1. CrySPY>
  2. Data format
  • Table of contents

Data format

All pickle data are stored in the ./data/pkl_data/ directory. A Jupyter notebook for analyzing the pkl data (pkl_data.ipynb) is also provided.

Table of contents

  • Common data
    • Initial and optimized structure data
      • Result data
      • Random Search (RS)
        • Evolutionary algorithm (EA)
          • Bayesian Optimization (BO)
            • LAQA
              • Optional data
                • Energy step data
                  • Structure step data
                    • Force step data
                      • Stress step data
                      CrySPY
                      • Home
                      • Version information
                        • Version 1.4.0
                        • Version 1.3.0
                        • Version 1.2.5
                        • Version 1.2.4
                        • Version 1.2.3
                        • Version 1.2.2
                        • Version 1.2.1
                        • Version 1.2.0
                        • Version 1.1.1
                        • Version 1.1.0
                        • Version 1.0.0
                        • Version 0.10.3 or earlier
                      • Installation
                        • System requirements
                          • Python
                          • Structure optimizer
                          • find_wy (optional)
                        • CrySPY
                          • CrySPY 1.3.0 or later
                          • CrySPY 1.0.0 -- 1.2.5
                          • CrySPY 0.10.3 or earlier
                        • CrySPY utility (optional)
                      • Tutorial
                        • Random Search (RS)
                          • ASE on your local PC
                          • soiap on your local PC
                          • VASP
                          • QE
                          • OpenMX
                          • LAMMPS
                          • Check cryspy.in
                          • Script to run
                          • Firsrt run
                          • Submit job
                          • Check results
                          • Append structures
                          • Analysis and visualization
                        • Evolutionary Algorithm (EA)
                          • ASE on your local PC
                          • Create next generation
                          • Check results
                          • Analysis and visualization
                        • Variable-composition evolutionary algorithm (EA-vc)
                          • ASE on your local PC (Cu-Ag-Au)
                          • ASE-CHGNet(Cu-Au)
                          • Create next generation
                          • Check results
                          • Analysis and visualization
                        • Bayesian Optimization (BO)
                        • LAQA
                        • Molecular crystal structure prediction
                        • Random structure generation with MPI
                        • Interactive mode (Jupyter Notebook)
                      • Interface
                      • Search algorithms
                        • Random search (RS)
                        • Evolutionary algorithm (EA)
                          • Crossover
                          • Permutation
                          • Strain
                          • Tournament selection
                          • Roulette selection
                        • Variable-composition evolutionary algorithm (EA-vc)
                          • Crossover (vc)
                          • Addition
                          • Elimination
                          • Substitution
                        • Bayesian optimizaion (BO)
                        • LAQA
                      • Structure generation
                        • struc_mode = crystal
                        • struc_mode = mol
                        • struc_mode = mol_bs
                      • Features
                        • Logging
                        • Backup
                        • Clean
                        • Restriction on interatomic distances
                        • CrySPY_ID in job files
                        • Structure generation with MPI parallelization
                        • Enthalpy
                        • As library
                        • Interactive mode
                      • Input file
                        • File format
                        • [basic] section
                        • [structure] section
                        • [VASP] section
                        • [QE] section
                        • [OMX] section
                        • [soaip] section
                        • [LAMMPS] section
                        • [ASE] section
                        • [EA] section
                        • [BO] section
                        • [LAQA] section
                        • [option] section
                        • Kpoint
                      • Data format
                        • Common data
                          • Initial and optimized structure data
                          • Result data
                        • Random Search (RS)
                        • Evolutionary algorithm (EA)
                        • Bayesian Optimization (BO)
                        • LAQA
                        • Optional data
                          • Energy step data
                          • Structure step data
                          • Force step data
                          • Stress step data
                      • CrySPY utility
                        • repeat_cryspy
                        • extract_struc.py
                        • print_pkl.py
                        • pos2pkl.py
                        • kpt_check.py
                      • FAQ
                        • Can I change njob in the middle of the simulation?
                      • Logo
                      Link
                      • GitHub repo
                      • GitHub discussions
                      • CrySPY utility

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