DAMASK_EICMD/python/damask/geom.py

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import numpy as np
import math
from io import StringIO
class Geom():
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"""Geometry definition for grid solvers"""
def __init__(self,size,microstructure,homogenization=1,comments=[]):
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"""New geometry definition from array of microstructures and size"""
if len(size) != 3 or any(np.array(size)<=0):
raise ValueError('invalid size')
else:
self.size = np.array(size)
if len(microstructure.shape) != 3:
raise ValueError('invalid microstructure')
else:
self.microstructure = microstructure
if not isinstance(homogenization,int) or homogenization < 1:
raise ValueError('invalid homogenization')
else:
self.homogenization = homogenization
if not isinstance(comments,list):
self.comments = [str(comments)]
else:
self.comments = [str(comment) for comment in comments]
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def __repr__(self):
"""Basic information on geometry definition"""
return 'grid a b c: {}\n'.format(' x '.join(map(str,self.get_grid()))) + \
'size x y z: {}\n'.format(' x '.join(map(str,self.get_size()))) + \
'homogenization: {}\n'.format(self.get_homogenization()) + \
'# microstructures: {}\n'.format(len(np.unique(self.microstructure))) + \
'max microstructures: {}\n'.format(np.max(self.microstructure))
def add_comment(self,comment):
if not isinstance(comment,list):
self.comments += [str(comment)]
else:
self.comments += [str(c) for c in comment]
def set_size(self,size):
self.size = np.array(size)
def get_size(self):
return self.size
def get_grid(self):
return np.array(self.microstructure.shape)
def get_homogenization(self):
return self.homogenization
@classmethod
def from_file(cls,fname):
if isinstance(fname,str):
with open(fname) as f:
header_length = int(f.readline().split()[0])
comments_old = [f.readline() for i in range(header_length)]
else:
fname.seek(0)
header_length = int(fname.readline().split()[0])
comments_old = [fname.readline() for i in range(header_length)]
comments = []
for i,line in enumerate(comments_old):
if line.lower().strip().startswith('grid'):
grid = np.array([int(line.split()[j]) for j in [2,4,6]]) # assume correct order (a,b,c)
elif line.lower().strip().startswith('size'):
size = np.array([float(line.split()[j]) for j in [2,4,6]]) # assume correct order (x,y,z)
elif line.lower().strip().startswith('homogenization'):
homogenization = int(line.split()[1])
else:
comments.append(line[:-1])
if isinstance(fname,str):
with open(fname) as f:
raw = f.readlines()[header_length+1:]
else:
raw = fname.readlines()
microstructure = np.empty(grid.prod()) # initialize as flat array
i = 0
for line in raw:
items = line.split()
if len(items) == 3:
if items[1].lower() == 'of':
items = np.ones(int(items[0]))*float(items[2])
elif items[1].lower() == 'to':
items = np.linspace(int(items[0]),int(items[2]),
abs(int(items[2])-int(items[0]))+1,dtype=float)
else: items = list(map(float,items))
else: items = list(map(float,items))
microstructure[i:i+len(items)] = items
i += len(items)
microstructure = microstructure.reshape(grid,order='F')
if np.any(np.mod(microstructure.flatten(),1)!=0.0):
pass
else:
microstructure = microstructure.astype('int')
return cls(size,microstructure.reshape(grid),homogenization,comments)
def to_file(self,fname):
grid = self.get_grid()
header = ['{} header'.format(len(self.comments)+3)]
header += self.comments
header.append('grid a {} b {} c {}'.format(*grid))
header.append('size x {} y {} z {}'.format(*self.get_size()))
header.append('homogenization {}'.format(self.get_homogenization()))
if self.microstructure.dtype == 'int':
format_string='%{}i'.format(int(math.floor(math.log10(self.microstructure.max())+1)))
else:
format_string='%.18e'
np.savetxt(fname, self.microstructure.reshape([grid[0],np.prod(grid[1:])],order='F').T,
header='\n'.join(header), fmt=format_string, comments='')
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def show(self):
f=StringIO()
self.to_file(f)
f.seek(0)
return ''.join(f.readlines())