193 lines
7.0 KiB
Python
193 lines
7.0 KiB
Python
import math
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from io import StringIO
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import numpy as np
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class Geom():
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"""Geometry definition for grid solvers"""
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def __init__(self,microstructure,size,homogenization=1,comments=[]):
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"""New geometry definition from array of microstructures and size"""
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if len(microstructure.shape) != 3:
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raise ValueError('Invalid microstructure shape {}'.format(*microstructure.shape))
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elif microstructure.dtype not in ['int','float']:
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raise TypeError('Invalid data type {} for microstructure'.format(microstructure.dtype))
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else:
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self.microstructure = microstructure
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if len(size) != 3 or any(np.array(size)<=0):
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raise ValueError('Invalid size {}'.format(*size))
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else:
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self.size = np.array(size)
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if not isinstance(homogenization,int) or homogenization < 1:
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raise TypeError('Invalid homogenization {}'.format(homogenization))
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else:
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self.homogenization = homogenization
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if not isinstance(comments,list):
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self.comments = [str(comments)]
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else:
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self.comments = [str(comment) for comment in comments]
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def __repr__(self):
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"""Basic information on geometry definition"""
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return 'grid a b c: {}\n'.format(' x '.join(map(str,self.get_grid()))) + \
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'size x y z: {}\n'.format(' x '.join(map(str,self.size))) + \
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'homogenization: {}\n'.format(self.homogenization) + \
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'# microstructures: {}\n'.format(len(np.unique(self.microstructure))) + \
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'max microstructures: {}\n'.format(np.max(self.microstructure))
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def update(self,microstructure=None,size=None,rescale=False):
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"""Updates microstructure and size"""
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grid_old = self.get_grid()
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size_old = self.size
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unique_old = len(np.unique(self.microstructure))
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max_old = np.max(self.microstructure)
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if size is not None and rescale:
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raise ValueError('Either set size explicitly or rescale automatically')
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if microstructure is not None:
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if len(microstructure.shape) != 3:
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raise ValueError('Invalid microstructure shape {}'.format(*microstructure.shape))
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elif microstructure.dtype not in ['int','float']:
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raise TypeError('Invalid data type {} for microstructure'.format(microstructure.dtype))
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else:
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self.microstructure = microstructure
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if size is not None:
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if len(size) != 3 or any(np.array(size)<=0):
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raise ValueError('Invalid size {}'.format(*size))
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else:
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self.size = np.array(size)
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if rescale:
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self.size = self.size * self.get_grid()/grid_old
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message = ''
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if np.any(grid_old != self.get_grid()):
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message += 'grid a b c: {}\n'.format(' x '.join(map(str,self.get_grid())))
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if np.any(size_old != self.get_size()):
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message += 'size x y z: {}\n'.format(' x '.join(map(str,self.size)))
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if unique_old != len(np.unique(self.microstructure)):
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message += '# microstructures: {}\n'.format(len(np.unique(self.microstructure)))
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if max_old != np.max(self.microstructure):
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message += 'max microstructures: {}\n'.format(np.max(self.microstructure))
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if message != '': return message
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def add_comment(self,comment):
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if not isinstance(comment,list):
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self.comments += [str(comment)]
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else:
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self.comments += [str(c) for c in comment]
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def set_microstructure(self,microstructure):
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self.microstructure = microstructure
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def set_size(self,size):
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self.size = np.array(size)
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def get_microstructure(self):
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return self.microstructure
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def get_size(self):
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return self.size
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def get_grid(self):
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return np.array(self.microstructure.shape)
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def get_homogenization(self):
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return self.homogenization
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@classmethod
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def from_file(cls,fname):
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"""Reads from *.geom file"""
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if isinstance(fname,str):
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f = open(fname)
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header_length,keyword = f.readline().split()
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if not keyword.startswith('head') or int(header_length) < 3:
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raise TypeError('Header length information missing or invalid')
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comments_old = [f.readline() for i in range(int(header_length))]
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else:
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fname.seek(0)
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header_length,keyword = f.readline().split()
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if not keyword.startswith('head') or int(header_length) < 3:
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raise TypeError('Header length information missing or invalid')
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comments_old = [fname.readline() for i in range(int(header_length))]
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comments = []
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for i,line in enumerate(comments_old):
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if line.lower().strip().startswith('grid'):
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grid = np.array([int(line.split()[j]) for j in [2,4,6]]) # assume correct order (a,b,c)
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elif line.lower().strip().startswith('size'):
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size = np.array([float(line.split()[j]) for j in [2,4,6]]) # assume correct order (x,y,z)
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elif line.lower().strip().startswith('homogenization'):
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homogenization = int(line.split()[1])
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else:
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comments.append(line.rstrip().strip())
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if isinstance(fname,str):
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raw = f.readlines()
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f.close()
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else:
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raw = fname.readlines()
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microstructure = np.empty(grid.prod()) # initialize as flat array
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i = 0
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for line in raw:
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items = line.split()
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if len(items) == 3:
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if items[1].lower() == 'of':
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items = np.ones(int(items[0]))*float(items[2])
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elif items[1].lower() == 'to':
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items = np.linspace(int(items[0]),int(items[2]),
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abs(int(items[2])-int(items[0]))+1,dtype=float)
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else: items = list(map(float,items))
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else: items = list(map(float,items))
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microstructure[i:i+len(items)] = items
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i += len(items)
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if i != grid.prod():
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raise TypeError('Invalid file: expected {} entries,found {}'.format(grid.prod(),i))
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microstructure = microstructure.reshape(grid,order='F')
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if np.any(np.mod(microstructure.flatten(),1)!=0.0):
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pass
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else:
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microstructure = microstructure.astype('int')
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return cls(microstructure.reshape(grid),size,homogenization,comments)
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def to_file(self,fname):
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"""Saves to file"""
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grid = self.get_grid()
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header = ['{} header'.format(len(self.comments)+3)]
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header += self.comments
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header.append('grid a {} b {} c {}'.format(*grid))
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header.append('size x {} y {} z {}'.format(*self.size))
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header.append('homogenization {}'.format(self.get_homogenization()))
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if self.microstructure.dtype == 'int':
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format_string='%{}i'.format(int(math.floor(math.log10(self.microstructure.max())+1)))
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else:
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format_string='%.18e'
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np.savetxt(fname, self.microstructure.reshape([grid[0],np.prod(grid[1:])],order='F').T,
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header='\n'.join(header), fmt=format_string, comments='')
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def show(self):
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"""Show raw content (as in file)"""
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f=StringIO()
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self.to_file(f)
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f.seek(0)
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return ''.join(f.readlines())
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