general speed up
spectral format records physical coordinates tessellation now based on phys coords instead of discretization.
This commit is contained in:
Philip Eisenlohr
parent
4ee40df5ba
commit
ee7a8ad52a
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@ -45,7 +45,9 @@ def output(cmds,locals,dest):
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#--------------------
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def init():
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#--------------------
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return ["*new_model yes",
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"*reset",
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"*select_clear",
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@ -59,7 +61,9 @@ def init():
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]
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def mesh(N,d):
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#--------------------
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def mesh(r,d):
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#--------------------
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return [
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"*add_nodes",
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"%f %f %f"%(0.0,0.0,0.0),
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@ -73,11 +77,11 @@ def mesh(N,d):
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"*add_elements",
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range(1,9),
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"*sub_divisions",
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"%i %i %i"%(N[2],N[1],N[0]),
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"%i %i %i"%(r[2],r[1],r[0]),
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"*subdivide_elements",
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"all_existing",
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"*set_sweep_tolerance",
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"%f"%(float(min(d))/max(N)/2.0),
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"%f"%(float(min(d))/max(r)/2.0),
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"*sweep_all",
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"*renumber_all",
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"*set_move_scale_factor x -1",
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@ -89,7 +93,9 @@ def mesh(N,d):
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]
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#--------------------
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def material():
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#--------------------
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cmds = [\
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"*new_mater standard",
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"*mater_option general:state:solid",
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@ -107,7 +113,9 @@ def material():
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return cmds
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#--------------------
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def geometry():
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#--------------------
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cmds = [\
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"*geometry_type mech_three_solid",
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"*geometry_option red_integ_capacity:on",
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@ -120,13 +128,13 @@ def geometry():
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return cmds
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def initial_conditions(N,data):
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#--------------------
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def initial_conditions(homogenization,grains):
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#--------------------
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elements = []
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element = 0
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for line in data:
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for id in grains:
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element += 1
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phi1,phi,phi2,x,y,z,id,phase = line.split()
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id = int(id)
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if len(elements) < id:
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for i in range(id-len(elements)):
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elements.append([])
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@ -134,17 +142,17 @@ def initial_conditions(N,data):
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cmds = [\
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"*new_icond",
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"*icond_name temperature",
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"*icond_name _temperature",
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"*icond_type state_variable",
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"*icond_param_value state_var_id 1",
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"*icond_dof_value var 300",
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"*add_icond_elements",
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"all_existing",
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"*new_icond",
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"*icond_name homogenization",
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"*icond_name _homogenization",
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"*icond_type state_variable",
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"*icond_param_value state_var_id 2",
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"*icond_dof_value var 1",
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"*icond_dof_value var %i"%homogenization,
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"*add_icond_elements",
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"all_existing",
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]
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@ -163,10 +171,67 @@ def initial_conditions(N,data):
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return cmds
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#--------------------
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def parse_geomFile(content,homog):
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#--------------------
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(skip,key) = content[0].split()[:2]
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if key[:4].lower() == 'head':
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skip = int(skip)+1
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else:
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skip = 0
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res = [0,0,0]
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dim = [0.0,0.0,0.0]
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homog = 0
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for line in content[:skip]:
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data = line.split()
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if data[0].lower() == 'resolution':
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res = map(int,data[2:8:2])
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if data[0].lower() == 'dimension':
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dim = map(float,data[2:8:2])
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if data[0].lower() == 'homogenization':
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homog = int(data[1])
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grains = []
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for line in content[skip:]:
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grains.append(int(line.split()[0]))
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return (res,dim,homog,grains)
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#--------------------
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def parse_spectralFile(content,homog):
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#--------------------
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coords = [{},{},{}]
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maxBox = [-1.0e20,-1.0e20,-1.0e20]
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minBox = [ 1.0e20, 1.0e20, 1.0e20]
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dim = [0.0,0.0,0.0]
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res = [0,0,0]
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grains = []
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for line in content:
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data = line.split()[3:7]
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grains.append(int(data[3]))
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for i in range(3):
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maxBox[i] = max(maxBox[i],float(data[i]))
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minBox[i] = min(minBox[i],float(data[i]))
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coords[i][data[i]] = True
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for i in range(3):
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res[i] = len(coords[i])
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dim[i] = (maxBox[i]-minBox[i])*res[i]/(res[i]-1.0)
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return (res,dim,homog,grains)
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# ----------------------- MAIN -------------------------------
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parser = OptionParser(usage='%prog [options] spectral.datafile', description = """
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Generate FE hexahedral mesh from spectral description file of format: phi1,Phi,phi2,x,y,z,id,phase.
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Generate FE hexahedral mesh from spectral description file.
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Acceptable formats are
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geom: header plus list of grain numbers or
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spectral: phi1,Phi,phi2,x,y,z,id,phase.
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$Id$
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""")
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@ -176,12 +241,20 @@ parser.add_option("-p", "--port", type="int",\
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parser.add_option("-d", "--dimension", type="int", nargs=3,\
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dest="d",\
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help="physical dimension")
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parser.add_option("-N", "--subdivisions", type="int", nargs=3,\
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dest="N",\
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help="number of subdivisions")
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parser.add_option("--homogenization", type="int",\
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dest="homogenization",\
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help="index of homogenization to be chosen from material.config file")
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parser.add_option("-s", "--spectral", action="store_const", const="spectral",\
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dest="filetype",\
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help="file has 'spectral' format")
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parser.add_option("-g", "--geom", action="store_const", const="geom",\
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dest="filetype",\
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help="file has 'geom' format")
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parser.set_defaults(homogenization = 1)
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(options, args) = parser.parse_args()
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parser.set_defaults(d = (16,16,16))
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parser.set_defaults(N = (16,16,16))
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try:
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file = open('%s/../MSCpath'%os.path.dirname(os.path.realpath(sys.argv[0])))
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@ -203,10 +276,8 @@ for release,subdirs in sorted(releases.items(),reverse=True):
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try:
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from py_mentat import *
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except:
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print('error: no valid Mentat release found in %s'%MSCpath)
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sys.exit(-1)
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(options, args) = parser.parse_args()
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print('no valid Mentat release found in %s'%MSCpath)
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if options.port != None: sys.exit(-1)
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if not os.path.isfile(args[0]):
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parser.error("cannot open %s"%args[0])
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@ -215,12 +286,28 @@ file = open(args[0])
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content = file.readlines()
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file.close()
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if options.filetype not in ['spectral','geom']:
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options.filetype = os.path.splitext(args[0])[1][1:]
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print '\nparsing %s...'%options.filetype,
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sys.stdout.flush()
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(res,dim,homog,grains) = {\
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'geom': parse_geomFile,
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'spectral': parse_spectralFile,
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}[options.filetype](content,options.homogenization)
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print '%i grains in %s with resolution %s and homogenization %i\n'%(len(list(set(grains))),str(dim),str(res),homog)
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cmds = [\
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init(),
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mesh(options.N,options.d),
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mesh(res,dim),
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material(),
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geometry(),
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initial_conditions(options.N,content),
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initial_conditions(homog,grains),
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'*identify_sets',
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'*redraw',
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]
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outputLocals = {}
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@ -27,6 +27,7 @@ program voronoi
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print*, '******************************************************************************'
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print*, ' Voronoi description file'
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print*, '******************************************************************************'
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print*, '$Id$'
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print*, ''
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print*, 'generates:'
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print*, ' * description file "_OUTPUT_.seeds":'
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@ -172,16 +172,17 @@ program voronoi
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logical gotN_Seeds, gotResolution
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logical, dimension(:), allocatable :: grainCheck
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character(len=1024) input_name, output_name, format1, format2, N_Digits, line, key
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integer(pInt) a, b, c, N_Seeds, seedPoint, theGrain, minDistance, myDistance, i, j, k, l, m
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integer(pInt), dimension(3) :: coordinates
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integer(pInt) a, b, c, N_Seeds, theGrain, i, j, k, l, m
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integer(pInt), dimension (1+2*7) :: posGeom
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real(pReal), dimension(:,:), allocatable :: grainEuler, seeds
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real(pReal), dimension(3) :: dim
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real(pReal), dimension(3) :: step,dim,delta
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real(pReal) minDist, theDist
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real(pReal), parameter :: pi = 3.14159265358979323846264338327950288419716939937510_pReal
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print*, '******************************************************************************'
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print*, ' Spectral Method Problem Set-up'
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print*, '******************************************************************************'
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print*, '$Id$'
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print*, ''
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print*, 'generates:'
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print*, ' * geom file "_OUTPUT_.geom": Geometrical information for solver'
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@ -220,7 +221,7 @@ program voronoi
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enddo
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100 allocate(grainEuler(N_Seeds,3))
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allocate(Seeds(N_Seeds,3))
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allocate(seeds(N_Seeds,3))
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allocate(grainCheck(N_Seeds))
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grainCheck = .false.
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@ -232,6 +233,10 @@ program voronoi
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write(*, '(A)', advance = 'NO') 'New third resolution: '
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read(*, *), c
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step(1) = 1.0_pReal/real(a,pReal)
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step(2) = 1.0_pReal/real(b,pReal)
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step(3) = 1.0_pReal/real(c,pReal)
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write(*, '(A)', advance = 'NO') 'First dimension: '
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read(*, *), dim(1)
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write(*, '(A)', advance = 'NO') 'Second dimension: '
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@ -251,19 +256,14 @@ program voronoi
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do i=1, N_seeds
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read(20,'(a1024)') line
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if (IO_isBlank(line)) cycle ! skip empty lines
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posGeom = IO_stringPos(line,6)
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Seeds(i,1)=IO_floatValue(line,posGeom,1)
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Seeds(i,2)=IO_floatValue(line,posGeom,2)
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Seeds(i,3)=IO_floatValue(line,posGeom,3)
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grainEuler(i,1)=IO_floatValue(line,posGeom,4)
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grainEuler(i,2)=IO_floatValue(line,posGeom,5)
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grainEuler(i,3)=IO_floatValue(line,posGeom,6)
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posGeom = IO_stringPos(line,6) ! split line
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do j=1,3
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seeds(i,j) = IO_floatValue(line,posGeom,j)
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grainEuler(i,j) = IO_floatValue(line,posGeom,j+3)
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enddo
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enddo
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close(20)
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seeds(:,1) = seeds(:,1)*real(a, pReal)
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seeds(:,2) = seeds(:,2)*real(b, pReal)
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seeds(:,3) = seeds(:,3)*real(c, pReal)
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! calculate No. of digits needed for name of the grains
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i = 1 + int( log10(real( N_Seeds )))
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@ -302,33 +302,38 @@ program voronoi
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write(20, '(A)'), 'homogenization 1'
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format1 = '(I'//trim(N_Digits)//'.'//trim(N_Digits)//')' ! geom format
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format2 = '(3(tr2, f6.2), 3(I10), I10, a)' ! spectral (Lebensohn) format
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format2 = '(3(tr2, f6.2), 3(tr2,g10.5), I10, a)' ! spectral (Lebensohn) format
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! perform voronoi tessellation and write result to files
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do i = 0, a*b*c-1
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minDistance = a*a+b*b+c*c
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minDist = dim(1)*dim(1)+dim(2)*dim(2)+dim(3)*dim(3) ! diagonal of rve
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do j = 1, N_Seeds
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delta(1) = step(1)*(mod(i , a)+0.5_pReal) - seeds(j,1)
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delta(2) = step(2)*(mod(i/a , b)+0.5_pReal) - seeds(j,2)
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delta(3) = step(3)*(mod(i/a/b, c)+0.5_pReal) - seeds(j,3)
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do k = -1, 1 ! left, me, right image
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do l = -1, 1 ! front, me, back image
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do m = -1, 1 ! lower, me, upper image
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myDistance = (( mod(i, a)+1 -seeds(j,1)-m*a)**2 + &
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(mod((i/a), b)+1 -seeds(j,2)-l*b)**2 + &
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(mod((i/(a*b)), c)+1 -seeds(j,3)-k*c)**2)
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if (myDistance < minDistance) then
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minDistance = myDistance
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theDist = ( dim(1) * ( delta(1)-real(k,pReal) ) )**2 + &
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( dim(2) * ( delta(2)-real(l,pReal) ) )**2 + &
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( dim(3) * ( delta(3)-real(m,pReal) ) )**2
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if (theDist < minDist) then
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minDist = theDist
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theGrain = j
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end if
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end do
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end do
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end do
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end do
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endif
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enddo
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enddo
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enddo
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enddo
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grainCheck(theGrain) = .true.
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write(20, trim(format1)), theGrain
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write(21, trim(format2)), grainEuler(theGrain,1), grainEuler(theGrain,2), grainEuler(theGrain,3), &
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mod(i, a)+1, mod((i/a), b)+1, mod((i/(a*b)), c)+1, &
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dim(1)*step(1)*(mod(i , a)+0.5_pReal), &
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dim(2)*step(2)*(mod(i/a , b)+0.5_pReal), &
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dim(3)*step(3)*(mod(i/a/b, c)+0.5_pReal), &
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theGrain, ' 1'
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end do
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enddo
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close(20)
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close(21)
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print*, 'voronoi tesselation done.'
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