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DAMASK_EICMD
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added option to reverse inside/outside of primitive body

This commit is contained in:
Philip Eisenlohr 2019-05-23 12:03:54 -04:00
parent 0fe43c50ab
commit e6cec6ecbe
1 changed files with 26 additions and 17 deletions
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43
processing/pre/geom_addPrimitive.py
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@ -43,7 +43,7 @@ parser.add_option('-e', '--exponent', dest='exponent',
1 gives a sphere (|x|^(2^1) + |y|^(2^1) + |z|^(2^1) < 1), \ 1 gives a sphere (|x|^(2^1) + |y|^(2^1) + |z|^(2^1) < 1), \
large values produce boxes, negative turns concave.') large values produce boxes, negative turns concave.')
parser.add_option('-f', '--fill', dest='fill', parser.add_option('-f', '--fill', dest='fill',
type='int', metavar = 'int', type='float', metavar = 'float',
help='grain index to fill primitive. "0" selects maximum microstructure index + 1 [%default]') help='grain index to fill primitive. "0" selects maximum microstructure index + 1 [%default]')
parser.add_option('-q', '--quaternion', dest='quaternion', parser.add_option('-q', '--quaternion', dest='quaternion',
type='float', nargs = 4, metavar=' '.join(['float']*4), type='float', nargs = 4, metavar=' '.join(['float']*4),
@ -60,15 +60,24 @@ parser.add_option( '--nonperiodic', dest='periodic',
parser.add_option( '--realspace', dest='realspace', parser.add_option( '--realspace', dest='realspace',
action='store_true', action='store_true',
help = '-c and -d span [origin,origin+size] instead of [0,grid] coordinates') help = '-c and -d span [origin,origin+size] instead of [0,grid] coordinates')
parser.add_option( '--invert', dest='inside',
action='store_false',
help = 'invert the volume filled by the primitive (inside/outside)')
parser.add_option('--float', dest = 'float',
action = 'store_true',
help = 'use float input')
parser.set_defaults(center = (.0,.0,.0), parser.set_defaults(center = (.0,.0,.0),
fill = 0, fill = 0.0,
degrees = False, degrees = False,
exponent = (20,20,20), # box shape by default exponent = (20,20,20), # box shape by default
periodic = True, periodic = True,
realspace = False, realspace = False,
inside = True,
float = False,
) )
(options, filenames) = parser.parse_args() (options, filenames) = parser.parse_args()
if options.dimension is None: if options.dimension is None:
parser.error('no dimension specified.') parser.error('no dimension specified.')
if options.angleaxis is not None: if options.angleaxis is not None:
@ -78,6 +87,8 @@ elif options.quaternion is not None:
else: else:
rotation = damask.Rotation() rotation = damask.Rotation()
datatype = 'f' if options.float else 'i'
options.center = np.array(options.center) options.center = np.array(options.center)
options.dimension = np.array(options.dimension) options.dimension = np.array(options.dimension)
# undo logarithmic sense of exponent and generate ellipsoids for negative dimensions (backward compatibility) # undo logarithmic sense of exponent and generate ellipsoids for negative dimensions (backward compatibility)
@ -97,13 +108,7 @@ for name in filenames:
table.head_read() table.head_read()
info,extra_header = table.head_getGeom() info,extra_header = table.head_getGeom()
damask.util.report_geom(info)
damask.util.croak(['grid a b c: %s'%(' x '.join(map(str,info['grid']))),
'size x y z: %s'%(' x '.join(map(str,info['size']))),
'origin x y z: %s'%(' : '.join(map(str,info['origin']))),
'homogenization: %i'%info['homogenization'],
'microstructures: %i'%info['microstructures'],
])
errors = [] errors = []
if np.any(info['grid'] < 1): errors.append('invalid grid a b c.') if np.any(info['grid'] < 1): errors.append('invalid grid a b c.')
@ -115,7 +120,7 @@ for name in filenames:
#--- read data ------------------------------------------------------------------------------------ #--- read data ------------------------------------------------------------------------------------
microstructure = table.microstructure_read(info['grid']) # read microstructure microstructure = table.microstructure_read(info['grid'],datatype) # read microstructure
# --- do work ------------------------------------------------------------------------------------ # --- do work ------------------------------------------------------------------------------------
@ -123,7 +128,7 @@ for name in filenames:
'microstructures': 0, 'microstructures': 0,
} }
options.fill = microstructure.max()+1 if options.fill == 0 else options.fill options.fill = np.nanmax(microstructure)+1 if options.fill == 0 else options.fill
microstructure = microstructure.reshape(info['grid'],order='F') microstructure = microstructure.reshape(info['grid'],order='F')
@ -193,19 +198,23 @@ for name in filenames:
grid[1] * j : grid[1] * (j+1), grid[1] * j : grid[1] * (j+1),
grid[2] * k : grid[2] * (k+1)])**options.exponent[2] <= 1.0) grid[2] * k : grid[2] * (k+1)])**options.exponent[2] <= 1.0)
microstructure = np.where(inside, options.fill, microstructure) microstructure = np.where(inside,
options.fill if options.inside else microstructure,
microstructure if options.inside else options.fill)
else: # nonperiodic, much lighter on resources else: # nonperiodic, much lighter on resources
microstructure = np.where(np.abs(X)**options.exponent[0] + microstructure = np.where(np.abs(X)**options.exponent[0] +
np.abs(Y)**options.exponent[1] + np.abs(Y)**options.exponent[1] +
np.abs(Z)**options.exponent[2] <= 1.0, options.fill, microstructure) np.abs(Z)**options.exponent[2] <= 1.0,
options.fill if options.inside else microstructure,
microstructure if options.inside else options.fill)
np.seterr(**old_settings) # Reset warnings to old state np.seterr(**old_settings) # Reset warnings to old state
newInfo['microstructures'] = microstructure.max() newInfo['microstructures'] = len(np.unique(microstructure))
# --- report --------------------------------------------------------------------------------------- # --- report ---------------------------------------------------------------------------------------
if (newInfo['microstructures'] != info['microstructures']): if (newInfo['microstructures'] != info['microstructures']):
damask.util.croak('--> microstructures: %i'%newInfo['microstructures']) damask.util.croak('--> microstructures: {}'.format(newInfo['microstructures']))
#--- write header --------------------------------------------------------------------------------- #--- write header ---------------------------------------------------------------------------------
@ -225,9 +234,9 @@ for name in filenames:
# --- write microstructure information ------------------------------------------------------------ # --- write microstructure information ------------------------------------------------------------
formatwidth = int(math.floor(math.log10(microstructure.max())+1)) format = '%g' if options.float else '%{}i'.format(int(math.floor(math.log10(np.nanmax(microstructure))+1)))
table.data = microstructure.reshape((info['grid'][0],info['grid'][1]*info['grid'][2]),order='F').transpose() table.data = microstructure.reshape((info['grid'][0],info['grid'][1]*info['grid'][2]),order='F').transpose()
table.data_writeArray('%%%ii'%(formatwidth),delimiter = ' ') table.data_writeArray(format,delimiter = ' ')
#--- output finalization -------------------------------------------------------------------------- #--- output finalization --------------------------------------------------------------------------