irradiapy package

Subpackages

• irradiapy.analysis package
  • Submodules
    • irradiapy.analysis.analysisdb module
      • AnalysisDB
    • irradiapy.analysis.clusters module
      • atom_to_object()
      • cluster_size_scaling_law()
      • cluster_size_scaling_law_plot()
      • clusterize_atoms()
      • clusterize_file()
      • depth_cluster_sizes_plot()
      • depth_clustering_fraction_hist()
      • depth_clustering_fraction_hist_plot()
    • irradiapy.analysis.debris module
      • generate_debris()
    • irradiapy.analysis.debrismanager module
      • DebrisManager
    • irradiapy.analysis.defects module
      • identify_defects()
      • identify_lammps_dump()
    • irradiapy.analysis.defectsidentifier module
      • DefectsIdentifier
    • irradiapy.analysis.dpa module
      • depth_dpa_hist()
      • depth_dpa_hist_plot()
      • dpa()
    • irradiapy.analysis.recoils module
      • depth_injected_ions_hist()
      • depth_injected_ions_hist_plot()
      • depth_recoil_energy_hist_plot()
      • recoil_energies_hist()
      • recoil_energies_hist_plot()
      • recoils_distances_hist_plot()
  • Module contents
• irradiapy.io package
  • Submodules
    • irradiapy.io.bzip2lammpsreader module
      • BZIP2LAMMPSReader
    • irradiapy.io.bzip2lammpsreadermpi module
      • BZIP2LAMMPSReaderMPI
    • irradiapy.io.bzip2lammpswriter module
      • BZIP2LAMMPSWriter
    • irradiapy.io.bzip2lammpswritermpi module
      • BZIP2LAMMPSWriterMPI
    • irradiapy.io.lammpslogreader module
      • LAMMPSLogReader
    • irradiapy.io.lammpsreader module
      • LAMMPSReader
    • irradiapy.io.lammpsreadermpi module
      • LAMMPSReaderMPI
    • irradiapy.io.lammpswriter module
      • LAMMPSWriter
    • irradiapy.io.lammpswritermpi module
      • LAMMPSWriterMPI
    • irradiapy.io.xyzreader module
      • XYZReader
    • irradiapy.io.xyzwriter module
      • XYZWriter
  • Module contents
    • BZIP2LAMMPSReader
      • BZIP2LAMMPSReader.close()
      • BZIP2LAMMPSReader.encoding
      • BZIP2LAMMPSReader.file_path
    • BZIP2LAMMPSReaderMPI
      • BZIP2LAMMPSReaderMPI.close()
      • BZIP2LAMMPSReaderMPI.comm
      • BZIP2LAMMPSReaderMPI.encoding
      • BZIP2LAMMPSReaderMPI.file_path
      • BZIP2LAMMPSReaderMPI.parallelization
    • BZIP2LAMMPSWriter
      • BZIP2LAMMPSWriter.close()
      • BZIP2LAMMPSWriter.compresslevel
      • BZIP2LAMMPSWriter.encoding
      • BZIP2LAMMPSWriter.excluded_items
      • BZIP2LAMMPSWriter.file_path
      • BZIP2LAMMPSWriter.float_format
      • BZIP2LAMMPSWriter.int_format
      • BZIP2LAMMPSWriter.mode
      • BZIP2LAMMPSWriter.newline
      • BZIP2LAMMPSWriter.write()
    • BZIP2LAMMPSWriterMPI
      • BZIP2LAMMPSWriterMPI.close()
      • BZIP2LAMMPSWriterMPI.comm
      • BZIP2LAMMPSWriterMPI.compresslevel
      • BZIP2LAMMPSWriterMPI.encoding
      • BZIP2LAMMPSWriterMPI.excluded_items
      • BZIP2LAMMPSWriterMPI.file_path
      • BZIP2LAMMPSWriterMPI.float_format
      • BZIP2LAMMPSWriterMPI.int_format
      • BZIP2LAMMPSWriterMPI.mode
      • BZIP2LAMMPSWriterMPI.write()
    • LAMMPSLogReader
      • LAMMPSLogReader.data
      • LAMMPSLogReader.get_pka_data()
      • LAMMPSLogReader.log_path
      • LAMMPSLogReader.thermo
    • LAMMPSReader
      • LAMMPSReader.close()
      • LAMMPSReader.encoding
      • LAMMPSReader.file_path
    • LAMMPSReaderMPI
      • LAMMPSReaderMPI.close()
      • LAMMPSReaderMPI.comm
      • LAMMPSReaderMPI.encoding
      • LAMMPSReaderMPI.file_path
    • LAMMPSWriter
      • LAMMPSWriter.close()
      • LAMMPSWriter.encoding
      • LAMMPSWriter.excluded_items
      • LAMMPSWriter.file_path
      • LAMMPSWriter.float_format
      • LAMMPSWriter.int_format
      • LAMMPSWriter.mode
      • LAMMPSWriter.newline
      • LAMMPSWriter.write()
    • LAMMPSWriterMPI
      • LAMMPSWriterMPI.close()
      • LAMMPSWriterMPI.comm
      • LAMMPSWriterMPI.encoding
      • LAMMPSWriterMPI.excluded_items
      • LAMMPSWriterMPI.file_path
      • LAMMPSWriterMPI.float_format
      • LAMMPSWriterMPI.int_format
      • LAMMPSWriterMPI.mode
      • LAMMPSWriterMPI.newline
      • LAMMPSWriterMPI.write()
    • XYZReader
      • XYZReader.dtype
      • XYZReader.encoding
      • XYZReader.file
      • XYZReader.file_path
    • XYZWriter
      • XYZWriter.close()
      • XYZWriter.encoding
      • XYZWriter.file
      • XYZWriter.file_path
      • XYZWriter.float_format
      • XYZWriter.int_format
      • XYZWriter.mode
      • XYZWriter.write()
• irradiapy.lammps package
  • Subpackages
    • irradiapy.lammps.commands package
      • Submodules
      • Module contents
  • Submodules
    • irradiapy.lammps.cascade module
      • Cascade
    • irradiapy.lammps.cascadebase module
      • CascadeBase
    • irradiapy.lammps.utils module
      • LAMMPSUnavailableError
      • get_properties_from_group()
      • load_lammps_class()
  • Module contents
• irradiapy.materials package
  • Submodules
    • irradiapy.materials.component module
      • Component
    • irradiapy.materials.element module
      • Element
  • Module contents
• irradiapy.spectrapka package
  • Submodules
    • irradiapy.spectrapka.matrices module
      • plot_all()
      • read()
    • irradiapy.spectrapka.spectra2srim module
      • Spectra2SRIM
  • Module contents
• irradiapy.srim package
  • Submodules
    • irradiapy.srim.backscat module
      • Backscat
    • irradiapy.srim.collision module
      • Collision
    • irradiapy.srim.e2recoil module
      • E2Recoil
    • irradiapy.srim.ioniz module
      • Ioniz
    • irradiapy.srim.lateral module
      • Lateral
    • irradiapy.srim.novac module
      • Novac
    • irradiapy.srim.phonon module
      • Phonon
    • irradiapy.srim.py2srim module
      • Py2SRIM
    • irradiapy.srim.range module
      • Range
    • irradiapy.srim.range3d module
      • Range3D
    • irradiapy.srim.sputter module
      • Sputter
    • irradiapy.srim.srimdb module
      • SRIMDB
    • irradiapy.srim.srimfile module
      • SRIMFile
    • irradiapy.srim.transmit module
      • Transmit
    • irradiapy.srim.trimdat module
      • Trimdat
    • irradiapy.srim.vacancy module
      • Vacancy
  • Module contents
• irradiapy.utils package
  • Submodules
    • irradiapy.utils.io module
      • apply_boundary_conditions_to_lammps()
      • compress_file_bz2()
      • decompress_file_bz2()
      • get_last_reader()
      • lammps_to_mmonca()
      • merge_lammps_snapshots()
    • irradiapy.utils.math module
      • apply_boundary_conditions()
      • fit_gaussian()
      • fit_linear()
      • fit_lorentzian()
      • fit_offset_power_law()
      • fit_power_law()
      • gaussian()
      • linear()
      • lorentzian()
      • offset_power_law()
      • power_law()
      • recombine_in_radius()
      • repeated_prime_factors()
    • irradiapy.utils.mpi module
      • MPIExceptionHandlerMixin
      • MPITagAllocator
      • ap_rm_file()
      • broadcast_variables()
      • cp_file()
      • mpi_safe_method()
      • mpi_subdomains_decomposition()
      • mv_file()
      • rm_file()
    • irradiapy.utils.sqlite module
      • delete_all_arrays()
      • delete_array()
      • insert_array()
      • read_array()
  • Module contents

Submodules

• irradiapy.config module
  • ENCODING
  • EXCLUDED_ITEMS
  • FLOAT_FORMAT
  • INT_FORMAT
  • NEWLINE
  • clear_debris_database()
  • clear_srim_dir()
  • get_debris_database()
  • get_srim_dir()
  • set_debris_database()
  • set_srim_dir()
  • use_style()
• irradiapy.database module
  • Database
    • Database.optimize()
    • Database.path
    • Database.read()
    • Database.read_chunk()
    • Database.read_numpy()
    • Database.table_exists()
    • Database.table_has_column()
• irradiapy.debris_database module
  • DebrisDatabase
    • DebrisDatabase.contributors
    • DebrisDatabase.datasets
    • DebrisDatabase.doi
    • DebrisDatabase.electronic_interactions
    • DebrisDatabase.has_matches()
    • DebrisDatabase.interatomic_potentials
    • DebrisDatabase.lattice
    • DebrisDatabase.matching_datasets()
    • DebrisDatabase.matching_files_by_energy()
    • DebrisDatabase.root
    • DebrisDatabase.target
• irradiapy.debris_dataset module
  • DebrisDataset
    • DebrisDataset.contributors
    • DebrisDataset.doi
    • DebrisDataset.electronic_interactions
    • DebrisDataset.files_by_energy
    • DebrisDataset.interatomic_potentials
    • DebrisDataset.lattice
    • DebrisDataset.matches()
    • DebrisDataset.max_energy
    • DebrisDataset.path
    • DebrisDataset.recoil
    • DebrisDataset.target
    • DebrisDataset.target_matches_component()
    • DebrisDataset.target_matches_metadata()
• irradiapy.dtypes module
• irradiapy.enums module
  • CustomEnum
    • CustomEnum.from_int()
    • CustomEnum.to_int()
  • DamageEnergyMode
    • DamageEnergyMode.LINDHARD
    • DamageEnergyMode.SRIM
  • DisplacementMode
    • DisplacementMode.ARC
    • DisplacementMode.FERARC
    • DisplacementMode.NRT
  • Phases
    • Phases.GAS
    • Phases.LIQUID
    • Phases.SOLID
• irradiapy.recoilsdb module
  • RecoilsDB
    • RecoilsDB.create_tables()
    • RecoilsDB.get_nevents()
    • RecoilsDB.get_nrecoils()
    • RecoilsDB.insert_ion_vac()
    • RecoilsDB.insert_recoil()
    • RecoilsDB.load_target()
    • RecoilsDB.process_config_events()
    • RecoilsDB.save_target()
    • RecoilsDB.target

Module contents

irradiapy package