pyiron
pyiron-0.3.23
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A
add_band() (pyiron.dft.waves.electronic.Kpoint method)
add_element() (pyiron.atomistics.structure.periodic_table.PeriodicTable method)
add_high_symmetry_path() (pyiron.atomistics.structure.atoms.Atoms method)
add_high_symmetry_points() (pyiron.atomistics.structure.atoms.Atoms method)
add_kpoint() (pyiron.dft.waves.electronic.ElectronicStructure method)
add_new_element() (pyiron.sphinx.potential.SphinxJTHPotentialFile method)
(pyiron.vasp.potential.VaspPotentialFile method)
add_tag() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.sparse_list.SparseArray method)
add_tags() (pyiron.atomistics.structure.periodic_table.ChemicalElement method)
allow_ragged() (pyiron.atomistics.structure.neighbors.Tree property)
Analyse (class in pyiron.atomistics.structure.analyse)
analyse() (pyiron.atomistics.structure.atoms.Atoms property)
analyse_centro_symmetry() (in module pyiron.atomistics.structure.pyscal)
analyse_cna_adaptive() (in module pyiron.atomistics.structure.pyscal)
analyse_diamond_structure() (in module pyiron.atomistics.structure.pyscal)
analyse_minimized_structure() (in module pyiron.thermodynamics.interfacemethod)
analyse_ovito_centro_symmetry() (pyiron.atomistics.structure.atoms.Atoms method)
analyse_ovito_cna_adaptive() (pyiron.atomistics.structure.atoms.Atoms method)
analyse_ovito_voronoi_volume() (pyiron.atomistics.structure.atoms.Atoms method)
analyse_phonopy_equivalent_atoms() (in module pyiron.atomistics.structure.phonopy)
(pyiron.atomistics.structure.atoms.Atoms method)
analyse_pyscal_centro_symmetry() (pyiron.atomistics.structure.atoms.Atoms method)
analyse_pyscal_cna_adaptive() (pyiron.atomistics.structure.atoms.Atoms method)
analyse_pyscal_diamond_structure() (pyiron.atomistics.structure.atoms.Atoms method)
analyse_pyscal_steinhardt_parameter() (pyiron.atomistics.structure.atoms.Atoms method)
analyse_pyscal_voronoi_volume() (pyiron.atomistics.structure.atoms.Atoms method)
analyse_structure() (in module pyiron.thermodynamics.interfacemethod)
analyse_voronoi_volume() (in module pyiron.atomistics.structure.pyscal)
animate_nma_mode() (pyiron.atomistics.nma.nma.NMA method)
animate_structure() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
append() (pyiron.atomistics.job.structurecontainer.StructureContainer method)
(pyiron.atomistics.structure.atoms.Atoms method)
append_charge_density() (pyiron.vasp.base.VaspBase method)
append_eigenvalues() (pyiron.dft.waves.bandstructure.Bandstructure method)
append_wave_function() (pyiron.vasp.base.VaspBase method)
apply_strain() (pyiron.atomistics.structure.atoms.Atoms method)
ART (class in pyiron.interactive.activation_relaxation_technique)
art() (pyiron.interactive.activation_relaxation_technique.ART property)
ARTInteractive (class in pyiron.interactive.activation_relaxation_technique)
ARTIntOutput (class in pyiron.interactive.activation_relaxation_technique)
ase_bulk() (pyiron.atomistics.structure.factory.StructureFactory static method)
ase_calculator_fromdict() (in module pyiron.gpaw.pyiron_ase)
ase_read() (pyiron.atomistics.structure.factory.StructureFactory method)
ase_structure_fromdict() (in module pyiron.gpaw.pyiron_ase)
ase_structure_todict() (in module pyiron.gpaw.pyiron_ase)
ase_to_pyiron() (in module pyiron.atomistics.structure.atom)
(in module pyiron.atomistics.structure.atoms)
AseAdapter (class in pyiron.gpaw.pyiron_ase)
AseJob (class in pyiron.gpaw.pyiron_ase)
Atom (class in pyiron.atomistics.structure.atom)
atomic_number_to_abbreviation() (pyiron.atomistics.structure.periodic_table.PeriodicTable method)
AtomisticExampleJob (class in pyiron.testing.randomatomistic)
AtomisticGenericJob (class in pyiron.atomistics.job.atomistic)
AtomisticParallelMaster (class in pyiron.atomistics.master.parallel)
Atoms (class in pyiron.atomistics.structure.atoms)
atoms (pyiron.atomistics.structure.atom.Atom attribute)
atoms() (pyiron.atomistics.structure.factory.StructureFactory static method)
(pyiron.atomistics.volumetric.generic.VolumetricData property)
atoms_from_string() (in module pyiron.vasp.structure)
atoms_to_phonopy() (in module pyiron.atomistics.master.phonopy)
B
Band (class in pyiron.dft.waves.electronic)
BandPath (class in pyiron.dft.waves.bandstructure)
bands (pyiron.dft.waves.electronic.Kpoint attribute)
bands() (pyiron.vasp.base.GenericOutput property)
Bandstructure (class in pyiron.dft.waves.bandstructure)
birch() (in module pyiron.atomistics.master.murnaghan)
(pyiron.atomistics.master.murnaghan.EnergyVolumeFit static method)
birchmurnaghan_energy() (in module pyiron.atomistics.master.murnaghan)
(pyiron.atomistics.master.murnaghan.EnergyVolumeFit static method)
bond_dict() (pyiron.lammps.base.LammpsBase property)
bsse_to_pandas() (pyiron.gaussian.gaussian.Gaussian method)
C
calc_elastic_tensor() (in module pyiron.atomistics.master.elastic)
calc_md() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.gaussian.gaussian.Gaussian method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.lammps.control.LammpsControl method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
(pyiron.vasp.interactive.VaspInteractive method)
(pyiron.yaff.yaff.Yaff method)
calc_minimize() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.gaussian.gaussian.Gaussian method)
(pyiron.interactive.scipy_minimizer.ScipyMinimizer method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.lammps.control.LammpsControl method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.vasp.base.VaspBase method)
(pyiron.vasp.interactive.VaspInteractive method)
(pyiron.yaff.yaff.Yaff method)
calc_static() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.gaussian.gaussian.Gaussian method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.lammps.control.LammpsControl method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.vasp.base.VaspBase method)
(pyiron.yaff.yaff.Yaff method)
calc_temp_iteration() (in module pyiron.thermodynamics.interfacemethod)
calc_v0_from_fit_funct() (in module pyiron.atomistics.master.quasi)
calc_vcsgc() (pyiron.lammps.base.LammpsBase method)
(pyiron.lammps.control.LammpsControl method)
calculate_forces() (pyiron.thermodynamics.hessian.HessianJob method)
cbm() (pyiron.dft.waves.electronic.ElectronicStructure property)
cells() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
center_coordinates_in_unit_cell() (pyiron.atomistics.structure.atoms.Atoms method)
charge_density (pyiron.vasp.base.Output attribute)
(pyiron.vasp.interactive.Output attribute)
check_band_occupancy() (pyiron.sphinx.interactive.SphinxOutput method)
check_consistency() (pyiron.atomistics.structure.sparse_list.SparseArray method)
check_convergence() (pyiron.interactive.scipy_minimizer.ScipyMinimizer method)
check_diamond() (in module pyiron.thermodynamics.interfacemethod)
check_for_holes() (in module pyiron.thermodynamics.interfacemethod)
check_setup() (pyiron.sphinx.base.SphinxBase method)
check_vasp_potentials() (pyiron.sphinx.base.SphinxBase static method)
ChemicalElement (class in pyiron.atomistics.structure.periodic_table)
child_id_lst() (pyiron.thermodynamics.sxphonons.SxDynMat property)
child_lst() (pyiron.thermodynamics.sxphonons.SxDynMat property)
clean_character() (in module pyiron.vasp.vasprun)
clean_key() (in module pyiron.vasp.vasprun)
cleanup() (pyiron.vasp.base.VaspBase method)
close() (pyiron.atomistics.structure.atoms.Atoms method)
cluster_analysis() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.neighbors.Neighbors method)
cluster_by_distances() (pyiron.atomistics.structure.neighbors.Neighbors method)
cluster_by_vecs() (pyiron.atomistics.structure.neighbors.Neighbors method)
collect() (pyiron.sphinx.base.Output method)
(pyiron.vasp.base.Output method)
(pyiron.vasp.metadyn.MetadynOutput method)
collect_charge_density() (pyiron.sphinx.base.Output method)
collect_dump_file() (pyiron.lammps.base.LammpsBase method)
collect_electrostatic_potential() (pyiron.sphinx.base.Output method)
collect_energy_dat() (pyiron.sphinx.base.Output method)
collect_energy_struct() (pyiron.sphinx.base.Output method)
collect_eps_dat() (pyiron.sphinx.base.Output method)
collect_errors() (pyiron.lammps.base.LammpsBase method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
collect_h5md_file() (pyiron.lammps.base.LammpsBase method)
collect_logfiles() (pyiron.lammps.base.LammpsBase method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.thermodynamics.sxphonons.SxDynMat method)
(pyiron.vasp.base.VaspBase method)
collect_output() (in module pyiron.gaussian.gaussian)
(in module pyiron.quickff.quickff)
(in module pyiron.yaff.yaff)
(pyiron.atomistics.job.structurecontainer.StructureContainer method)
(pyiron.atomistics.master.elastic.ElasticTensor method)
(pyiron.atomistics.master.murnaghan.Murnaghan method)
(pyiron.atomistics.master.parallel.MapMaster method)
(pyiron.atomistics.master.phonopy.PhonopyJob method)
(pyiron.atomistics.master.quasi.QuasiHarmonicJob method)
(pyiron.atomistics.master.sqsmaster.SQSMaster method)
(pyiron.atomistics.master.structure.StructureListMaster method)
(pyiron.dft.master.convergence_encut_parallel.ConvEncutParallel method)
(pyiron.dft.master.convergence_kpoint_parallel.ConvKpointParallel method)
(pyiron.gaussian.gaussian.Gaussian method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.interactive.scipy_minimizer.ScipyMinimizer method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.quickff.quickff.QuickFF method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.thermodynamics.sxphonons.SxDynMat method)
(pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
(pyiron.thermodynamics.sxphonons.SxPhonons method)
(pyiron.thermodynamics.sxphonons.SxUniqDispl method)
(pyiron.vasp.base.VaspBase method)
(pyiron.yaff.yaff.Yaff method)
collect_output_log() (pyiron.lammps.base.LammpsBase method)
(pyiron.testing.randomatomistic.ExampleJob method)
collect_relaxed_hist() (pyiron.sphinx.base.Output method)
collect_residue_dat() (pyiron.sphinx.base.Output method)
collect_sphinx_log() (pyiron.sphinx.base.Output method)
collect_spins_dat() (pyiron.sphinx.base.Output method)
collect_warnings() (pyiron.sphinx.base.SphinxBase method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.vasp.base.VaspBase method)
communicator() (pyiron.gpaw.pyiron_ase.AseAdapter property)
compress() (pyiron.lammps.base.LammpsBase method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
computation_time() (pyiron.atomistics.job.atomistic.GenericOutput property)
continue_with_final_structure() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
continue_with_restart_files() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
contour_entropy() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
contour_pressure() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
ConvEncutParallel (class in pyiron.dft.master.convergence_encut_parallel)
ConvEncutSerial (class in pyiron.dft.master.convergence_encut_serial)
converged() (pyiron.interactive.sxextoptint.SxExtOpt property)
convergence_check() (pyiron.interactive.sxextoptint.SxExtOptInteractive method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
convergence_goal() (in module pyiron.atomistics.master.convergence_volume)
(in module pyiron.dft.master.convergence_encut_serial)
ConvergenceVolume (class in pyiron.atomistics.master.convergence_volume)
convert_element() (pyiron.atomistics.structure.atoms.Atoms method)
convert_formula() (pyiron.atomistics.structure.atoms.Atoms static method)
ConvKpointParallel (class in pyiron.dft.master.convergence_kpoint_parallel)
copy() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.neighbors.Tree method)
(pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
(pyiron.project.Project method)
copy_hamiltonian() (pyiron.vasp.base.VaspBase method)
copy_pot_files() (pyiron.lammps.potential.LammpsPotential method)
copy_potentials() (pyiron.sphinx.base.InputWriter method)
copy_to() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
create_ase_bulk() (pyiron.project.Project method)
create_atoms() (pyiron.project.Project method)
create_element() (pyiron.project.Project method)
create_job() (pyiron.project.Project method)
create_job_template() (in module pyiron.thermodynamics.interfacemethod)
create_line_mode_structure() (pyiron.atomistics.structure.atoms.Atoms method)
create_next() (pyiron.atomistics.master.convergence_volume.ConvergenceVolume method)
(pyiron.dft.master.convergence_encut_serial.ConvEncutSerial method)
create_object() (pyiron.project.Project static method)
create_pipeline() (pyiron.project.Project method)
create_structure() (pyiron.project.Project method)
create_surface() (pyiron.project.Project method)
Creator (class in pyiron.project)
crystal() (pyiron.atomistics.structure.factory.StructureFactory static method)
CrystalStructure (class in pyiron.atomistics.structure.atoms)
current_structure() (pyiron.atomistics.job.interactive.GenericInteractive property)
cutoff_radius() (pyiron.lammps.base.LammpsBase property)
cylindrical_average_potential() (pyiron.atomistics.volumetric.generic.VolumetricData method)
D
data (pyiron.atomistics.structure.atom.Atom attribute)
dataset() (pyiron.lammps.control.LammpsControl property)
db_entry() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.atomistics.job.interactivewrapper.InteractiveWrapper method)
(pyiron.atomistics.job.sqs.SQSJob method)
debye_function() (in module pyiron.atomistics.master.murnaghan)
debye_integral() (in module pyiron.atomistics.master.murnaghan)
debye_temperature() (pyiron.atomistics.master.murnaghan.DebyeModel property)
DebyeModel (class in pyiron.atomistics.master.murnaghan)
default() (in module pyiron.atomistics.structure.atoms)
(pyiron.lammps.potential.LammpsPotentialFile method)
(pyiron.vasp.potential.VaspPotentialAbstract method)
define_bonds() (pyiron.lammps.base.LammpsBase method)
detect_ffatypes() (pyiron.quickff.quickff.QuickFF method)
(pyiron.yaff.yaff.Yaff method)
df() (pyiron.lammps.potential.LammpsPotential property)
DFTOutput (class in pyiron.vasp.base)
(class in pyiron.vasp.interactive)
diff_data() (pyiron.sphinx.volumetric_data.SphinxVolumetricData property)
(pyiron.vasp.volumetric_data.VaspVolumetricData property)
displacements() (pyiron.atomistics.job.atomistic.GenericOutput property)
dist_between_two_grid_points() (pyiron.atomistics.volumetric.generic.VolumetricData static method)
dist_between_two_grid_points_cyl() (pyiron.atomistics.volumetric.generic.VolumetricData static method)
Dos (class in pyiron.dft.waves.dos)
dos_densities() (pyiron.dft.waves.electronic.ElectronicStructure property)
dos_energies() (pyiron.atomistics.master.phonopy.PhonopyJob property)
(pyiron.dft.waves.electronic.ElectronicStructure property)
dos_idensities() (pyiron.dft.waves.electronic.ElectronicStructure property)
dos_total() (pyiron.atomistics.master.phonopy.PhonopyJob property)
dynamical_matrix() (pyiron.atomistics.master.phonopy.PhonopyJob property)
dynamical_matrix_at_q() (pyiron.atomistics.master.phonopy.PhonopyJob method)
E
efermi() (pyiron.dft.waves.electronic.ElectronicStructure property)
eg() (pyiron.dft.waves.electronic.ElectronicStructure property)
eig_occ_matrix (pyiron.dft.waves.electronic.Kpoint attribute)
eig_occ_matrix() (pyiron.dft.waves.electronic.Kpoint property)
eigenvalue() (pyiron.dft.waves.electronic.Band property)
eigenvalue_matrix() (pyiron.dft.waves.electronic.ElectronicStructure property)
eigenvalues() (pyiron.dft.waves.electronic.ElectronicStructure property)
el_eam_lst() (pyiron.lammps.structure.LammpsStructure property)
ElasticTensor (class in pyiron.atomistics.master.elastic)
electronic_structure (pyiron.vasp.base.Output attribute)
(pyiron.vasp.interactive.Output attribute)
ElectronicStructure (class in pyiron.dft.waves.electronic)
electrostatic_potential (pyiron.vasp.base.Output attribute)
(pyiron.vasp.interactive.Output attribute)
element() (pyiron.atomistics.structure.factory.StructureFactory static method)
(pyiron.atomistics.structure.periodic_table.PeriodicTable method)
elements() (pyiron.atomistics.structure.atoms.Atoms property)
enable_h5md() (pyiron.lammps.base.LammpsBase method)
encut() (pyiron.dft.job.generic.GenericDFTJob property)
EncutConvergenceJobGenerator (class in pyiron.dft.master.convergence_encut_parallel)
end() (pyiron.interactive.sxextoptint.SxExtOpt method)
energies() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk property)
energy_lst() (pyiron.atomistics.master.murnaghan.EnergyVolumeFit property)
energy_pot() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
energy_pot_per_atom() (pyiron.lammps.control.LammpsControl method)
energy_tot() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
energy_vib() (pyiron.atomistics.master.murnaghan.DebyeModel method)
EnergyVolumeFit (class in pyiron.atomistics.master.murnaghan)
entropy() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk property)
equilibrium_energy() (pyiron.atomistics.master.murnaghan.Murnaghan property)
equilibrium_volume() (pyiron.atomistics.master.murnaghan.Murnaghan property)
eV_to_J_per_mol (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk attribute)
ExampleExecutable (class in pyiron.testing.executable)
ExampleInput (class in pyiron.testing.randomatomistic)
ExampleJob (class in pyiron.testing.randomatomistic)
exchange_correlation_functional() (pyiron.dft.job.generic.GenericDFTJob property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.vasp.base.VaspBase property)
extend() (pyiron.atomistics.structure.atoms.Atoms method)
extract_structure() (pyiron.thermodynamics.sxphonons.SxUniqDispl method)
F
f2qdec() (pyiron.lammps.structure.UnfoldingPrism method)
f2s() (pyiron.lammps.structure.UnfoldingPrism method)
fchk2dict() (in module pyiron.gaussian.gaussian)
files() (pyiron.lammps.potential.LammpsPotential property)
find() (pyiron.atomistics.job.potentials.PotentialAbstract method)
(pyiron.vasp.potential.VaspPotentialAbstract method)
find_by_name() (pyiron.atomistics.job.potentials.PotentialAbstract method)
find_default() (pyiron.lammps.potential.LammpsPotentialFile method)
(pyiron.vasp.potential.VaspPotentialAbstract method)
find_mic() (pyiron.atomistics.structure.atoms.Atoms method)
find_neighbors_by_vector() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.neighbors.Neighbors method)
find_potential_file() (in module pyiron.sphinx.potential)
(in module pyiron.vasp.potential)
find_potential_file_base() (in module pyiron.atomistics.job.potentials)
fit() (pyiron.atomistics.master.murnaghan.Murnaghan property)
fit_birch_murnaghan() (pyiron.atomistics.master.murnaghan.Murnaghan method)
fit_dict() (pyiron.atomistics.master.murnaghan.EnergyVolumeFit property)
fit_energy() (pyiron.atomistics.master.murnaghan.EnergyVolumeFit method)
fit_eos_general() (pyiron.atomistics.master.murnaghan.EnergyVolumeFit method)
fit_eos_general_intern() (pyiron.atomistics.master.murnaghan.EnergyVolumeFit method)
fit_leastsq() (in module pyiron.atomistics.master.murnaghan)
fit_murnaghan() (pyiron.atomistics.master.murnaghan.Murnaghan method)
fit_polynomial() (pyiron.atomistics.master.murnaghan.EnergyVolumeFit method)
(pyiron.atomistics.master.murnaghan.Murnaghan method)
fit_vinet() (pyiron.atomistics.master.murnaghan.Murnaghan method)
fitfunction() (in module pyiron.atomistics.master.murnaghan)
fix_iso() (in module pyiron.thermodynamics.interfacemethod)
fix_move_linear_by_id() (pyiron.lammps.control.LammpsControl method)
fix_setforce_by_id() (pyiron.lammps.control.LammpsControl method)
fix_spin_constraint() (pyiron.dft.job.generic.GenericDFTJob property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.vasp.base.VaspBase property)
fix_symmetry() (pyiron.dft.job.generic.GenericDFTJob property)
(pyiron.vasp.base.VaspBase property)
fix_z_dir() (in module pyiron.thermodynamics.interfacemethod)
force_max() (pyiron.atomistics.job.atomistic.GenericOutput property)
forces() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
(pyiron.interactive.activation_relaxation_technique.ARTIntOutput property)
freeze_one_half() (in module pyiron.thermodynamics.interfacemethod)
from_directory() (pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
from_file() (pyiron.sphinx.volumetric_data.SphinxVolumetricData method)
(pyiron.vasp.oszicar.Oszicar method)
(pyiron.vasp.outcar.Outcar method)
(pyiron.vasp.procar.Procar method)
(pyiron.vasp.report.Report method)
(pyiron.vasp.vasprun.Vasprun method)
(pyiron.vasp.volumetric_data.VaspVolumetricData method)
from_hdf() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.atomistics.job.sqs.SQSJob method)
(pyiron.atomistics.job.structurecontainer.StructureContainer method)
(pyiron.atomistics.master.parallel.MapMaster method)
(pyiron.atomistics.master.phonopy.PhonopyJob method)
(pyiron.atomistics.master.structure.StructureListMaster method)
(pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.periodic_table.ChemicalElement method)
(pyiron.atomistics.structure.periodic_table.PeriodicTable method)
(pyiron.atomistics.volumetric.generic.VolumetricData method)
(pyiron.dft.waves.bandstructure.Bandstructure method)
(pyiron.dft.waves.electronic.ElectronicStructure method)
(pyiron.gaussian.gaussian.Gaussian method)
(pyiron.gpaw.gpaw.Gpaw method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.base.Input method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.lammps.potential.LammpsPotential method)
(pyiron.quickff.quickff.QuickFF method)
(pyiron.sphinx.base.Output method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.sphinx.volumetric_data.SphinxVolumetricData method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
(pyiron.thermodynamics.sxphonons.SxUniqDispl method)
(pyiron.vasp.base.DFTOutput method)
(pyiron.vasp.base.GenericOutput method)
(pyiron.vasp.base.Input method)
(pyiron.vasp.base.Kpoints method)
(pyiron.vasp.base.Output method)
(pyiron.vasp.base.VaspBase method)
(pyiron.vasp.metadyn.MetadynInput method)
(pyiron.vasp.metadyn.VaspMetadyn method)
(pyiron.vasp.outcar.Outcar method)
(pyiron.vasp.volumetric_data.VaspVolumetricData method)
(pyiron.yaff.yaff.Yaff method)
from_hdf_old() (pyiron.dft.waves.electronic.ElectronicStructure method)
G
gauss_f() (pyiron.atomistics.volumetric.generic.VolumetricData static method)
Gaussian (class in pyiron.gaussian.gaussian)
GaussianInput (class in pyiron.gaussian.gaussian)
generate_from_matrices() (pyiron.dft.waves.electronic.ElectronicStructure method)
generate_random_seed() (in module pyiron.thermodynamics.interfacemethod)
generate_seed_from_job() (pyiron.lammps.control.LammpsControl static method)
generate_structure() (in module pyiron.thermodynamics.interfacemethod)
GenericDFTJob (class in pyiron.dft.job.generic)
GenericInput (class in pyiron.atomistics.job.atomistic)
GenericInteractive (class in pyiron.atomistics.job.interactive)
GenericInteractiveOutput (class in pyiron.atomistics.job.interactive)
GenericOutput (class in pyiron.atomistics.job.atomistic)
(class in pyiron.atomistics.master.parallel)
(class in pyiron.atomistics.master.serial)
(class in pyiron.vasp.base)
(class in pyiron.vasp.interactive)
get_all_total_energies() (pyiron.vasp.outcar.Outcar static method)
get_angular_momentum() (pyiron.gpaw.pyiron_ase.AseAdapter method)
get_atomic_numbers() (pyiron.atomistics.structure.atoms.Atoms method)
get_average_along_axis() (pyiron.atomistics.volumetric.generic.VolumetricData method)
get_average_of_unique_labels() (in module pyiron.atomistics.structure.analyse)
get_average_waves() (in module pyiron.table.funct)
get_band_gap() (pyiron.dft.waves.electronic.ElectronicStructure method)
get_band_properties() (pyiron.vasp.outcar.Outcar static method)
get_bonds() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.neighbors.Neighbors method)
get_broyden_mixing_mesh() (pyiron.vasp.outcar.Outcar static method)
get_bsse_array() (in module pyiron.gaussian.gaussian)
get_cbm() (pyiron.dft.waves.electronic.ElectronicStructure method)
get_cell() (pyiron.atomistics.job.interactive.InteractiveInterface method)
get_cells() (pyiron.vasp.outcar.Outcar method)
get_center_of_mass() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.gpaw.pyiron_ase.AseAdapter method)
get_center_point() (in module pyiron.thermodynamics.interfacemethod)
get_charge() (pyiron.lammps.potential.LammpsPotential method)
get_charge_density() (pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
get_chemical_elements() (pyiron.atomistics.structure.atoms.Atoms method)
get_chemical_formula() (pyiron.atomistics.structure.atoms.Atoms method)
get_chemical_indices() (pyiron.atomistics.structure.atoms.Atoms method)
get_chemical_symbols() (pyiron.atomistics.structure.atoms.Atoms method)
get_constraint() (pyiron.atomistics.structure.atoms.Atoms method)
get_convergence_check() (in module pyiron.table.funct)
get_density() (pyiron.atomistics.structure.atoms.Atoms method)
get_density_of_states() (pyiron.dft.job.generic.GenericDFTJob method)
get_dipole_moments() (pyiron.vasp.outcar.Outcar static method)
get_displacements() (pyiron.atomistics.job.atomistic.GenericOutput static method)
get_distance() (pyiron.atomistics.structure.atoms.Atoms method)
get_distances() (pyiron.atomistics.structure.neighbors.Tree method)
get_distances_array() (pyiron.atomistics.structure.atoms.Atoms method)
get_dos() (pyiron.dft.waves.electronic.ElectronicStructure method)
get_e_band() (in module pyiron.table.funct)
get_e_conv_level() (in module pyiron.table.funct)
get_eddrmm_handling() (pyiron.vasp.base.VaspBase method)
get_ekin_error() (in module pyiron.table.funct)
get_elastic_constants() (pyiron.vasp.outcar.Outcar static method)
get_electronic_structure() (pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.vasp.vasprun.Vasprun method)
get_electrostatic_potential() (pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
get_element_id() (pyiron.lammps.potential.LammpsPotential method)
get_element_lst() (pyiron.lammps.potential.LammpsPotential method)
get_elements() (in module pyiron.table.funct)
get_encut() (in module pyiron.table.funct)
(pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.dft.master.murnaghan_dft.MurnaghanDFT method)
get_energy() (pyiron.testing.executable.ExampleExecutable method)
get_energy_free() (in module pyiron.table.funct)
get_energy_free_per_atom() (in module pyiron.table.funct)
get_energy_int() (in module pyiron.table.funct)
get_energy_int_per_atom() (in module pyiron.table.funct)
get_energy_pot() (in module pyiron.table.funct)
(pyiron.atomistics.job.interactive.InteractiveInterface method)
(pyiron.vasp.oszicar.Oszicar static method)
get_energy_pot_per_atom() (in module pyiron.table.funct)
get_energy_sigma_0() (pyiron.vasp.outcar.Outcar static method)
get_energy_tot() (in module pyiron.table.funct)
(pyiron.atomistics.job.interactive.InteractiveInterface method)
get_energy_tot_per_atom() (in module pyiron.table.funct)
get_energy_without_entropy() (pyiron.vasp.outcar.Outcar static method)
get_enmax_among_potentials() (in module pyiron.vasp.potential)
get_enmax_among_species() (in module pyiron.vasp.potential)
get_entropy_p() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
get_entropy_v() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
get_equilibrium_parameters() (in module pyiron.table.funct)
get_equivalent_points() (pyiron.atomistics.structure.atoms.Atoms method)
get_equivalent_voronoi_vertices() (pyiron.atomistics.structure.atoms.Atoms method)
get_error() (pyiron.atomistics.master.murnaghan.EnergyVolumeFit static method)
get_extended_positions() (pyiron.atomistics.structure.atoms.Atoms method)
get_f_states() (in module pyiron.table.funct)
get_fermi_level() (pyiron.vasp.outcar.Outcar static method)
get_final_structure() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.atomistics.job.interactivewrapper.InteractiveWrapper method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.vasp.vasprun.Vasprun method)
get_final_structure_from_file() (pyiron.vasp.base.VaspBase method)
get_float_with_exception() (in module pyiron.vasp.vasprun)
get_forces() (in module pyiron.table.funct)
(pyiron.atomistics.job.interactive.InteractiveInterface method)
(pyiron.gpaw.pyiron_ase.AseAdapter method)
(pyiron.interactive.activation_relaxation_technique.ARTInteractive method)
(pyiron.interactive.sxextoptint.SxExtOptInteractive method)
(pyiron.vasp.outcar.Outcar method)
get_free_energy() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
get_free_energy_p() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
get_global_shells() (pyiron.atomistics.structure.neighbors.Neighbors method)
get_hesse_matrix() (pyiron.atomistics.master.phonopy.PhonopyJob method)
(pyiron.thermodynamics.sxphonons.SxDynMat method)
(pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
(pyiron.thermodynamics.sxphonons.SxPhonons method)
get_high_symmetry_path() (pyiron.atomistics.structure.atoms.Atoms method)
get_high_symmetry_points() (pyiron.atomistics.structure.atoms.Atoms method)
get_icharg_value() (pyiron.vasp.base.VaspBase method)
get_incar() (in module pyiron.table.funct)
get_indices() (pyiron.atomistics.structure.neighbors.Tree method)
get_initial_magnetic_moments() (pyiron.atomistics.structure.atoms.Atoms method)
get_initial_melting_temperature_guess() (in module pyiron.thermodynamics.interfacemethod)
get_initial_structure() (pyiron.vasp.vasprun.Vasprun method)
get_ir_reciprocal_mesh() (pyiron.atomistics.structure.atoms.Atoms method)
get_irreducible_kpoints() (pyiron.vasp.outcar.Outcar static method)
get_ismear() (in module pyiron.table.funct)
get_job_id() (in module pyiron.table.funct)
get_job_name() (in module pyiron.table.funct)
get_k_mesh_by_cell() (in module pyiron.vasp.base)
(pyiron.dft.job.generic.GenericDFTJob method)
get_k_mesh_by_density() (in module pyiron.dft.job.generic)
get_kinetic_energy() (pyiron.gpaw.pyiron_ase.AseAdapter method)
get_kinetic_energy_error() (pyiron.vasp.outcar.Outcar static method)
get_kpoints() (pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.gpaw.gpaw.Gpaw method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
get_lammps_prism_str() (pyiron.lammps.structure.UnfoldingPrism method)
get_layers() (pyiron.atomistics.structure.analyse.Analyse method)
get_local_shells() (pyiron.atomistics.structure.neighbors.Neighbors method)
get_magnetic_moments() (pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.vasp.base.VaspBase method)
get_magnetic_structure() (in module pyiron.table.funct)
get_magnetization() (pyiron.vasp.outcar.Outcar static method)
get_majority() (in module pyiron.table.funct)
get_majority_crystal_structure() (in module pyiron.table.funct)
get_majority_species() (in module pyiron.table.funct)
(pyiron.atomistics.structure.atoms.Atoms method)
get_masses() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.gpaw.pyiron_ase.AseAdapter method)
get_masses_dof() (pyiron.atomistics.structure.atoms.Atoms method)
get_minimum_energy_path() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
get_momenta() (pyiron.gpaw.pyiron_ase.AseAdapter method)
get_n_equ_kpts() (in module pyiron.table.funct)
get_n_ir_reciprocal_points() (pyiron.sphinx.base.SphinxBase method)
get_n_kpts() (in module pyiron.table.funct)
get_neighborhood() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.neighbors.Tree method)
get_neighbors() (pyiron.atomistics.structure.atoms.Atoms method)
get_neighbors_by_distance() (pyiron.atomistics.structure.atoms.Atoms method)
get_nelect() (pyiron.vasp.base.VaspBase method)
(pyiron.vasp.outcar.Outcar static method)
get_number_of_atoms() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.gpaw.pyiron_ase.AseAdapter method)
(pyiron.vasp.outcar.Outcar static method)
get_number_of_degrees_of_freedom() (pyiron.atomistics.structure.atoms.Atoms method)
get_number_of_final_electronic_steps() (in module pyiron.table.funct)
get_number_of_ionic_steps() (in module pyiron.table.funct)
get_number_of_species() (in module pyiron.table.funct)
(pyiron.atomistics.structure.atoms.Atoms method)
get_number_species_atoms() (pyiron.atomistics.structure.atoms.Atoms method)
get_numbers_of_neighbors_in_sphere() (pyiron.atomistics.structure.atoms.Atoms method)
get_nve_job_name() (in module pyiron.thermodynamics.interfacemethod)
get_orbital_resolved_dos() (pyiron.dft.waves.dos.Dos method)
get_parent_basis() (pyiron.atomistics.structure.atoms.Atoms method)
get_parent_symbols() (pyiron.atomistics.structure.atoms.Atoms method)
get_path() (pyiron.dft.waves.bandstructure.Bandstructure method)
get_pathes() (pyiron.dft.waves.bandstructure.Bandstructure method)
get_plane_waves() (in module pyiron.table.funct)
get_positions() (pyiron.atomistics.job.interactive.InteractiveInterface method)
(pyiron.gpaw.pyiron_ase.AseAdapter method)
(pyiron.interactive.sxextoptint.SxExtOpt method)
(pyiron.vasp.outcar.Outcar method)
get_positions_and_forces() (pyiron.vasp.outcar.Outcar method)
get_potentials_for_structure() (pyiron.lammps.base.LammpsBase method)
get_press() (in module pyiron.thermodynamics.interfacemethod)
get_pressure() (pyiron.atomistics.job.interactive.InteractiveInterface method)
get_primitive_cell() (pyiron.atomistics.structure.atoms.Atoms method)
get_resolved_dos() (pyiron.dft.waves.electronic.ElectronicStructure method)
get_rwigs() (pyiron.vasp.base.VaspBase method)
get_scf_group() (pyiron.sphinx.base.SphinxBase method)
get_shell_matrix() (pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.neighbors.Neighbors method)
get_sigma() (in module pyiron.table.funct)
get_spacegroup() (pyiron.atomistics.structure.atoms.Atoms method)
get_spatial_orbital_resolved_dos() (pyiron.dft.waves.dos.Dos method)
get_spatially_resolved_dos() (pyiron.dft.waves.dos.Dos method)
get_species_list_from_potcar() (in module pyiron.vasp.structure)
get_species_objects() (pyiron.atomistics.structure.atoms.Atoms method)
get_species_symbols() (pyiron.atomistics.structure.atoms.Atoms method)
get_spherical_coordinates() (pyiron.atomistics.structure.atoms.Atoms method)
get_spin_resolved_dos() (pyiron.dft.waves.dos.Dos method)
(pyiron.dft.waves.electronic.ElectronicStructure method)
get_sqs_structures() (in module pyiron.atomistics.job.sqs)
get_steinhardt_parameter_structure() (in module pyiron.atomistics.structure.pyscal)
get_steps() (pyiron.vasp.outcar.Outcar static method)
get_strain() (in module pyiron.atomistics.master.elastic)
get_strain_lst() (in module pyiron.thermodynamics.interfacemethod)
get_stresses() (pyiron.vasp.outcar.Outcar static method)
get_structure() (in module pyiron.table.funct)
(pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.atomistics.job.sqs.SQSJob method)
(pyiron.atomistics.master.murnaghan.Murnaghan method)
(pyiron.atomistics.master.parallel.AtomisticParallelMaster method)
(pyiron.atomistics.master.serial.SerialMaster method)
(pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.dft.master.murnaghan_dft.MurnaghanDFT method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.project.Project method)
(pyiron.quickff.quickff.QuickFF method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.vasp.interactive.VaspInteractive method)
(pyiron.yaff.yaff.Yaff method)
get_structure_group() (pyiron.sphinx.base.SphinxBase method)
get_symmetry() (pyiron.atomistics.structure.atoms.Atoms method)
get_symmetry_dataset() (pyiron.atomistics.structure.atoms.Atoms method)
get_tags() (pyiron.atomistics.structure.atoms.Atoms method)
get_temperature() (pyiron.atomistics.job.interactive.InteractiveInterface method)
get_temperatures() (pyiron.vasp.outcar.Outcar static method)
get_thermal_properties() (pyiron.atomistics.master.phonopy.PhonopyJob method)
get_time() (pyiron.vasp.outcar.Outcar method)
get_total_energies() (pyiron.vasp.outcar.Outcar static method)
get_total_number_of_atoms() (in module pyiron.table.funct)
get_vbm() (pyiron.dft.waves.electronic.ElectronicStructure method)
get_vectors() (pyiron.atomistics.structure.neighbors.Tree method)
get_velocities() (pyiron.gpaw.pyiron_ase.AseAdapter method)
get_version_float() (pyiron.sphinx.base.SphinxBase method)
get_volume() (in module pyiron.table.funct)
(pyiron.atomistics.structure.atoms.Atoms method)
get_volume_per_atom() (in module pyiron.table.funct)
get_voronoi_volume() (in module pyiron.thermodynamics.interfacemethod)
(pyiron.atomistics.structure.atoms.Atoms method)
get_wrapped_coordinates() (pyiron.atomistics.structure.atoms.Atoms method)
get_yaff_ff() (pyiron.quickff.quickff.QuickFF method)
(pyiron.yaff.yaff.Yaff method)
get_yaff_system() (pyiron.quickff.quickff.QuickFF method)
(pyiron.yaff.yaff.Yaff method)
Gpaw (class in pyiron.gpaw.gpaw)
GpawInput (class in pyiron.gpaw.gpaw)
grand_dos_matrix() (pyiron.dft.waves.electronic.ElectronicStructure property)
Group (class in pyiron.sphinx.base)
group_points_by_symmetry() (pyiron.atomistics.structure.atoms.Atoms method)
gui() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.project.Project method)
H
half_velocity() (in module pyiron.thermodynamics.interfacemethod)
has() (pyiron.gpaw.pyiron_ase.AseAdapter method)
hdf2dict() (in module pyiron.yaff.yaff)
HessianJob (class in pyiron.thermodynamics.hessian)
I
id_pyi_to_spx() (pyiron.sphinx.base.InputWriter property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.thermodynamics.sxphonons.SxUniqDispl property)
id_spx_to_pyi() (pyiron.sphinx.base.InputWriter property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.thermodynamics.sxphonons.SxUniqDispl property)
import_from_path() (pyiron.project.Project method)
import_single_calculation() (pyiron.project.Project method)
Incar (class in pyiron.vasp.base)
incar (pyiron.vasp.base.Input attribute)
index (pyiron.atomistics.structure.atom.Atom attribute)
indices (pyiron.atomistics.structure.atoms.Atoms attribute)
indices() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
initial_structure() (pyiron.atomistics.job.interactive.GenericInteractive property)
initialise_iterators() (in module pyiron.thermodynamics.interfacemethod)
Input (class in pyiron.interactive.scipy_minimizer)
(class in pyiron.interactive.sxextoptint)
(class in pyiron.lammps.base)
(class in pyiron.vasp.base)
input (pyiron.lammps.base.LammpsBase attribute)
(pyiron.lammps.lammps.Lammps attribute)
(pyiron.vasp.base.VaspBase attribute)
InputWriter (class in pyiron.sphinx.base)
inspect_emperical_potentials() (pyiron.project.Project static method)
inspect_periodic_table() (pyiron.project.Project static method)
inspect_pseudo_potentials() (pyiron.project.Project static method)
install() (in module pyiron)
interactive_atom_spin_constraints_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
interactive_atom_spins_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
interactive_cell_organizer() (pyiron.atomistics.job.interactive.GenericInteractive method)
interactive_cells_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
interactive_cells_setter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.thermodynamics.hessian.HessianJob method)
interactive_close() (pyiron.gpaw.pyiron_ase.AseAdapter method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.interactive.activation_relaxation_technique.ART method)
(pyiron.interactive.sxextoptint.SxExtOpt method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.vasp.interactive.VaspInteractive method)
interactive_collect() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.thermodynamics.hessian.HessianJob method)
interactive_computation_time_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
interactive_energy_pot_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.vasp.interactive.VaspInteractive method)
interactive_energy_tot_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.vasp.interactive.VaspInteractive method)
interactive_enforce_structure_reset() (pyiron.atomistics.job.interactive.GenericInteractive property)
(pyiron.vasp.interactive.VaspInteractive property)
interactive_execute() (pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
interactive_fetch() (pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.vasp.interactive.VaspInteractive method)
interactive_flush() (pyiron.atomistics.job.interactive.GenericInteractive method)
interactive_forces_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.interactive.activation_relaxation_technique.ART method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.vasp.interactive.VaspInteractive method)
interactive_index_organizer() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
interactive_indices_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
interactive_indices_setter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.lammps.interactive.LammpsInteractive method)
interactive_initialize_interface() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.vasp.interactive.VaspInteractive method)
interactive_is_activated() (pyiron.interactive.sxextoptint.SxExtOpt method)
interactive_magmom_organizer() (pyiron.atomistics.job.interactive.GenericInteractive method)
interactive_magnetic_forces_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
interactive_positions_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
interactive_positions_organizer() (pyiron.atomistics.job.interactive.GenericInteractive method)
interactive_positions_setter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.vasp.interactive.VaspInteractive method)
interactive_pressures_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
interactive_spin_constraints_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
interactive_spin_constraints_setter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
interactive_spins_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
interactive_steps_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
interactive_stress_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
interactive_structure_setter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
interactive_temperatures_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
interactive_time_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
interactive_unwrapped_positions_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
interactive_volume_getter() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
InteractiveInterface (class in pyiron.atomistics.job.interactive)
InteractiveWrapper (class in pyiron.atomistics.job.interactivewrapper)
interpolate_volume() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
is_element() (pyiron.atomistics.structure.periodic_table.PeriodicTable method)
is_metal() (pyiron.dft.waves.electronic.ElectronicStructure property)
items() (pyiron.atomistics.structure.sparse_list.SparseArray method)
(pyiron.atomistics.structure.sparse_list.SparseList method)
J
job_name() (pyiron.atomistics.master.murnaghan.MurnaghanJobGenerator static method)
(pyiron.atomistics.master.phonopy.PhonopyJobGenerator static method)
(pyiron.atomistics.master.sqsmaster.SQSJobGenerator static method)
(pyiron.atomistics.master.structure.StructureJobGenerator static method)
(pyiron.dft.master.convergence_encut_parallel.EncutConvergenceJobGenerator static method)
(pyiron.dft.master.convergence_kpoint_parallel.KpointConvergenceJobGenerator static method)
(pyiron.thermodynamics.sxphonons.SxPhononsJobGenerator static method)
K
k_mesh_center_shift() (pyiron.dft.job.generic.GenericDFTJob property)
k_mesh_spacing() (pyiron.dft.job.generic.GenericDFTJob property)
kB (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk attribute)
keys() (pyiron.atomistics.structure.sparse_list.SparseArray method)
(pyiron.atomistics.structure.sparse_list.SparseList method)
Kpoint (class in pyiron.dft.waves.electronic)
kpoint_list() (pyiron.dft.waves.electronic.ElectronicStructure property)
kpoint_mesh() (pyiron.dft.job.generic.GenericDFTJob property)
kpoint_weights() (pyiron.dft.waves.electronic.ElectronicStructure property)
KpointConvergenceJobGenerator (class in pyiron.dft.master.convergence_kpoint_parallel)
Kpoints (class in pyiron.vasp.base)
kpoints (pyiron.vasp.base.Input attribute)
L
Lammps (class in pyiron.lammps.lammps)
LammpsBase (class in pyiron.lammps.base)
LammpsControl (class in pyiron.lammps.control)
LammpsInteractive (class in pyiron.lammps.interactive)
LammpsPotential (class in pyiron.lammps.potential)
LammpsPotentialFile (class in pyiron.lammps.potential)
LammpsStructure (class in pyiron.lammps.structure)
list() (pyiron.atomistics.job.potentials.PotentialAbstract method)
(pyiron.atomistics.structure.sparse_list.SparseList method)
(pyiron.vasp.potential.VaspPotentialAbstract method)
list_of_structures() (pyiron.atomistics.job.sqs.SQSJob property)
(pyiron.atomistics.master.sqsmaster.SQSMaster property)
list_potential_names() (pyiron.vasp.potential.VaspPotentialAbstract method)
list_potentials() (pyiron.lammps.base.LammpsBase method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
list_structures() (pyiron.atomistics.job.sqs.SQSJob method)
(pyiron.atomistics.master.murnaghan.Murnaghan method)
(pyiron.atomistics.master.phonopy.PhonopyJob method)
(pyiron.atomistics.master.sqsmaster.SQSMaster method)
(pyiron.thermodynamics.sxphonons.SxUniqDispl method)
load_basis_group() (pyiron.sphinx.base.SphinxBase method)
load_chk() (pyiron.yaff.yaff.Yaff method)
load_default() (pyiron.atomistics.job.atomistic.GenericInput method)
(pyiron.gaussian.gaussian.GaussianInput method)
(pyiron.gpaw.gpaw.GpawInput method)
(pyiron.interactive.sxextoptint.Input method)
(pyiron.lammps.control.LammpsControl method)
(pyiron.lammps.structure.LammpsStructure method)
(pyiron.quickff.quickff.QuickFFInput method)
(pyiron.testing.randomatomistic.ExampleInput method)
(pyiron.vasp.base.Incar method)
(pyiron.vasp.base.Kpoints method)
(pyiron.vasp.potential.Potcar method)
(pyiron.yaff.yaff.YaffInput method)
load_default_groups() (pyiron.sphinx.base.SphinxBase method)
load_default_input() (pyiron.sphinx.base.SphinxBase method)
load_from_jobpath() (pyiron.project.Project method)
load_from_jobpath_string() (pyiron.project.Project method)
load_guess_group() (pyiron.sphinx.base.SphinxBase method)
load_hamilton_group() (pyiron.sphinx.base.SphinxBase method)
load_main_group() (pyiron.sphinx.base.SphinxBase method)
(pyiron.sphinx.interactive.SphinxInteractive method)
load_species_group() (pyiron.sphinx.base.SphinxBase method)
load_structure_group() (pyiron.sphinx.base.SphinxBase method)
log() (pyiron.gaussian.gaussian.Gaussian method)
(pyiron.quickff.quickff.QuickFF method)
(pyiron.yaff.yaff.Yaff method)
log_dict (pyiron.vasp.base.DFTOutput attribute)
(pyiron.vasp.base.GenericOutput attribute)
(pyiron.vasp.interactive.DFTOutput attribute)
(pyiron.vasp.interactive.GenericOutput attribute)
M
manip_contcar() (in module pyiron.vasp.structure)
map() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
MapFunctions (class in pyiron.atomistics.job.atomistic)
(class in pyiron.dft.job.generic)
MapJobGenerator (class in pyiron.atomistics.master.parallel)
MapMaster (class in pyiron.atomistics.master.parallel)
mass() (pyiron.atomistics.structure.atom.Atom property)
matrix_to_str() (pyiron.thermodynamics.sxphonons.SxDynMat static method)
md_job() (pyiron.thermodynamics.sxphonons.SxHarmPotTst property)
measure_mean_value() (pyiron.lammps.control.LammpsControl method)
meshgrid() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
MetadynInput (class in pyiron.vasp.metadyn)
MetadynOutput (class in pyiron.vasp.metadyn)
minimize_pos() (in module pyiron.thermodynamics.interfacemethod)
minimize_vol() (in module pyiron.thermodynamics.interfacemethod)
modify() (pyiron.vasp.potential.Potcar method)
modify_function() (pyiron.atomistics.master.parallel.MapMaster property)
modify_job() (pyiron.atomistics.master.murnaghan.MurnaghanJobGenerator method)
(pyiron.atomistics.master.parallel.MapJobGenerator method)
(pyiron.atomistics.master.phonopy.PhonopyJobGenerator method)
(pyiron.atomistics.master.sqsmaster.SQSJobGenerator method)
(pyiron.atomistics.master.structure.StructureJobGenerator method)
(pyiron.dft.master.convergence_encut_parallel.EncutConvergenceJobGenerator static method)
(pyiron.dft.master.convergence_kpoint_parallel.KpointConvergenceJobGenerator static method)
(pyiron.thermodynamics.sxphonons.SxPhononsJobGenerator method)
modify_kpoints() (pyiron.dft.job.generic.GenericDFTJob method)
module
pyiron
pyiron.atomistics
pyiron.atomistics.generic
pyiron.atomistics.generic.object_type
pyiron.atomistics.job
pyiron.atomistics.job.atomistic
pyiron.atomistics.job.interactive
pyiron.atomistics.job.interactivewrapper
pyiron.atomistics.job.potentials
pyiron.atomistics.job.sqs
pyiron.atomistics.job.structurecontainer
pyiron.atomistics.master
pyiron.atomistics.master.convergence_volume
pyiron.atomistics.master.elastic
pyiron.atomistics.master.murnaghan
pyiron.atomistics.master.parallel
pyiron.atomistics.master.phonopy
pyiron.atomistics.master.quasi
pyiron.atomistics.master.serial
pyiron.atomistics.master.sqsmaster
pyiron.atomistics.master.structure
pyiron.atomistics.nma
pyiron.atomistics.nma.nma
pyiron.atomistics.structure
pyiron.atomistics.structure.analyse
pyiron.atomistics.structure.atom
pyiron.atomistics.structure.atoms
pyiron.atomistics.structure.factory
pyiron.atomistics.structure.neighbors
pyiron.atomistics.structure.periodic_table
pyiron.atomistics.structure.phonopy
pyiron.atomistics.structure.pyironase
pyiron.atomistics.structure.pyscal
pyiron.atomistics.structure.sparse_list
pyiron.atomistics.thermodynamics
pyiron.atomistics.thermodynamics.thermo_bulk
pyiron.atomistics.volumetric
pyiron.atomistics.volumetric.generic
pyiron.dft
pyiron.dft.job
pyiron.dft.job.generic
pyiron.dft.master
pyiron.dft.master.convergence_encut_parallel
pyiron.dft.master.convergence_encut_serial
pyiron.dft.master.convergence_kpoint_parallel
pyiron.dft.master.murnaghan_dft
pyiron.dft.waves
pyiron.dft.waves.bandstructure
pyiron.dft.waves.dos
pyiron.dft.waves.electronic
pyiron.gaussian
pyiron.gaussian.gaussian
pyiron.gpaw
pyiron.gpaw.gpaw
pyiron.gpaw.pyiron_ase
pyiron.interactive
pyiron.interactive.activation_relaxation_technique
pyiron.interactive.scipy_minimizer
pyiron.interactive.sxextoptint
pyiron.lammps
pyiron.lammps.base
pyiron.lammps.control
pyiron.lammps.interactive
pyiron.lammps.lammps
pyiron.lammps.potential
pyiron.lammps.structure
pyiron.project
pyiron.quickff
pyiron.quickff.quickff
pyiron.sphinx
pyiron.sphinx.base
pyiron.sphinx.interactive
pyiron.sphinx.potential
pyiron.sphinx.sphinx
pyiron.sphinx.structure
pyiron.sphinx.volumetric_data
pyiron.table
pyiron.table.datamining
pyiron.table.funct
pyiron.testing
pyiron.testing.executable
pyiron.testing.randomatomistic
pyiron.thermodynamics
pyiron.thermodynamics.hessian
pyiron.thermodynamics.interfacemethod
pyiron.thermodynamics.sxphonons
pyiron.vasp
pyiron.vasp.base
pyiron.vasp.interactive
pyiron.vasp.metadyn
pyiron.vasp.oszicar
pyiron.vasp.outcar
pyiron.vasp.potential
pyiron.vasp.procar
pyiron.vasp.report
pyiron.vasp.structure
pyiron.vasp.vasp
pyiron.vasp.vasprun
pyiron.vasp.vaspsol
pyiron.vasp.volumetric_data
pyiron.yaff
pyiron.yaff.yaff
mtd_sum_hills_1d() (pyiron.yaff.yaff.Yaff method)
Murnaghan (class in pyiron.atomistics.master.murnaghan)
murnaghan() (in module pyiron.atomistics.master.murnaghan)
(pyiron.atomistics.master.murnaghan.EnergyVolumeFit static method)
MurnaghanDFT (class in pyiron.dft.master.murnaghan_dft)
MurnaghanJobGenerator (class in pyiron.atomistics.master.murnaghan)
N
Neighbors (class in pyiron.atomistics.structure.neighbors)
new_array() (pyiron.gpaw.pyiron_ase.AseAdapter method)
next() (pyiron.lammps.base.LammpsBase method)
next_calc() (in module pyiron.thermodynamics.interfacemethod)
next_step_funct() (in module pyiron.thermodynamics.interfacemethod)
NMA (class in pyiron.atomistics.nma.nma)
NoResolvedDosError
norm_order() (pyiron.atomistics.structure.neighbors.Tree property)
npt_liquid() (in module pyiron.thermodynamics.interfacemethod)
npt_solid() (in module pyiron.thermodynamics.interfacemethod)
num_atoms() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk property)
num_steps() (pyiron.atomistics.master.murnaghan.DebyeModel property)
number() (pyiron.atomistics.structure.atom.Atom property)
numbers_to_elements() (pyiron.atomistics.structure.atoms.Atoms method)
O
ObjectType (class in pyiron.atomistics.generic.object_type)
ObjectTypeChoice (class in pyiron.atomistics.generic.object_type)
occupancies() (pyiron.dft.waves.electronic.ElectronicStructure property)
occupancy() (pyiron.dft.waves.electronic.Band property)
occupancy_matrix() (pyiron.dft.waves.electronic.ElectronicStructure property)
occupy_lattice() (pyiron.atomistics.structure.atoms.Atoms method)
optimise_volume() (pyiron.atomistics.master.quasi.QuasiHarmonicJob method)
orbital_dict() (pyiron.dft.waves.electronic.ElectronicStructure property)
Oszicar (class in pyiron.vasp.oszicar)
Outcar (class in pyiron.vasp.outcar)
Output (class in pyiron.sphinx.base)
(class in pyiron.vasp.base)
(class in pyiron.vasp.interactive)
ovito_to_pyiron() (in module pyiron.atomistics.structure.atoms)
P
parameter_list() (pyiron.atomistics.master.murnaghan.MurnaghanJobGenerator property)
(pyiron.atomistics.master.parallel.MapJobGenerator property)
(pyiron.atomistics.master.phonopy.PhonopyJobGenerator property)
(pyiron.atomistics.master.sqsmaster.SQSJobGenerator property)
(pyiron.atomistics.master.structure.StructureJobGenerator property)
(pyiron.dft.master.convergence_encut_parallel.EncutConvergenceJobGenerator property)
(pyiron.dft.master.convergence_kpoint_parallel.KpointConvergenceJobGenerator property)
(pyiron.thermodynamics.sxphonons.SxPhononsJobGenerator property)
parse_atom_information_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_calc_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_dict (pyiron.vasp.oszicar.Oszicar attribute)
(pyiron.vasp.outcar.Outcar attribute)
parse_eigenvalues_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_fermi_level_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_item_to_dict() (pyiron.vasp.vasprun.Vasprun static method)
parse_kpoints_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_parameters() (pyiron.vasp.vasprun.Vasprun method)
parse_partial_dos_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_projected_dos_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_recursively() (pyiron.vasp.vasprun.Vasprun method)
parse_root_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_scf() (pyiron.vasp.vasprun.Vasprun method)
parse_structure_to_dict() (pyiron.vasp.vasprun.Vasprun method)
parse_total_dos_to_dict() (pyiron.vasp.vasprun.Vasprun method)
path_dict() (pyiron.dft.waves.bandstructure.Bandstructure property)
PeriodicTable (class in pyiron.atomistics.structure.periodic_table)
phonopy_pickling_disabled() (pyiron.atomistics.master.phonopy.PhonopyJob property)
phonopy_to_atoms() (in module pyiron.atomistics.master.phonopy)
PhonopyJob (class in pyiron.atomistics.master.phonopy)
PhonopyJobGenerator (class in pyiron.atomistics.master.phonopy)
pipe() (in module pyiron.atomistics.master.parallel)
plane_wave_cutoff() (pyiron.dft.job.generic.GenericDFTJob property)
(pyiron.gpaw.gpaw.Gpaw property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.vasp.base.VaspBase property)
plot() (pyiron.atomistics.master.murnaghan.Murnaghan method)
(pyiron.dft.master.convergence_encut_parallel.ConvEncutParallel method)
(pyiron.dft.master.convergence_kpoint_parallel.ConvKpointParallel method)
(pyiron.dft.waves.bandstructure.Bandstructure method)
(pyiron.yaff.yaff.Yaff method)
plot3d() (pyiron.atomistics.structure.atoms.Atoms method)
plot_contourf() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
plot_dos() (pyiron.atomistics.master.phonopy.PhonopyJob method)
plot_entropy() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
plot_equilibration() (in module pyiron.thermodynamics.interfacemethod)
plot_fermi_dirac() (pyiron.dft.waves.electronic.ElectronicStructure method)
plot_free_energy() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
plot_heat_capacity() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
plot_IR_spectrum() (pyiron.atomistics.nma.nma.NMA method)
plot_melting_point_prediction() (in module pyiron.thermodynamics.interfacemethod)
plot_min_energy_path() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
plot_multi() (pyiron.yaff.yaff.Yaff method)
plot_orbital_resolved_dos() (pyiron.dft.waves.dos.Dos method)
plot_solid_liquid_ratio() (in module pyiron.thermodynamics.interfacemethod)
plot_total_dos() (pyiron.dft.waves.dos.Dos method)
poly_fit() (pyiron.atomistics.master.murnaghan.Murnaghan method)
polynomial() (pyiron.atomistics.master.murnaghan.DebyeModel method)
pos_to_lammps() (pyiron.lammps.structure.UnfoldingPrism method)
pos_xyz() (pyiron.atomistics.structure.atoms.Atoms method)
positions() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
pot_path_dict (pyiron.vasp.potential.Potcar attribute)
Potcar (class in pyiron.vasp.potential)
potcar (pyiron.vasp.base.Input attribute)
potcar_set_structure() (pyiron.vasp.potential.Potcar method)
potential() (pyiron.lammps.base.LammpsBase property)
(pyiron.lammps.structure.LammpsStructure property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.vasp.base.VaspBase property)
potential_available() (pyiron.lammps.base.LammpsBase property)
(pyiron.vasp.base.VaspBase property)
potential_list() (pyiron.lammps.base.LammpsBase property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.vasp.base.VaspBase property)
potential_view() (pyiron.lammps.base.LammpsBase property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.vasp.base.VaspBase property)
PotentialAbstract (class in pyiron.atomistics.job.potentials)
PotentialAvailable (class in pyiron.lammps.potential)
pouriertarantola() (in module pyiron.atomistics.master.murnaghan)
(pyiron.atomistics.master.murnaghan.EnergyVolumeFit static method)
pressure() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk property)
pressure_to_lammps() (pyiron.lammps.control.LammpsControl method)
pressures() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
print_MO() (pyiron.gaussian.gaussian.Gaussian method)
Procar (class in pyiron.vasp.procar)
Project (class in pyiron.project)
publication (pyiron.atomistics.job.sqs.SQSJob attribute)
publication() (in module pyiron.atomistics.structure.phonopy)
(in module pyiron.atomistics.structure.pyironase)
(in module pyiron.atomistics.structure.pyscal)
(pyiron.lammps.base.LammpsBase property)
(pyiron.vasp.base.VaspBase property)
pyiron
module
pyiron.atomistics
module
pyiron.atomistics.generic
module
pyiron.atomistics.generic.object_type
module
pyiron.atomistics.job
module
pyiron.atomistics.job.atomistic
module
pyiron.atomistics.job.interactive
module
pyiron.atomistics.job.interactivewrapper
module
pyiron.atomistics.job.potentials
module
pyiron.atomistics.job.sqs
module
pyiron.atomistics.job.structurecontainer
module
pyiron.atomistics.master
module
pyiron.atomistics.master.convergence_volume
module
pyiron.atomistics.master.elastic
module
pyiron.atomistics.master.murnaghan
module
pyiron.atomistics.master.parallel
module
pyiron.atomistics.master.phonopy
module
pyiron.atomistics.master.quasi
module
pyiron.atomistics.master.serial
module
pyiron.atomistics.master.sqsmaster
module
pyiron.atomistics.master.structure
module
pyiron.atomistics.nma
module
pyiron.atomistics.nma.nma
module
pyiron.atomistics.structure
module
pyiron.atomistics.structure.analyse
module
pyiron.atomistics.structure.atom
module
pyiron.atomistics.structure.atoms
module
pyiron.atomistics.structure.factory
module
pyiron.atomistics.structure.neighbors
module
pyiron.atomistics.structure.periodic_table
module
pyiron.atomistics.structure.phonopy
module
pyiron.atomistics.structure.pyironase
module
pyiron.atomistics.structure.pyscal
module
pyiron.atomistics.structure.sparse_list
module
pyiron.atomistics.thermodynamics
module
pyiron.atomistics.thermodynamics.thermo_bulk
module
pyiron.atomistics.volumetric
module
pyiron.atomistics.volumetric.generic
module
pyiron.dft
module
pyiron.dft.job
module
pyiron.dft.job.generic
module
pyiron.dft.master
module
pyiron.dft.master.convergence_encut_parallel
module
pyiron.dft.master.convergence_encut_serial
module
pyiron.dft.master.convergence_kpoint_parallel
module
pyiron.dft.master.murnaghan_dft
module
pyiron.dft.waves
module
pyiron.dft.waves.bandstructure
module
pyiron.dft.waves.dos
module
pyiron.dft.waves.electronic
module
pyiron.gaussian
module
pyiron.gaussian.gaussian
module
pyiron.gpaw
module
pyiron.gpaw.gpaw
module
pyiron.gpaw.pyiron_ase
module
pyiron.interactive
module
pyiron.interactive.activation_relaxation_technique
module
pyiron.interactive.scipy_minimizer
module
pyiron.interactive.sxextoptint
module
pyiron.lammps
module
pyiron.lammps.base
module
pyiron.lammps.control
module
pyiron.lammps.interactive
module
pyiron.lammps.lammps
module
pyiron.lammps.potential
module
pyiron.lammps.structure
module
pyiron.project
module
pyiron.quickff
module
pyiron.quickff.quickff
module
pyiron.sphinx
module
pyiron.sphinx.base
module
pyiron.sphinx.interactive
module
pyiron.sphinx.potential
module
pyiron.sphinx.sphinx
module
pyiron.sphinx.structure
module
pyiron.sphinx.volumetric_data
module
pyiron.table
module
pyiron.table.datamining
module
pyiron.table.funct
module
pyiron.testing
module
pyiron.testing.executable
module
pyiron.testing.randomatomistic
module
pyiron.thermodynamics
module
pyiron.thermodynamics.hessian
module
pyiron.thermodynamics.interfacemethod
module
pyiron.thermodynamics.sxphonons
module
pyiron.vasp
module
pyiron.vasp.base
module
pyiron.vasp.interactive
module
pyiron.vasp.metadyn
module
pyiron.vasp.oszicar
module
pyiron.vasp.outcar
module
pyiron.vasp.potential
module
pyiron.vasp.procar
module
pyiron.vasp.report
module
pyiron.vasp.structure
module
pyiron.vasp.vasp
module
pyiron.vasp.vasprun
module
pyiron.vasp.vaspsol
module
pyiron.vasp.volumetric_data
module
pyiron.yaff
module
pyiron.yaff.yaff
module
pyiron_to_ase() (in module pyiron.atomistics.structure.atoms)
pyiron_to_ovito() (in module pyiron.atomistics.structure.atoms)
pyiron_to_pymatgen() (in module pyiron.atomistics.job.sqs)
(in module pyiron.atomistics.structure.atoms)
pymatgen_to_pyiron() (in module pyiron.atomistics.job.sqs)
(in module pyiron.atomistics.structure.atoms)
pyscal_centro_symmetry() (pyiron.atomistics.structure.analyse.Analyse method)
pyscal_cna_adaptive() (pyiron.atomistics.structure.analyse.Analyse method)
pyscal_diamond_structure() (pyiron.atomistics.structure.analyse.Analyse method)
pyscal_steinhardt_parameter() (pyiron.atomistics.structure.analyse.Analyse method)
pyscal_voronoi_volume() (pyiron.atomistics.structure.analyse.Analyse method)
Q
QuasiHarmonicJob (class in pyiron.atomistics.master.quasi)
QuickFF (class in pyiron.quickff.quickff)
QuickFFInput (class in pyiron.quickff.quickff)
R
ratio_selection() (in module pyiron.thermodynamics.interfacemethod)
read_abinitio() (pyiron.quickff.quickff.QuickFF method)
read_atoms() (in module pyiron.sphinx.structure)
(in module pyiron.vasp.structure)
read_bsse() (in module pyiron.gaussian.gaussian)
read_colvar() (in module pyiron.yaff.yaff)
read_cube_file() (pyiron.atomistics.volumetric.generic.VolumetricData method)
read_EmpiricalDispersion() (in module pyiron.gaussian.gaussian)
read_NMA() (pyiron.gaussian.gaussian.Gaussian method)
read_restart() (pyiron.testing.executable.ExampleExecutable method)
read_restart_file() (pyiron.lammps.base.LammpsBase method)
reduce_kpoint_symmetry() (pyiron.dft.job.generic.GenericDFTJob property)
ReferenceJobOutput (class in pyiron.atomistics.job.interactivewrapper)
refine_cell() (pyiron.atomistics.structure.atoms.Atoms method)
remap_indices() (pyiron.lammps.base.LammpsBase method)
remove() (pyiron.sphinx.base.Group method)
remove_selective_dynamics() (in module pyiron.thermodynamics.interfacemethod)
remove_structure_block() (pyiron.lammps.potential.LammpsPotential method)
remove_tag() (pyiron.atomistics.structure.sparse_list.SparseArray method)
repeat() (pyiron.atomistics.structure.atoms.Atoms method)
repeat_points() (pyiron.atomistics.structure.atoms.Atoms method)
Report (class in pyiron.vasp.report)
reset_absolute() (pyiron.atomistics.structure.atoms.Atoms method)
reset_clusters() (pyiron.atomistics.structure.neighbors.Neighbors method)
reset_output() (pyiron.vasp.base.VaspBase method)
resolved_densities() (pyiron.dft.waves.electronic.ElectronicStructure property)
resolved_dos_matrix() (pyiron.dft.waves.electronic.Band property)
restart() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
restart_for_band_structure_calculations() (pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
restart_from_charge_density() (pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
restart_from_wave_and_charge() (pyiron.vasp.base.VaspBase method)
restart_from_wave_functions() (pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
rotate() (pyiron.atomistics.structure.atoms.Atoms method)
rotate_positions() (pyiron.lammps.structure.LammpsStructure method)
round_temperature_next() (in module pyiron.thermodynamics.interfacemethod)
run() (pyiron.testing.executable.ExampleExecutable method)
run_if_interactive() (pyiron.atomistics.job.interactive.GenericInteractive method)
(pyiron.atomistics.job.structurecontainer.StructureContainer method)
(pyiron.atomistics.master.phonopy.PhonopyJob method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.interactive.activation_relaxation_technique.ART method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.vasp.interactive.VaspInteractive method)
run_if_interactive_non_modal() (pyiron.atomistics.master.structure.StructureListMaster method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.interactive.SphinxInteractive method)
(pyiron.vasp.interactive.VaspInteractive method)
run_if_scheduler() (pyiron.gpaw.pyiron_ase.AseJob method)
run_interactive() (pyiron.atomistics.job.interactive.InteractiveInterface method)
run_lib() (pyiron.testing.executable.ExampleExecutable method)
run_static() (pyiron.atomistics.job.sqs.SQSJob method)
(pyiron.atomistics.job.structurecontainer.StructureContainer method)
(pyiron.atomistics.master.phonopy.PhonopyJob method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.interactive.scipy_minimizer.ScipyMinimizer method)
(pyiron.interactive.sxextoptint.SxExtOptInteractive method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.thermodynamics.sxphonons.SxPhonons method)
S
save() (pyiron.dft.job.generic.GenericDFTJob method)
scaled_pos_xyz() (pyiron.atomistics.structure.atoms.Atoms method)
ScipyMinimizer (class in pyiron.interactive.scipy_minimizer)
ScipyMinimizerOutput (class in pyiron.interactive.scipy_minimizer)
select_index() (pyiron.atomistics.structure.atoms.Atoms method)
select_parent_index() (pyiron.atomistics.structure.atoms.Atoms method)
SerialMaster (class in pyiron.atomistics.master.serial)
set() (pyiron.sphinx.base.Group method)
set_absolute() (pyiron.atomistics.structure.atoms.Atoms method)
set_algorithm() (pyiron.vasp.base.VaspBase method)
set_array() (pyiron.gpaw.pyiron_ase.AseAdapter method)
set_calculator() (pyiron.gpaw.gpaw.Gpaw method)
(pyiron.gpaw.pyiron_ase.AseJob method)
set_cell() (pyiron.atomistics.job.interactive.InteractiveInterface method)
set_check_overlap() (pyiron.sphinx.base.SphinxBase method)
set_complex_constraint() (pyiron.vasp.metadyn.VaspMetadyn method)
set_constraint() (pyiron.atomistics.structure.atoms.Atoms method)
set_convergence_precision() (pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
set_coulomb_interactions() (pyiron.vasp.base.VaspBase method)
set_dipole_correction() (pyiron.vasp.base.VaspBase method)
set_eddrmm_handling() (pyiron.vasp.base.VaspBase method)
set_ei() (pyiron.quickff.quickff.QuickFF method)
set_eigenvalues() (pyiron.dft.waves.bandstructure.Bandstructure method)
set_elastic_moduli() (pyiron.thermodynamics.hessian.HessianJob method)
set_electric_field() (pyiron.vasp.base.VaspBase method)
set_empty_states() (pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
set_encut() (in module pyiron.dft.job.generic)
(pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.dft.master.murnaghan_dft.MurnaghanDFT method)
set_energy_pot() (pyiron.atomistics.job.interactive.InteractiveInterface method)
set_energy_tot() (pyiron.atomistics.job.interactive.InteractiveInterface method)
set_exchange_correlation_functional() (pyiron.dft.job.generic.GenericDFTJob method)
set_fft_mesh() (pyiron.vasp.base.VaspBase method)
set_flag() (pyiron.sphinx.base.Group method)
set_for_band_structure_calc() (pyiron.vasp.base.VaspBase method)
set_force_constants() (pyiron.thermodynamics.hessian.HessianJob method)
set_forces() (pyiron.atomistics.job.interactive.InteractiveInterface method)
(pyiron.interactive.sxextoptint.SxExtOpt method)
set_group() (pyiron.sphinx.base.Group method)
set_initial_magnetic_moments() (pyiron.atomistics.structure.atoms.Atoms method)
set_initial_velocity() (pyiron.lammps.control.LammpsControl method)
set_input_to_read_only() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.interactive.activation_relaxation_technique.ART method)
(pyiron.interactive.scipy_minimizer.ScipyMinimizer method)
(pyiron.interactive.sxextoptint.SxExtOptInteractive method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
(pyiron.thermodynamics.sxphonons.SxUniqDispl method)
(pyiron.vasp.base.VaspBase method)
set_kmesh_by_density() (pyiron.vasp.base.Kpoints method)
set_kpoints() (in module pyiron.dft.job.generic)
(pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.dft.master.murnaghan_dft.MurnaghanDFT method)
set_kpoints_file() (pyiron.vasp.base.Kpoints method)
set_mixing_parameters() (pyiron.dft.job.generic.GenericDFTJob method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
set_momenta() (pyiron.gpaw.pyiron_ase.AseAdapter method)
set_mtd() (pyiron.yaff.yaff.Yaff method)
set_occupancy_smearing() (pyiron.sphinx.base.SphinxBase method)
(pyiron.vasp.base.VaspBase method)
set_parameter() (pyiron.sphinx.base.Group method)
set_positions() (pyiron.atomistics.job.interactive.InteractiveInterface method)
(pyiron.gpaw.pyiron_ase.AseAdapter method)
set_potential() (pyiron.lammps.base.LammpsBase method)
set_pressure() (pyiron.atomistics.job.interactive.InteractiveInterface method)
set_primitive_constraint() (pyiron.vasp.metadyn.VaspMetadyn method)
set_reference_structure() (pyiron.thermodynamics.hessian.HessianJob method)
set_relative() (pyiron.atomistics.structure.atoms.Atoms method)
set_repeat() (pyiron.atomistics.structure.atoms.Atoms method)
set_rwigs() (pyiron.vasp.base.VaspBase method)
set_server() (in module pyiron.thermodynamics.interfacemethod)
set_species() (pyiron.atomistics.structure.atoms.Atoms method)
set_spin_constraint() (pyiron.vasp.base.VaspBase method)
set_structure() (in module pyiron.atomistics.job.atomistic)
set_temperature() (pyiron.atomistics.job.interactive.InteractiveInterface method)
set_temperatures() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
set_us() (pyiron.yaff.yaff.Yaff method)
set_vdw() (pyiron.quickff.quickff.QuickFF method)
set_velocities() (pyiron.gpaw.pyiron_ase.AseAdapter method)
set_volumes() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk method)
setup_liquid_job() (in module pyiron.thermodynamics.interfacemethod)
shells() (pyiron.atomistics.structure.neighbors.Neighbors property)
simulation_cell() (pyiron.lammps.structure.LammpsStructure method)
sorted_indices() (pyiron.vasp.base.VaspBase property)
sparse_index() (in module pyiron.atomistics.structure.sparse_list)
SparseArray (class in pyiron.atomistics.structure.sparse_list)
SparseArrayElement (class in pyiron.atomistics.structure.sparse_list)
SparseList (class in pyiron.atomistics.structure.sparse_list)
SparseListElement (class in pyiron.atomistics.structure.sparse_list)
species() (pyiron.atomistics.structure.atoms.Atoms property)
species_from_hdf() (pyiron.atomistics.job.interactive.GenericInteractive method)
spherical_average_potential() (pyiron.atomistics.volumetric.generic.VolumetricData method)
Sphinx (class in pyiron.sphinx.sphinx)
SphinxBase (class in pyiron.sphinx.base)
SphinxInt2 (class in pyiron.sphinx.interactive)
SphinxInteractive (class in pyiron.sphinx.interactive)
SphinxJTHPotentialFile (class in pyiron.sphinx.potential)
SphinxOutput (class in pyiron.sphinx.interactive)
SphinxVolumetricData (class in pyiron.sphinx.volumetric_data)
spin_constraints() (pyiron.dft.job.generic.GenericDFTJob property)
(pyiron.vasp.base.VaspBase property)
splitter() (pyiron.sphinx.base.Output static method)
SQSJob (class in pyiron.atomistics.job.sqs)
SQSJobGenerator (class in pyiron.atomistics.master.sqsmaster)
SQSMaster (class in pyiron.atomistics.master.sqsmaster)
steps() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
stop_calculation() (pyiron.vasp.base.VaspBase method)
store_structure() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
strain_circle() (in module pyiron.thermodynamics.interfacemethod)
string2symbols() (in module pyiron.atomistics.structure.atoms)
string2vector() (in module pyiron.atomistics.structure.atoms)
strip_xc_from_potential_name() (in module pyiron.vasp.potential)
structure() (pyiron.atomistics.job.atomistic.AtomisticGenericJob property)
(pyiron.atomistics.job.interactive.GenericInteractive property)
(pyiron.atomistics.job.interactivewrapper.InteractiveWrapper property)
(pyiron.atomistics.job.structurecontainer.StructureContainer property)
(pyiron.atomistics.master.parallel.AtomisticParallelMaster property)
(pyiron.atomistics.master.serial.SerialMaster property)
(pyiron.dft.waves.bandstructure.Bandstructure property)
(pyiron.dft.waves.electronic.ElectronicStructure property)
(pyiron.gpaw.pyiron_ase.AseJob property)
(pyiron.lammps.interactive.LammpsInteractive property)
(pyiron.lammps.structure.LammpsStructure property)
(pyiron.project.Creator property)
(pyiron.sphinx.base.SphinxBase property)
(pyiron.sphinx.interactive.SphinxInteractive property)
(pyiron.testing.randomatomistic.AtomisticExampleJob property)
(pyiron.thermodynamics.hessian.HessianJob property)
(pyiron.vasp.base.Output property)
(pyiron.vasp.base.VaspBase property)
(pyiron.vasp.interactive.VaspInteractive property)
structure_atomic() (pyiron.lammps.structure.LammpsStructure method)
structure_bond() (pyiron.lammps.structure.LammpsStructure method)
structure_charge() (pyiron.lammps.structure.LammpsStructure method)
structure_full() (pyiron.lammps.structure.LammpsStructure method)
structure_lst() (pyiron.atomistics.job.structurecontainer.StructureContainer property)
(pyiron.atomistics.master.structure.StructureListMaster property)
StructureContainer (class in pyiron.atomistics.job.structurecontainer)
StructureFactory (class in pyiron.atomistics.structure.factory)
StructureJobGenerator (class in pyiron.atomistics.master.structure)
StructureListMaster (class in pyiron.atomistics.master.structure)
surface() (pyiron.atomistics.structure.factory.StructureFactory static method)
surface_hkl() (pyiron.atomistics.structure.factory.StructureFactory static method)
SxDynMat (class in pyiron.thermodynamics.sxphonons)
SxExtOpt (class in pyiron.interactive.sxextoptint)
SxExtOptInteractive (class in pyiron.interactive.sxextoptint)
SxExtOptOutput (class in pyiron.interactive.sxextoptint)
SxHarmPotTst (class in pyiron.thermodynamics.sxphonons)
SxPhonons (class in pyiron.thermodynamics.sxphonons)
SxPhononsJobGenerator (class in pyiron.thermodynamics.sxphonons)
SxUniqDispl (class in pyiron.thermodynamics.sxphonons)
symbol() (pyiron.atomistics.structure.atom.Atom property)
symbols2numbers() (in module pyiron.atomistics.structure.atoms)
symmetrize_vectors() (pyiron.atomistics.structure.atoms.Atoms method)
T
TableJob (class in pyiron.table.datamining)
tags() (pyiron.atomistics.structure.periodic_table.ChemicalElement property)
temperature() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
temperatures() (pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
(pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk property)
thermal (class in pyiron.atomistics.master.phonopy)
ThermoBulk (class in pyiron.atomistics.thermodynamics.thermo_bulk)
time() (pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
to_amat() (in module pyiron.lammps.base)
to_dict() (pyiron.vasp.potential.VaspPotentialSetter method)
to_hdf() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.atomistics.job.sqs.SQSJob method)
(pyiron.atomistics.job.structurecontainer.StructureContainer method)
(pyiron.atomistics.master.parallel.MapMaster method)
(pyiron.atomistics.master.phonopy.PhonopyJob method)
(pyiron.atomistics.master.structure.StructureListMaster method)
(pyiron.atomistics.structure.atoms.Atoms method)
(pyiron.atomistics.structure.periodic_table.ChemicalElement method)
(pyiron.atomistics.structure.sparse_list.SparseList method)
(pyiron.atomistics.volumetric.generic.VolumetricData method)
(pyiron.dft.waves.bandstructure.Bandstructure method)
(pyiron.dft.waves.electronic.ElectronicStructure method)
(pyiron.gaussian.gaussian.Gaussian method)
(pyiron.gpaw.gpaw.Gpaw method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.interactive.scipy_minimizer.ScipyMinimizer method)
(pyiron.interactive.scipy_minimizer.ScipyMinimizerOutput method)
(pyiron.lammps.base.Input method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.lammps.potential.LammpsPotential method)
(pyiron.quickff.quickff.QuickFF method)
(pyiron.sphinx.base.Output method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.sphinx.volumetric_data.SphinxVolumetricData method)
(pyiron.testing.randomatomistic.AtomisticExampleJob method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
(pyiron.thermodynamics.sxphonons.SxUniqDispl method)
(pyiron.vasp.base.DFTOutput method)
(pyiron.vasp.base.GenericOutput method)
(pyiron.vasp.base.Input method)
(pyiron.vasp.base.Kpoints method)
(pyiron.vasp.base.Output method)
(pyiron.vasp.base.VaspBase method)
(pyiron.vasp.interactive.DFTOutput method)
(pyiron.vasp.interactive.GenericOutput method)
(pyiron.vasp.metadyn.MetadynInput method)
(pyiron.vasp.metadyn.MetadynOutput method)
(pyiron.vasp.metadyn.VaspMetadyn method)
(pyiron.vasp.outcar.Outcar method)
(pyiron.vasp.volumetric_data.VaspVolumetricData method)
(pyiron.yaff.yaff.Yaff method)
to_hdf_minimal() (pyiron.vasp.outcar.Outcar method)
to_hdf_old() (pyiron.dft.waves.electronic.ElectronicStructure method)
to_sphinx() (pyiron.sphinx.base.Group method)
total_data (pyiron.atomistics.volumetric.generic.VolumetricData attribute)
total_data() (pyiron.atomistics.volumetric.generic.VolumetricData property)
(pyiron.sphinx.volumetric_data.SphinxVolumetricData property)
(pyiron.vasp.volumetric_data.VaspVolumetricData property)
total_displacements() (pyiron.atomistics.job.atomistic.GenericOutput property)
Trajectory (class in pyiron.atomistics.job.atomistic)
trajectory() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
translate_to_pylab (pyiron.dft.waves.bandstructure.Bandstructure attribute)
Tree (class in pyiron.atomistics.structure.neighbors)
U
unfold_cell() (pyiron.lammps.structure.UnfoldingPrism method)
UnfoldingPrism (class in pyiron.lammps.structure)
unwrapped_positions() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
update_potential() (pyiron.lammps.interactive.LammpsInteractive method)
V
validate_convergence() (in module pyiron.thermodynamics.interfacemethod)
validate_ready_to_run() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
(pyiron.atomistics.job.sqs.SQSJob method)
(pyiron.atomistics.master.elastic.ElasticTensor method)
(pyiron.atomistics.master.phonopy.PhonopyJob method)
(pyiron.interactive.activation_relaxation_technique.ART method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.lammps.interactive.LammpsInteractive method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.thermodynamics.hessian.HessianJob method)
(pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
(pyiron.vasp.base.VaspBase method)
(pyiron.vasp.interactive.VaspInteractive method)
value (pyiron.dft.waves.electronic.Kpoint attribute)
value() (pyiron.dft.waves.electronic.Kpoint property)
values() (pyiron.atomistics.structure.sparse_list.SparseList method)
Vasp (class in pyiron.vasp.vasp)
vasp_sorter() (in module pyiron.vasp.structure)
VaspBase (class in pyiron.vasp.base)
VaspCollectError
VaspInteractive (class in pyiron.vasp.interactive)
VaspMetadyn (class in pyiron.vasp.metadyn)
VaspPotential (class in pyiron.vasp.potential)
VaspPotentialAbstract (class in pyiron.vasp.potential)
VaspPotentialFile (class in pyiron.vasp.potential)
VaspPotentialSetter (class in pyiron.vasp.potential)
Vasprun (class in pyiron.vasp.vasprun)
vasprun_dict (pyiron.vasp.vasprun.Vasprun attribute)
VasprunError
VasprunWarning
VaspSol (class in pyiron.vasp.vaspsol)
VaspVolumetricData (class in pyiron.vasp.volumetric_data)
vbm() (pyiron.dft.waves.electronic.ElectronicStructure property)
vector_to_str() (pyiron.thermodynamics.sxphonons.SxDynMat static method)
view_potentials() (pyiron.lammps.base.LammpsBase method)
view_structure() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
vinet_energy() (in module pyiron.atomistics.master.murnaghan)
(pyiron.atomistics.master.murnaghan.EnergyVolumeFit static method)
visualize() (pyiron.atomistics.structure.atoms.Atoms property)
visualize_MO() (pyiron.gaussian.gaussian.Gaussian method)
volume() (pyiron.atomistics.job.atomistic.GenericOutput property)
(pyiron.atomistics.job.interactive.GenericInteractiveOutput property)
(pyiron.atomistics.job.interactivewrapper.ReferenceJobOutput property)
(pyiron.atomistics.master.murnaghan.DebyeModel property)
volume_lst() (pyiron.atomistics.master.murnaghan.EnergyVolumeFit property)
volumes() (pyiron.atomistics.thermodynamics.thermo_bulk.ThermoBulk property)
VolumetricData (class in pyiron.atomistics.volumetric.generic)
W
weight (pyiron.dft.waves.electronic.Kpoint attribute)
weight() (pyiron.dft.waves.electronic.Kpoint property)
write() (pyiron.vasp.base.Input method)
(pyiron.vasp.metadyn.MetadynInput method)
write_charge_density() (pyiron.vasp.base.VaspBase property)
write_chk() (in module pyiron.quickff.quickff)
(in module pyiron.yaff.yaff)
write_config() (in module pyiron.quickff.quickff)
write_constraints() (pyiron.vasp.metadyn.VaspMetadyn method)
write_cube_file() (pyiron.atomistics.volumetric.generic.VolumetricData method)
write_electrostatic_potential() (pyiron.vasp.base.VaspBase property)
write_file() (pyiron.vasp.potential.Potcar method)
write_harmpot() (pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
write_input() (in module pyiron.gaussian.gaussian)
(pyiron.atomistics.job.structurecontainer.StructureContainer method)
(pyiron.dft.master.convergence_kpoint_parallel.ConvKpointParallel method)
(pyiron.gaussian.gaussian.Gaussian method)
(pyiron.gpaw.pyiron_ase.AseJob method)
(pyiron.interactive.scipy_minimizer.ScipyMinimizer method)
(pyiron.interactive.sxextoptint.SxExtOptInteractive method)
(pyiron.lammps.base.LammpsBase method)
(pyiron.quickff.quickff.QuickFF method)
(pyiron.sphinx.base.SphinxBase method)
(pyiron.testing.randomatomistic.ExampleJob method)
(pyiron.thermodynamics.sxphonons.SxDynMat method)
(pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
(pyiron.thermodynamics.sxphonons.SxUniqDispl method)
(pyiron.vasp.base.VaspBase method)
(pyiron.vasp.metadyn.VaspMetadyn method)
(pyiron.yaff.yaff.Yaff method)
write_lammps_datafile() (in module pyiron.lammps.structure)
write_magmoms() (pyiron.vasp.base.VaspBase method)
write_pars() (in module pyiron.quickff.quickff)
(in module pyiron.yaff.yaff)
write_phonopy_force_constants() (pyiron.atomistics.master.phonopy.PhonopyJob method)
write_plumed_enhanced() (in module pyiron.yaff.yaff)
write_poscar() (in module pyiron.vasp.structure)
write_resolved_dos() (pyiron.vasp.base.VaspBase property)
write_restart() (pyiron.testing.executable.ExampleExecutable method)
write_restart_file() (pyiron.lammps.base.LammpsBase method)
write_spin_constraints() (pyiron.sphinx.base.InputWriter method)
write_structure() (pyiron.thermodynamics.sxphonons.SxHarmPotTst method)
(pyiron.thermodynamics.sxphonons.SxUniqDispl method)
write_sxdynmat() (pyiron.thermodynamics.sxphonons.SxDynMat method)
write_traj() (pyiron.atomistics.job.atomistic.AtomisticGenericJob method)
write_vasp_volumetric() (pyiron.atomistics.volumetric.generic.VolumetricData method)
write_wave_funct() (pyiron.vasp.base.VaspBase property)
write_yhess() (in module pyiron.yaff.yaff)
write_ynpt() (in module pyiron.yaff.yaff)
write_ynve() (in module pyiron.yaff.yaff)
write_ynvt() (in module pyiron.yaff.yaff)
write_yopt() (in module pyiron.yaff.yaff)
write_yopt_cell() (in module pyiron.yaff.yaff)
write_ysp() (in module pyiron.yaff.yaff)
X
xc() (pyiron.dft.job.generic.GenericDFTJob property)
Y
Yaff (class in pyiron.yaff.yaff)
YaffInput (class in pyiron.yaff.yaff)
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