⚠️ This in a personal github page which contains my own version of NiftySim v.2.5.0. Note that this software is out to date from 2017. The only reason to preserve this version is to compare and test newest results with previous approaches

Currently, NiftySim can be executed using old versions of the libraries. In particular, CUDA 11.7, cmake, 3.12.0, and vtk 8.2.0, to my knowledge. Therefore, we use Docker to run the software.

Check Dockerfile!!

⚠️ Some points to take into account when building and running this docker image:

Use GPUS capabilities Give a name to your container

NIFTY SIM

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ABOUT

Nifty Sim is a high-performance nonlinear explicit finite element solver, developed for use in surgical simulation and medical imaging applications. A key feature is the option of GPU-based execution, which allows the solver to significantly out -perform equivalent commercial packages. The package was developed at University College London, and is based on work presented in Taylor et al.[1-3]. The main algorithm and its GPU implementation was described in [1,2]. The newer reduced order modelling components were described in [3]. We would appreciate it if you would cite the relevant papers if you use Nifty Sim in your work.

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BUILDING AND RUNNING

Please refer to the user guide in the docs folder.

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LICENSE

Copyright (c) 2009, University College London, United Kingdom All rights reserved.

Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met:

Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.

Neither the name of the University College London nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

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CONTACT

Please send comments to Zeike Taylor ([email protected]) or Stian Johnsen ([email protected])

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REFERENCES

[1] Taylor, ZA, Cheng, M, Ourselin, S (2008): High-speed nonlinear finite element analysis for surgical simulation using graphics processing units. IEEE Transactions on Medical Imaging, 27(5), 650-663. [2] Taylor, ZA, Comas, O, Cheng, M, Passenger, J, Hawkes, DJ, Atkinson, D, Ourselin, S (2009): On modelling of anisotropic viscoelasticity for soft tissue simulation: numerical solution and GPU execution. Medical Image Analysis, 13(2), 234-244. [3] Taylor, ZA, Crozier, S, Ourselin, S (2010): Real-time surgical simulation using reduced order finite element analysis. 13th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI2010), Beijing, Part II, 388-395. [4] Johnsen, SF, Taylor, ZA, Clarkson, MJ, Hipwell, J, Modat, M, Eiben, B, Han, L, Hu, Y Mertzanidou, T, Hawkes, DJ, Ourselin, S (2014): NiftySim: A GPU-based nonlinear finite element package for simulation of soft-tissue biomechanics. International Journal of Computer Assisted Radiology and Surgery. DOI: 10.1007/s11548-014-1118-5 [5] Johnsen, SF, Taylor, ZA, Han, L, Hu, Y, Clarkson, MJ, Hawkes, DJ, Ourselin, S (2015): Detection and modelling of contacts in explicit finite-element simulation of soft tissue biomechanics. Journal of Computer Assisted Radiology and Surgery. DOI: 10.1007/s11548-014-1142-5