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DAMASK_EICMD
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updated to new keywords + more verbosity

This commit is contained in:
Martin Diehl 2013-04-25 15:53:41 +00:00
parent f18c6c5903
commit 5d8664e230
1 changed files with 75 additions and 63 deletions
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126
processing/pre/geom_canvas.py
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@ -27,13 +27,13 @@ class extendedOption(Option):
# ----------------------- MAIN ------------------------------- # ----------------------- MAIN -------------------------------
identifiers = { identifiers = {
'resolution': ['a','b','c'], 'grid': ['a','b','c'],
'dimension': ['x','y','z'], 'size': ['x','y','z'],
'origin': ['x','y','z'], 'origin': ['x','y','z'],
} }
mappings = { mappings = {
'resolution': lambda x: int(x), 'grid': lambda x: int(x),
'dimension': lambda x: float(x), 'size': lambda x: float(x),
'origin': lambda x: float(x), 'origin': lambda x: float(x),
'homogenization': lambda x: int(x), 'homogenization': lambda x: int(x),
} }
@ -44,16 +44,16 @@ Changes the (three-dimensional) canvas of a spectral geometry description.
""" + string.replace('$Id$','\n','\\n') """ + string.replace('$Id$','\n','\\n')
) )
parser.add_option('-b', '--box', dest='resolution', type='int', nargs = 3, \ parser.add_option('-g', '--grid', dest='grid', type='int', nargs = 3, \
help='resolution of new canvas (a,b,c) %default') help='a,b,c grid of hexahedral box [unchanged]')
parser.add_option('-o', '--offset', dest='offset', type='int', nargs = 3, \ parser.add_option('-o', '--offset', dest='offset', type='int', nargs = 3, \
help='offset from old to new origin of grid %default') help='x,y,z offset from old to new origin of grid %default')
parser.add_option('-f', '--fill', dest='fill', type='int', \ parser.add_option('-f', '--fill', dest='fill', type='int', \
help='(background) canvas grain index') help='(background) canvas grain index [autodetect]')
parser.add_option('-2', '--twodimensional', dest='twoD', action='store_true', \ parser.add_option('-2', '--twodimensional', dest='twoD', action='store_true', \
help='output geom file with two-dimensional data arrangement') help='output geom file with two-dimensional data arrangement [%default]')
parser.set_defaults(resolution = [0,0,0]) parser.set_defaults(grid = [0,0,0])
parser.set_defaults(offset = [0,0,0]) parser.set_defaults(offset = [0,0,0])
parser.set_defaults(twoD = False) parser.set_defaults(twoD = False)
parser.set_defaults(fill = 0) parser.set_defaults(fill = 0)
@ -61,7 +61,6 @@ parser.set_defaults(fill = 0)
(options, filenames) = parser.parse_args() (options, filenames) = parser.parse_args()
# ------------------------------------------ setup file handles --------------------------------------- # ------------------------------------------ setup file handles ---------------------------------------
files = [] files = []
if filenames == []: if filenames == []:
files.append({'name':'STDIN', files.append({'name':'STDIN',
@ -89,7 +88,7 @@ for file in files:
m = re.search('(\d+)\s*head', firstline.lower()) m = re.search('(\d+)\s*head', firstline.lower())
if m: if m:
headerlines = int(m.group(1)) headerlines = int(m.group(1))
headers = [firstline]+[file['input'].readline() for i in range(headerlines)] headers = [file['input'].readline() for i in range(headerlines)]
else: else:
headerlines = 1 headerlines = 1
headers = firstline headers = firstline
@ -97,15 +96,19 @@ for file in files:
content = file['input'].readlines() content = file['input'].readlines()
file['input'].close() file['input'].close()
info = {'resolution': numpy.array(options.resolution), info = {
'dimension': numpy.array([0.0,0.0,0.0]), 'grid': numpy.array(options.grid),
'size': numpy.array([0.0,0.0,0.0]),
'origin': numpy.array([0.0,0.0,0.0]), 'origin': numpy.array([0.0,0.0,0.0]),
'homogenization': 1, 'microstructures': 0,
'homogenization': 0,
} }
new_header = [] new_header = []
for header in headers: for header in headers:
headitems = map(str.lower,header.split()) headitems = map(str.lower,header.split())
if headitems[0] == 'resolution': headitems[0] = 'grid'
if headitems[0] == 'dimension': headitems[0] = 'size'
if headitems[0] in mappings.keys(): if headitems[0] in mappings.keys():
if headitems[0] in identifiers.keys(): if headitems[0] in identifiers.keys():
for i in xrange(len(identifiers[headitems[0]])): for i in xrange(len(identifiers[headitems[0]])):
@ -114,67 +117,77 @@ for file in files:
else: else:
info[headitems[0]] = mappings[headitems[0]](headitems[1]) info[headitems[0]] = mappings[headitems[0]](headitems[1])
if numpy.all(options.resolution == 0): if numpy.all(options.grid == 0):
options.resolution = info['resolution'] options.grid = info['grid']
if numpy.all(info['resolution'] == 0): if numpy.all(info['grid'] == 0):
file['croak'].write('no resolution info found.\n') file['croak'].write('no grid info found.\n')
continue continue
if numpy.all(info['dimension'] == 0.0): if numpy.all(info['size'] == 0.0):
file['croak'].write('no dimension info found.\n') file['croak'].write('no size info found.\n')
continue continue
file['croak'].write('resolution: %s\n'%(' x '.join(map(str,info['resolution']))) + \ microstructure = numpy.zeros(info['grid'],'i')
'dimension: %s\n'%(' x '.join(map(str,info['dimension']))) + \
'origin: %s\n'%(' : '.join(map(str,info['origin']))) + \
'homogenization: %i\n'%info['homogenization'])
new_header.append("resolution\ta %i\tb %i\tc %i\n"%(
options.resolution[0],
options.resolution[1],
options.resolution[2],))
new_header.append("dimension\tx %f\ty %f\tz %f\n"%(
info['dimension'][0]/info['resolution'][0]*options.resolution[0],
info['dimension'][1]/info['resolution'][1]*options.resolution[1],
info['dimension'][2]/info['resolution'][2]*options.resolution[2],))
new_header.append("origin\tx %f\ty %f\tz %f\n"%(
info['origin'][0]+info['dimension'][0]/info['resolution'][0]*options.offset[0],
info['origin'][1]+info['dimension'][1]/info['resolution'][1]*options.offset[1],
info['origin'][2]+info['dimension'][2]/info['resolution'][2]*options.offset[2],))
new_header.append("homogenization\t%i\n"%info['homogenization'])
microstructure = numpy.zeros(info['resolution'],'i')
i = 0 i = 0
for line in content: for line in content:
for item in map(int,line.split()): for item in map(int,line.split()):
microstructure[i%info['resolution'][0], microstructure[i%info['grid'][0],
(i/info['resolution'][0])%info['resolution'][1], (i/info['grid'][0])%info['grid'][1],
i/info['resolution'][0] /info['resolution'][1]] = item i/info['grid'][0] /info['grid'][1]] = item
i += 1 i += 1
microstructure_cropped = numpy.zeros(options.resolution,'i') file['croak'].write('-- input --\n' + \
microstructure_cropped.fill({True:options.fill,False:microstructure.max()+1}[options.fill>0]) 'grid a b c: %s\n'%(' x '.join(map(str,info['grid']))) + \
xindex = list(set(xrange(options.offset[0],options.offset[0]+options.resolution[0])) & set(xrange(info['resolution'][0]))) 'size x y z: %s\n'%(' x '.join(map(str,info['size']))) + \
yindex = list(set(xrange(options.offset[1],options.offset[1]+options.resolution[1])) & set(xrange(info['resolution'][1]))) 'origin x y z: %s\n'%(' : '.join(map(str,info['origin']))) + \
zindex = list(set(xrange(options.offset[2],options.offset[2]+options.resolution[2])) & set(xrange(info['resolution'][2]))) 'homogenization: %i\n'%info['homogenization'] + \
'microstructures: %i\n'%info['microstructures'])
info['microstructures'] = microstructure.max()
newSize = info['size']/info['grid']*options.grid
newOrigin = info['origin']+info['size']/info['grid']*options.offset
new_header.append("grid\ta %i\tb %i\tc %i\n"%(options.grid[0],options.grid[1],options.grid[2]))
new_header.append("size\tx %f\ty %f\tz %f\n"%(newSize[0],newSize[1],newSize[2]))
new_header.append("origin\tx %f\ty %f\tz %f\n"%(newOrigin[0],newOrigin[1],newOrigin[2]))
new_header.append("homogenization\t%i\n"%info['homogenization'])
new_header.append("microstructures\t%i\n"%info['microstructures'])
microstructure_cropped = numpy.zeros(options.grid,'i')
microstructure_cropped.fill({True:options.fill,False:info['microstructures']+1}[options.fill>0])
xindex = list(set(xrange(options.offset[0],options.offset[0]+options.grid[0])) & \
set(xrange(info['grid'][0])))
yindex = list(set(xrange(options.offset[1],options.offset[1]+options.grid[1])) & \
set(xrange(info['grid'][1])))
zindex = list(set(xrange(options.offset[2],options.offset[2]+options.grid[2])) & \
set(xrange(info['grid'][2])))
translate_x = [i - options.offset[0] for i in xindex] translate_x = [i - options.offset[0] for i in xindex]
translate_y = [i - options.offset[1] for i in yindex] translate_y = [i - options.offset[1] for i in yindex]
translate_z = [i - options.offset[2] for i in zindex] translate_z = [i - options.offset[2] for i in zindex]
microstructure_cropped[min(translate_x):(max(translate_x)+1),min(translate_y):(max(translate_y)+1),min(translate_z):(max(translate_z)+1)] = microstructure[min(xindex):(max(xindex)+1),min(yindex):(max(yindex)+1),min(zindex):(max(zindex)+1)] microstructure_cropped[min(translate_x):(max(translate_x)+1),\
min(translate_y):(max(translate_y)+1),\
min(translate_z):(max(translate_z)+1)] \
= microstructure[min(xindex):(max(xindex)+1),\
min(yindex):(max(yindex)+1),\
min(zindex):(max(zindex)+1)]
formatwidth = int(math.floor(math.log10(microstructure.max())+1)) formatwidth = int(math.floor(math.log10(microstructure.max())+1))
file['croak'].write('-- output --\n' +\
'grid a b c: %s\n'%(' x '.join(map(str,options.grid))) + \
'size x y z: %s\n'%(' x '.join(map(str,newSize))) + \
'origin x y z: %s\n'%(' x '.join(map(str,newOrigin))) + \
'microstructures: %i\n'%microstructure.max())
# ------------------------------------------ assemble header --------------------------------------- # ------------------------------------------ assemble header ---------------------------------------
output = '%i\theader\n'%(len(new_header)) output = '%i\theader\n'%(len(new_header))
output += ''.join(new_header) output += ''.join(new_header)
# ------------------------------------- regenerate texture information ---------------------------------- # ------------------------------------- regenerate texture information ----------------------------
for z in xrange(options.resolution[2]): for z in xrange(options.grid[2]):
for y in xrange(options.resolution[1]): for y in xrange(options.grid[1]):
output += {True:' ',False:'\n'}[options.twoD].join(map(lambda x: ('%%%ii'%formatwidth)%x, microstructure_cropped[:,y,z])) + '\n' output += {True:' ',False:'\n'}[options.twoD].join(map(lambda x: \
('%%%ii'%formatwidth)%x, microstructure_cropped[:,y,z])) + '\n'
#output += '\n'
# ------------------------------------------ output result --------------------------------------- # ------------------------------------------ output result ---------------------------------------
@ -183,4 +196,3 @@ for file in files:
if file['name'] != 'STDIN': if file['name'] != 'STDIN':
file['output'].close() file['output'].close()
os.rename(file['name']+'_tmp',file['name']) os.rename(file['name']+'_tmp',file['name'])