general speed up

spectral format records physical coordinates
tessellation now based on phys coords instead of discretization.
This commit is contained in:
Philip Eisenlohr 2011-01-24 16:21:17 +00:00
parent 4ee40df5ba
commit ee7a8ad52a
3 changed files with 149 additions and 56 deletions

View File

@ -45,7 +45,9 @@ def output(cmds,locals,dest):
#--------------------
def init():
#--------------------
return ["*new_model yes",
"*reset",
"*select_clear",
@ -59,7 +61,9 @@ def init():
]
def mesh(N,d):
#--------------------
def mesh(r,d):
#--------------------
return [
"*add_nodes",
"%f %f %f"%(0.0,0.0,0.0),
@ -73,11 +77,11 @@ def mesh(N,d):
"*add_elements",
range(1,9),
"*sub_divisions",
"%i %i %i"%(N[2],N[1],N[0]),
"%i %i %i"%(r[2],r[1],r[0]),
"*subdivide_elements",
"all_existing",
"*set_sweep_tolerance",
"%f"%(float(min(d))/max(N)/2.0),
"%f"%(float(min(d))/max(r)/2.0),
"*sweep_all",
"*renumber_all",
"*set_move_scale_factor x -1",
@ -89,7 +93,9 @@ def mesh(N,d):
]
#--------------------
def material():
#--------------------
cmds = [\
"*new_mater standard",
"*mater_option general:state:solid",
@ -107,7 +113,9 @@ def material():
return cmds
#--------------------
def geometry():
#--------------------
cmds = [\
"*geometry_type mech_three_solid",
"*geometry_option red_integ_capacity:on",
@ -120,13 +128,13 @@ def geometry():
return cmds
def initial_conditions(N,data):
#--------------------
def initial_conditions(homogenization,grains):
#--------------------
elements = []
element = 0
for line in data:
for id in grains:
element += 1
phi1,phi,phi2,x,y,z,id,phase = line.split()
id = int(id)
if len(elements) < id:
for i in range(id-len(elements)):
elements.append([])
@ -134,17 +142,17 @@ def initial_conditions(N,data):
cmds = [\
"*new_icond",
"*icond_name temperature",
"*icond_name _temperature",
"*icond_type state_variable",
"*icond_param_value state_var_id 1",
"*icond_dof_value var 300",
"*add_icond_elements",
"all_existing",
"*new_icond",
"*icond_name homogenization",
"*icond_name _homogenization",
"*icond_type state_variable",
"*icond_param_value state_var_id 2",
"*icond_dof_value var 1",
"*icond_dof_value var %i"%homogenization,
"*add_icond_elements",
"all_existing",
]
@ -163,10 +171,67 @@ def initial_conditions(N,data):
return cmds
#--------------------
def parse_geomFile(content,homog):
#--------------------
(skip,key) = content[0].split()[:2]
if key[:4].lower() == 'head':
skip = int(skip)+1
else:
skip = 0
res = [0,0,0]
dim = [0.0,0.0,0.0]
homog = 0
for line in content[:skip]:
data = line.split()
if data[0].lower() == 'resolution':
res = map(int,data[2:8:2])
if data[0].lower() == 'dimension':
dim = map(float,data[2:8:2])
if data[0].lower() == 'homogenization':
homog = int(data[1])
grains = []
for line in content[skip:]:
grains.append(int(line.split()[0]))
return (res,dim,homog,grains)
#--------------------
def parse_spectralFile(content,homog):
#--------------------
coords = [{},{},{}]
maxBox = [-1.0e20,-1.0e20,-1.0e20]
minBox = [ 1.0e20, 1.0e20, 1.0e20]
dim = [0.0,0.0,0.0]
res = [0,0,0]
grains = []
for line in content:
data = line.split()[3:7]
grains.append(int(data[3]))
for i in range(3):
maxBox[i] = max(maxBox[i],float(data[i]))
minBox[i] = min(minBox[i],float(data[i]))
coords[i][data[i]] = True
for i in range(3):
res[i] = len(coords[i])
dim[i] = (maxBox[i]-minBox[i])*res[i]/(res[i]-1.0)
return (res,dim,homog,grains)
# ----------------------- MAIN -------------------------------
parser = OptionParser(usage='%prog [options] spectral.datafile', description = """
Generate FE hexahedral mesh from spectral description file of format: phi1,Phi,phi2,x,y,z,id,phase.
Generate FE hexahedral mesh from spectral description file.
Acceptable formats are
geom: header plus list of grain numbers or
spectral: phi1,Phi,phi2,x,y,z,id,phase.
$Id$
""")
@ -176,12 +241,20 @@ parser.add_option("-p", "--port", type="int",\
parser.add_option("-d", "--dimension", type="int", nargs=3,\
dest="d",\
help="physical dimension")
parser.add_option("-N", "--subdivisions", type="int", nargs=3,\
dest="N",\
help="number of subdivisions")
parser.add_option("--homogenization", type="int",\
dest="homogenization",\
help="index of homogenization to be chosen from material.config file")
parser.add_option("-s", "--spectral", action="store_const", const="spectral",\
dest="filetype",\
help="file has 'spectral' format")
parser.add_option("-g", "--geom", action="store_const", const="geom",\
dest="filetype",\
help="file has 'geom' format")
parser.set_defaults(homogenization = 1)
(options, args) = parser.parse_args()
parser.set_defaults(d = (16,16,16))
parser.set_defaults(N = (16,16,16))
try:
file = open('%s/../MSCpath'%os.path.dirname(os.path.realpath(sys.argv[0])))
@ -203,10 +276,8 @@ for release,subdirs in sorted(releases.items(),reverse=True):
try:
from py_mentat import *
except:
print('error: no valid Mentat release found in %s'%MSCpath)
sys.exit(-1)
(options, args) = parser.parse_args()
print('no valid Mentat release found in %s'%MSCpath)
if options.port != None: sys.exit(-1)
if not os.path.isfile(args[0]):
parser.error("cannot open %s"%args[0])
@ -215,12 +286,28 @@ file = open(args[0])
content = file.readlines()
file.close()
if options.filetype not in ['spectral','geom']:
options.filetype = os.path.splitext(args[0])[1][1:]
print '\nparsing %s...'%options.filetype,
sys.stdout.flush()
(res,dim,homog,grains) = {\
'geom': parse_geomFile,
'spectral': parse_spectralFile,
}[options.filetype](content,options.homogenization)
print '%i grains in %s with resolution %s and homogenization %i\n'%(len(list(set(grains))),str(dim),str(res),homog)
cmds = [\
init(),
mesh(options.N,options.d),
mesh(res,dim),
material(),
geometry(),
initial_conditions(options.N,content),
initial_conditions(homog,grains),
'*identify_sets',
'*redraw',
]
outputLocals = {}

View File

@ -27,6 +27,7 @@ program voronoi
print*, '******************************************************************************'
print*, ' Voronoi description file'
print*, '******************************************************************************'
print*, '$Id$'
print*, ''
print*, 'generates:'
print*, ' * description file "_OUTPUT_.seeds":'

View File

@ -172,16 +172,17 @@ program voronoi
logical gotN_Seeds, gotResolution
logical, dimension(:), allocatable :: grainCheck
character(len=1024) input_name, output_name, format1, format2, N_Digits, line, key
integer(pInt) a, b, c, N_Seeds, seedPoint, theGrain, minDistance, myDistance, i, j, k, l, m
integer(pInt), dimension(3) :: coordinates
integer(pInt) a, b, c, N_Seeds, theGrain, i, j, k, l, m
integer(pInt), dimension (1+2*7) :: posGeom
real(pReal), dimension(:,:), allocatable :: grainEuler, seeds
real(pReal), dimension(3) :: dim
real(pReal), dimension(3) :: step,dim,delta
real(pReal) minDist, theDist
real(pReal), parameter :: pi = 3.14159265358979323846264338327950288419716939937510_pReal
print*, '******************************************************************************'
print*, ' Spectral Method Problem Set-up'
print*, '******************************************************************************'
print*, '$Id$'
print*, ''
print*, 'generates:'
print*, ' * geom file "_OUTPUT_.geom": Geometrical information for solver'
@ -220,7 +221,7 @@ program voronoi
enddo
100 allocate(grainEuler(N_Seeds,3))
allocate(Seeds(N_Seeds,3))
allocate(seeds(N_Seeds,3))
allocate(grainCheck(N_Seeds))
grainCheck = .false.
@ -232,6 +233,10 @@ program voronoi
write(*, '(A)', advance = 'NO') 'New third resolution: '
read(*, *), c
step(1) = 1.0_pReal/real(a,pReal)
step(2) = 1.0_pReal/real(b,pReal)
step(3) = 1.0_pReal/real(c,pReal)
write(*, '(A)', advance = 'NO') 'First dimension: '
read(*, *), dim(1)
write(*, '(A)', advance = 'NO') 'Second dimension: '
@ -251,19 +256,14 @@ program voronoi
do i=1, N_seeds
read(20,'(a1024)') line
if (IO_isBlank(line)) cycle ! skip empty lines
posGeom = IO_stringPos(line,6)
Seeds(i,1)=IO_floatValue(line,posGeom,1)
Seeds(i,2)=IO_floatValue(line,posGeom,2)
Seeds(i,3)=IO_floatValue(line,posGeom,3)
grainEuler(i,1)=IO_floatValue(line,posGeom,4)
grainEuler(i,2)=IO_floatValue(line,posGeom,5)
grainEuler(i,3)=IO_floatValue(line,posGeom,6)
posGeom = IO_stringPos(line,6) ! split line
do j=1,3
seeds(i,j) = IO_floatValue(line,posGeom,j)
grainEuler(i,j) = IO_floatValue(line,posGeom,j+3)
enddo
enddo
close(20)
seeds(:,1) = seeds(:,1)*real(a, pReal)
seeds(:,2) = seeds(:,2)*real(b, pReal)
seeds(:,3) = seeds(:,3)*real(c, pReal)
! calculate No. of digits needed for name of the grains
i = 1 + int( log10(real( N_Seeds )))
@ -302,33 +302,38 @@ program voronoi
write(20, '(A)'), 'homogenization 1'
format1 = '(I'//trim(N_Digits)//'.'//trim(N_Digits)//')' ! geom format
format2 = '(3(tr2, f6.2), 3(I10), I10, a)' ! spectral (Lebensohn) format
format2 = '(3(tr2, f6.2), 3(tr2,g10.5), I10, a)' ! spectral (Lebensohn) format
! perform voronoi tessellation and write result to files
do i = 0, a*b*c-1
minDistance = a*a+b*b+c*c
minDist = dim(1)*dim(1)+dim(2)*dim(2)+dim(3)*dim(3) ! diagonal of rve
do j = 1, N_Seeds
delta(1) = step(1)*(mod(i , a)+0.5_pReal) - seeds(j,1)
delta(2) = step(2)*(mod(i/a , b)+0.5_pReal) - seeds(j,2)
delta(3) = step(3)*(mod(i/a/b, c)+0.5_pReal) - seeds(j,3)
do k = -1, 1 ! left, me, right image
do l = -1, 1 ! front, me, back image
do m = -1, 1 ! lower, me, upper image
myDistance = (( mod(i, a)+1 -seeds(j,1)-m*a)**2 + &
(mod((i/a), b)+1 -seeds(j,2)-l*b)**2 + &
(mod((i/(a*b)), c)+1 -seeds(j,3)-k*c)**2)
if (myDistance < minDistance) then
minDistance = myDistance
theDist = ( dim(1) * ( delta(1)-real(k,pReal) ) )**2 + &
( dim(2) * ( delta(2)-real(l,pReal) ) )**2 + &
( dim(3) * ( delta(3)-real(m,pReal) ) )**2
if (theDist < minDist) then
minDist = theDist
theGrain = j
end if
end do
end do
end do
end do
endif
enddo
enddo
enddo
enddo
grainCheck(theGrain) = .true.
write(20, trim(format1)), theGrain
write(21, trim(format2)), grainEuler(theGrain,1), grainEuler(theGrain,2), grainEuler(theGrain,3), &
mod(i, a)+1, mod((i/a), b)+1, mod((i/(a*b)), c)+1, &
dim(1)*step(1)*(mod(i , a)+0.5_pReal), &
dim(2)*step(2)*(mod(i/a , b)+0.5_pReal), &
dim(3)*step(3)*(mod(i/a/b, c)+0.5_pReal), &
theGrain, ' 1'
end do
enddo
close(20)
close(21)
print*, 'voronoi tesselation done.'