
import dataclasses
import re
import string
from typing import Any, Dict, Iterator, List, Mapping, Optional, Sequence, Tuple

import numpy as np

from . import residue_constants


SCREAMING_SNAKE_CASE							:Optional[Any]							 =				Mapping[str, np.ndarray]
SCREAMING_SNAKE_CASE							:List[str]							 =				Mapping[str, Any]  # Is a nested dict.
SCREAMING_SNAKE_CASE							:int							 =				0.01





@dataclasses.dataclass(frozen=__SCREAMING_SNAKE_CASE  )
class 							UpperCAmelCase      :




	'''simple docstring'''





	snake_case_					    =     42  # [num_res, num_atom_type, 3]

	# Amino-acid type for each residue represented as an integer between 0 and
	# 20, where 20 is 'X'.
	snake_case_					    =     42  # [num_res]

	# Binary float mask to indicate presence of a particular atom. 1.0 if an atom
	# is present and 0.0 if not. This should be used for loss masking.
	snake_case_					    =     42  # [num_res, num_atom_type]

	# Residue index as used in PDB. It is not necessarily continuous or 0-indexed.
	snake_case_					    =     42  # [num_res]

	# B-factors, or temperature factors, of each residue (in sq. angstroms units),
	# representing the displacement of the residue from its ground truth mean
	# value.
	snake_case_					    =     42  # [num_res, num_atom_type]

	# Chain indices for multi-chain predictions
	snake_case_					    =     None

	# Optional remark about the protein. Included as a comment in output PDB
	# files
	snake_case_					    =     None

	# Templates used to generate this protein (prediction-only)
	snake_case_					    =     None

	# Chain corresponding to each parent
	snake_case_					    =     None





def 						UpperCAmelCase			(	a_						)		->	Protein:







				"""simple docstring"""



				__A   			= r"(\[[A-Z]+\]\n)"
				__A   			= [tag.strip() for tag in re.split(a_		,   a_						) if len(a_						) > 0]
				__A   			= zip(tags[0::2]		,   [l.split("\n"						) for l in tags[1::2]]						)

				__A   			= ["N", "CA", "C"]
				__A   			= None
				__A   			= None
				__A   			= None
				for g in groups:
								if "[PRIMARY]" == g[0]:
												__A   			= g[1][0].strip()
												for i in range(len(a_						)						):
																if seq[i] not in residue_constants.restypes:
																				__A   			= "X"  # FIXME: strings are immutable
												__A   			= np.array(
												    [residue_constants.restype_order.get(a_		,   residue_constants.restype_num						) for res_symbol in seq]						)
								elif "[TERTIARY]" == g[0]:
												__A   			= []
												for axis in range(3						):
																tertiary.append(list(map(a_		,   g[1][axis].split()						)						)						)
												__A   			= np.array(a_						)
												__A   			= np.zeros((len(tertiary[0]						) // 3, residue_constants.atom_type_num, 3)						).astype(np.floataa						)
												for i, atom in enumerate(a_						):
																__A   			= np.transpose(tertiary_np[:, i::3]						)
												atom_positions *= PICO_TO_ANGSTROM
								elif "[MASK]" == g[0]:
												__A   			= np.array(list(map({"-": 0, "+": 1}.get		,   g[1][0].strip()						)						)						)
												__A   			= np.zeros(
												    (
												        len(a_						),
												        residue_constants.atom_type_num,
												    )						).astype(np.floataa						)
												for i, atom in enumerate(a_						):
																__A   			= 1
												atom_mask *= mask[..., None]

				assert aatype is not None

				return Protein(
				    atom_positions=a_		,   atom_mask=a_		,   aatype=a_		,   residue_index=np.arange(len(a_						)						)		,   b_factors=a_		,   )


def 						UpperCAmelCase			(	a_		,   a_ = 0						)		->	List[str]:







				"""simple docstring"""



				__A   			= []

				__A   			= prot.remark
				if remark is not None:
								pdb_headers.append(F'''REMARK {remark}'''						)

				__A   			= prot.parents
				__A   			= prot.parents_chain_index
				if parents is not None and parents_chain_index is not None:
								__A   			= [p for i, p in zip(a_		,   a_						) if i == chain_id]

				if parents is None or len(a_						) == 0:
								__A   			= ["N/A"]

				pdb_headers.append(F'''PARENT {' '.join(a_						)}'''						)

				return pdb_headers


def 						UpperCAmelCase			(	a_		,   a_						)		->	str:







				"""simple docstring"""



				__A   			= []
				__A   			= pdb_str.split("\n"						)

				__A   			= prot.remark
				if remark is not None:
								out_pdb_lines.append(F'''REMARK {remark}'''						)

				__A   			= 42
				if prot.parents is not None and len(prot.parents						) > 0:
								__A   			= []
								if prot.parents_chain_index is not None:
												__A   			= {}
												for p, i in zip(prot.parents		,   prot.parents_chain_index						):
																parent_dict.setdefault(str(a_						)		,   []						)
																parent_dict[str(a_						)].append(a_						)

												__A   			= max([int(a_						) for chain_idx in parent_dict]						)
												for i in range(max_idx + 1						):
																__A   			= parent_dict.get(str(a_						)		,   ["N/A"]						)
																parents_per_chain.append(a_						)
								else:
												parents_per_chain.append(list(prot.parents						)						)
				else:
								__A   			= [["N/A"]]

				def make_parent_line(a_						) -> str:
								return F'''PARENT {' '.join(a_						)}'''

				out_pdb_lines.append(make_parent_line(parents_per_chain[0]						)						)

				__A   			= 0
				for i, l in enumerate(a_						):
								if "PARENT" not in l and "REMARK" not in l:
												out_pdb_lines.append(a_						)
								if "TER" in l and "END" not in lines[i + 1]:
												chain_counter += 1
												if not chain_counter >= len(a_						):
																__A   			= parents_per_chain[chain_counter]
												else:
																__A   			= ["N/A"]

												out_pdb_lines.append(make_parent_line(a_						)						)

				return "\n".join(a_						)


def 						UpperCAmelCase			(	a_						)		->	str:







				"""simple docstring"""



				__A   			= residue_constants.restypes + ["X"]

				def res_atoa(a_						) -> str:
								return residue_constants.restype_atoa.get(restypes[r]		,   "UNK"						)

				__A   			= residue_constants.atom_types

				__A   			= []

				__A   			= prot.atom_mask
				__A   			= prot.aatype
				__A   			= prot.atom_positions
				__A   			= prot.residue_index.astype(np.intaa						)
				__A   			= prot.b_factors
				__A   			= prot.chain_index

				if np.any(aatype > residue_constants.restype_num						):
								raise ValueError("Invalid aatypes."						)

				__A   			= get_pdb_headers(a_						)
				if len(a_						) > 0:
								pdb_lines.extend(a_						)

				__A   			= aatype.shape[0]
				__A   			= 1
				__A   			= 0
				__A   			= string.ascii_uppercase
				__A   			= None
				# Add all atom sites.
				for i in range(a_						):
								__A   			= res_atoa(aatype[i]						)
								for atom_name, pos, mask, b_factor in zip(a_		,   atom_positions[i]		,   atom_mask[i]		,   b_factors[i]						):
												if mask < 0.5:
																continue

												__A   			= "ATOM"
												__A   			= atom_name if len(a_						) == 4 else F''' {atom_name}'''
												__A   			= ""
												__A   			= ""
												__A   			= 1.00
												__A   			= atom_name[0]  # Protein supports only C, N, O, S, this works.
												__A   			= ""

												__A   			= "A"
												if chain_index is not None:
																__A   			= chain_tags[chain_index[i]]

												# PDB is a columnar format, every space matters here!
												__A   			= (
												    F'''{record_type:<6}{atom_index:>5} {name:<4}{alt_loc:>1}'''
												    F'''{res_name_a:>3} {chain_tag:>1}'''
												    F'''{residue_index[i]:>4}{insertion_code:>1}   '''
												    F'''{pos[0]:>8.3f}{pos[1]:>8.3f}{pos[2]:>8.3f}'''
												    F'''{occupancy:>6.2f}{b_factor:>6.2f}          '''
												    F'''{element:>2}{charge:>2}'''
												)
												pdb_lines.append(a_						)
												atom_index += 1

								__A   			= i == n - 1
								if chain_index is not None:
												if i != n - 1 and chain_index[i + 1] != prev_chain_index:
																__A   			= True
																__A   			= chain_index[i + 1]

								if should_terminate:
												# Close the chain.
												__A   			= "TER"
												__A   			= (
												    F'''{chain_end:<6}{atom_index:>5}      {res_atoa(aatype[i]						):>3} {chain_tag:>1}{residue_index[i]:>4}'''
												)
												pdb_lines.append(a_						)
												atom_index += 1

												if i != n - 1:
																# "prev" is a misnomer here. This happens at the beginning of
																# each new chain.
																pdb_lines.extend(get_pdb_headers(a_		,   a_						)						)

				pdb_lines.append("END"						)
				pdb_lines.append(""						)
				return "\n".join(a_						)


def 						UpperCAmelCase			(	a_						)		->	np.ndarray:







				"""simple docstring"""



				return residue_constants.STANDARD_ATOM_MASK[prot.aatype]


def 						UpperCAmelCase			(	a_		,   a_		,   a_ = None		,   a_ = None		,   a_ = None		,   a_ = None		,   a_ = None		,   )		->	Protein:







				"""simple docstring"""



				return Protein(
				    aatype=features["aatype"]		,   atom_positions=result["final_atom_positions"]		,   atom_mask=result["final_atom_mask"]		,   residue_index=features["residue_index"] + 1		,   b_factors=b_factors if b_factors is not None else np.zeros_like(result["final_atom_mask"]						)		,   chain_index=a_		,   remark=a_		,   parents=a_		,   parents_chain_index=a_		,   )


from __future__ import annotations




def    __UpperCamelCase     (				lowerCAmelCase__							:				list[float]  ,   lowerCAmelCase__							:				list[float]  ):
 __a :  Dict						=  sorted(numsa + numsa  )
 __a				,       __a :  Optional[Any]						=  divmod(len(lowerCAmelCase__  )  ,   2  )
 if mod == 1:
  return all_numbers[div]
 else:
  return (all_numbers[div] + all_numbers[div - 1]) / 2


if __name__ == "__main__":
      import doctest

      doctest.testmod()
      lowercase__       =[float(x) for x in input('Enter the elements of first array: ').split()]
      lowercase__       =[float(x) for x in input('Enter the elements of second array: ').split()]
      print(F"""The median of two arrays is: {median_of_two_arrays(array_a, array_a)}""")
