jax_dna.simulators.oxdna.utils

Utilities for the oxDNA simulator.

Attributes

ERR_CANNOT_PROCESS_SRC_H
ERR_INVALID_HEADER_TYPE
SYMPY_EVAL_N
DEFAULT_OXDNA_VARIABLE_MAPPER
MIN_VALID_HEADER_TOKEN_COUNT

Functions

_parse_value_in(→ int | float | str)
_parse_value_out(→ str)
read_src_h(→ dict[str, int | float | str])	Parse the src/model.h file to get the parameters.
write_src_h(→ None)	Write the src/model.h file with the new parameters.
update_params(→ None)	Update the src/model.h file with the new parameters.

Module Contents

jax_dna.simulators.oxdna.utils.ERR_CANNOT_PROCESS_SRC_H = 'Cannot process src/model.h file. Failed parsing: {}'

jax_dna.simulators.oxdna.utils.ERR_INVALID_HEADER_TYPE = 'Invalid header value variable {} with value {}'

jax_dna.simulators.oxdna.utils.SYMPY_EVAL_N: int = 32

jax_dna.simulators.oxdna.utils.DEFAULT_OXDNA_VARIABLE_MAPPER

jax_dna.simulators.oxdna.utils.MIN_VALID_HEADER_TOKEN_COUNT = 3

jax_dna.simulators.oxdna.utils._parse_value_in(value: str) → int | float | str

jax_dna.simulators.oxdna.utils._parse_value_out(value: int | float | str) → str

jax_dna.simulators.oxdna.utils.read_src_h(src_h: pathlib.Path) → dict[str, int | float | str]

Parse the src/model.h file to get the parameters.

jax_dna.simulators.oxdna.utils.write_src_h(src_h: pathlib.Path, params: dict[str, tuple[jax_dna.utils.types.oxDNAModelHType, int | float | str]]) → None

Write the src/model.h file with the new parameters.

jax_dna.simulators.oxdna.utils.update_params(src_h: pathlib.Path, new_params: list[jax_dna.utils.types.Params]) → None

Update the src/model.h file with the new parameters.