal2023,

title = {On recent developments for efficient turbomachinery design using algorithmic differentiation},

author = {M. Sagebaum, J. Blühdorn, N.R. Gauger, J. Backhaus, C. Frey, G. Geiser, F. Bayer, E. Kügeler, C. Battistoni, M. Nagel},

doi = {10.29008/ETC2023-346 },

year  = {2023},

date = {2023-04-26},

urldate = {2023-04-26},

journal = {Proceedings of 15th European Conference on Turbomachinery Fluid Dynamics & Thermodynamics (ETC15)},

number = {ETC2023-346},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{SaGau2023,

title = {Aggregated type handling in CoDiPack},

author = {M. Sagebaum, N.R. Gauger},

doi = {10.1002/pamm.202200208},

year  = {2023},

date = {2023-03-27},

urldate = {2023-03-01},

journal = {Proc. Appl. Math. Mech.},

volume = {22},

number = {e202200208},

issue = {1},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Event-Based Automatic Differentiation of OpenMP with OpDiLib},

author = {J. Blühdorn, M. Sagebaum, N. R. Gauger},

doi = {10.1145/3570159},

year  = {2023},

date = {2023-03-21},

urldate = {2023-03-21},

journal = {ACM Transactions on Mathematical Software},

volume = {49},

number = {3},

issue = {1},

pages = {1--31},

abstract = {We present the new software OpDiLib, a universal add-on for classical operator overloading AD tools that enables the automatic differentiation (AD) of OpenMP parallelized code. With it, we establish support for OpenMP features in a reverse mode operator overloading AD tool to an extent that was previously only reported on in source transformation tools. We achieve this with an event-based implementation ansatz that is unprecedented in AD. Combined with modern OpenMP features around OMPT, we demonstrate how it can be used to achieve differentiation without any additional modifications of the source code; neither do we impose a priori restrictions on the data access patterns, which makes OpDiLib highly applicable. For further performance optimizations, restrictions like atomic updates on adjoint variables can be lifted in a fine-grained manner. OpDiLib can also be applied in a semi-automatic fashion via a macro interface, which supports compilers that do not implement OMPT. We demonstrate the applicability of OpDiLib for a pure operator overloading approach in a hybrid parallel environment. We quantify the cost of atomic updates on adjoint variables and showcase the speedup and scaling that can be achieved with the different configurations of OpDiLib in both the forward and the reverse pass.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {The Bergen proton CT system},

author = {M. Aehle, J. Alme, G.G. Barnaföldi, T. Bodova, V. Borshchov, A. van den Brink, M. Chaar, V. Eikeland, G. Feofilov, C. Garth, N. R. Gauger, G. Genov, O. Grøttvik, H. Helstrup, S. Igolkin, R. Keidel, et al.},

url = {https://iopscience.iop.org/article/10.1088/1748-0221/18/02/C02051},

year  = {2023},

date = {2023-02-01},

urldate = {2023-02-01},

journal = {Journal of Instrumentation},

volume = {18},

number = {2},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DiGauSchmi2022,

title = {Combining Sobolev smoothing with parameterized shape optimization},

author = {T. Dick, N.R. Gauger, S. Schmidt},

url = {https://www.sciencedirect.com/science/article/abs/pii/S0045793022001839},

doi = {https://doi.org/10.1016/j.compfluid.2022.105568},

year  = {2022},

date = {2022-08-15},

urldate = {2022-08-15},

journal = {Computers & Fluids},

volume = {Vol. 244},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{BuDeGa2022,

title = {Stabilization and Acceleration of Coupled Discrete Adjoint Solvers in Multi-Disciplinary Optimization},

author = {O. Burghardt, P. Dehpanah, N.R. Gauger},

doi = {https://doi.org/10.2514/6.2022-3787},

year  = {2022},

date = {2022-06-29},

urldate = {2022-06-29},

journal = {AIAA 2022-3787},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{RaGrueGau2022ab,

title = {Scalable Hybrid Parallel ILU Preconditioner to Solve Sparse Linear Systems},

author = {R. Ram, D. Grünewald, N.R. Gauger},

url = {https://doi.org/10.1007/978-3-031-06156-1_46},

year  = {2022},

date = {2022-06-09},

urldate = {2022-06-09},

journal = {Parallel Processing Workshops. Euro-Par 2021. Lecture Notes in Computer Science, Vol. 13098. Springer, Cham},

pages = {540-544},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{RaGrueGau2022b,

title = {Hybrid Parallel ILU Preconditioner in Linear Solver Library GaspiLS},

author = {R. Ram, D. Grünewald, N.R. Gauger},

url = {https://doi.org/10.1007/978-3-031-07312-0_17},

year  = {2022},

date = {2022-05-29},

urldate = {2022-05-29},

journal = {High Performance Computing. ISC High Performance 2022. Lecture Notes in Computer Science, Vol. 13289. Springer, Cham},

pages = {334–353},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{BGKEGP22,

title = {Discrete adjoint methodology for general multiphysics problems},

author = {O. Burghardt, P. Gomes, T. Kattmann, T. Economon, N.R. Gauger, R. Palacios },

url = {https://doi.org/10.1007/s00158-021-03117-5},

year  = {2022},

date = {2022-01-06},

urldate = {2022-01-06},

journal = {Structural and Multidisciplinary Optimization},

volume = {65},

number = {28},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{BluehdornGK2022,

title = {AutoMat: automatic differentiation for generalized standard materials on GPUs},

author = {J. Blühdorn, N. R. Gauger, M. Kabel},

doi = {10.1007/s00466-021-02105-2},

year  = {2022},

date = {2022-01-03},

urldate = {2021-11-05},

journal = {Computational Mechanics},

volume = {69},

pages = {589–613},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{THHZGMG2022,

title = {Bayesian Recurrent Neural Networks for Monitoring Rotorcraft Icing from Aeroacoustics Time-Series Data},

author = {H. Tong, J. Hauth, X. Huan, B.Y. Zhou, N.R. Gauger, M. Morelli, A. Guardone},

url = {https://doi.org/10.2514/6.2022-2358},

year  = {2022},

date = {2022-01-01},

urldate = {2022-01-01},

journal = {AIAA 2022-2358},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{POeZSG2021,

title = {Application of multitask learning for enhancement of Spalart-Allmaras turbulence model},

author = {R. Pochampalli, E. Özkaya, B. Zhou, G. Suarez, N.R. Gauger},

url = {https://www.springerprofessional.de/application-of-multitask-learning-for-enhancement-of-spalart-all/19357848},

year  = {2021},

date = {2021-12-22},

journal = {Notes on Numerical Fluid Mechanics and Multidisciplinary Design},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{PoGau2021,

title = {PDE Constrained Inverse Problems arising from Turbulence Modeling},

author = {R. Pochampalli, N. R. Gauger},

url = {https://doi.org/10.1002/pamm.202100132},

doi = {10.1002/pamm.202100132},

year  = {2021},

date = {2021-12-14},

urldate = {2021-12-14},

journal = {Proc. Appl. Math. Mech.},

volume = {21},

number = {1},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{MGDLS2021,

title = {Mapping the sensitivity of the Amundsen Sea Embayment to changes in external forcings using Automatic Differentiation},

author = {M. Morlighem, D. Goldberg, T. Dias dos Santos, J. Lee, M. Sagebaum},

doi = {https://doi.org/10.1029/2021GL095440},

year  = {2021},

date = {2021-11-24},

urldate = {2021-11-24},

journal = {Geophysical Research Letters},

volume = {48},

number = {23},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{HWSGSK2021,

title = {Emulating Aerosol Microphysics with Machine Learning},

author = {P. Harder, D. Watson-Parris, D. Strassel, N.R. Gauger, P. Stier, J. Keuper},

url = {https://www.climatechange.ai/papers/icml2021/24/paper.pdf

https://arxiv.org/pdf/2109.10593.pdf },

year  = {2021},

date = {2021-09-22},

journal = {Proceedings of the 38th International Conference on Machine Learning (ICML), PMLR 139},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{SYOPG2021,

title = {Towards Turbulence Modeling Enhancement via the Correction of Boussinesq's Hypothesis-A Data-Driven Approach},

author = {G. Suarez, B.Y. Zhou, E. Özkaya, R. Pochampalli, N.R. Gauger},

url = {https://doi.org/10.2514/6.2021-3088},

year  = {2021},

date = {2021-07-28},

urldate = {2021-07-28},

journal = {AIAA 2021-3088},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{ZMDGG2021,

title = {Aeroacoustic Analysis of a Wing-Tip Mounted Propeller Configuration},

author = {B.Z. Zhou, M. Morelli, P. Dehpanah, N.R. Gauger, A. Guardone},

url = {https://doi.org/10.2514/6.2021-2224},

year  = {2021},

date = {2021-07-28},

journal = {AIAA 2021-2224},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{PAABBetal2021a,

title = {Investigating particle track topology for range telescopes in particle radiography using convolutional neural networks},

author = {H. Pettersen, M. Aehle, J. Alme, G. Barnaföldi, V. Borshchov, A. van den Brink, M. Chaar, V. Eikeland, G. Feofilov, C. Garth, N.R. Gauger, et al.},

url = {https://doi.org/10.1080/0284186X.2021.1949037},

year  = {2021},

date = {2021-07-14},

urldate = {2021-07-14},

journal = {Acta Oncologica, 1-6},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Wijaya2021,

title = {Food sharing and time budgeting in predator-prey interaction},

author = {Karunia Putra Wijaya and Joseph Páez Chávez and Rohit Pochampalli and Robert Rockenfeller and Dipo Aldila and Thomas Götz and Edy Soewono},

doi = {https://doi.org/10.1016/j.cnsns.2021.105757},

issn = {1007-5704},

year  = {2021},

date = {2021-06-15},

urldate = {2021-06-15},

journal = {Communications in Nonlinear Science and Numerical Simulation},

volume = {97},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Aerostructural wing shape optimization assisted by algorithmic differentiation},

author = {R. Bombardieri, R. Cavallaro, R. Sanchez, N.R. Gauger},

url = {https://doi.org/10.1007/s00158-021-02884-5},

year  = {2021},

date = {2021-06-02},

journal = {Structural and Multidisciplinary Optimization},

volume = {64},

pages = {739–760},

keywords = {},

pubstate = {published},

tppubtype = {article}

}