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Extending and Modifying LAMMPS Writing Your Own Source Code

You're reading from   Extending and Modifying LAMMPS Writing Your Own Source Code A pragmatic guide to extending LAMMPS as per custom simulation requirements

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Product type Paperback
Published in Feb 2021
Publisher Packt
ISBN-13 9781800562264
Length 394 pages
Edition 1st Edition
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Authors (2):
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Jichen Li Jichen Li
Author Profile Icon Jichen Li
Jichen Li
Dr. Shafat Mubin Dr. Shafat Mubin
Author Profile Icon Dr. Shafat Mubin
Dr. Shafat Mubin
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Toc

Table of Contents (21) Chapters Close

Preface 1. Section 1: Getting Started with LAMMPS
2. Chapter 1: MD Theory and Simulation Practices FREE CHAPTER 3. Chapter 2: LAMMPS Syntax and Source Code Hierarchy 4. Section 2: Understanding the Source Code Structure
5. Chapter 3: Source Code Structure and Stages of Execution 6. Chapter 4: Accessing Information by Variables, Arrays, and Methods 7. Chapter 5: Understanding Pair Styles 8. Chapter 6: Understanding Computes 9. Chapter 7: Understanding Fixes 10. Chapter 8: Exploring Supporting Classes 11. Section 3: Modifying the Source Code
12. Chapter 9: Modifying Pair Potentials 13. Chapter 10: Modifying Force Applications 14. Chapter 11: Modifying Thermostats 15. Assessments 16. Other Books You May Enjoy Appendix A: Building LAMMPS with CMake 1. Appendix B: Debugging Programs 2. Appendix C: Getting Familiar with MPI 3. Appendix D: Compatibility with Version 29Oct20

Chapter 9: Modifying Pair Potentials

In the previous chapters, we discussed various classes that implement MD features and LAMMPS tools, such as pair styles, fixes, computes, variables, and groups. From this chapter onward, we will write custom features into LAMMPS, starting with custom pair potentials.

In this chapter, we will construct custom pair potentials to describe the process of writing and incorporating them in a LAMMPS input script. In the process, we will use the content covered in the previous chapters to program LAMMPS according to our requirements.

We will cover the following pair potentials in this chapter:

  • Writing a harmonic potential
  • Writing a height-dependent pair potential
  • Writing a tangential friction-based pair style for spherical atoms

By the end of this chapter, you will have learned how to write your own pair styles and how to connect information from previous chapters to custom pair styles.

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