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DAMASK_EICMD
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switched importing from "msc_tools" to "damask" 

patchFrom... now skips blank lines, has more commenting, treats (artificial) bi-crystal (somewhat) gracefully.
This commit is contained in:
Philip Eisenlohr 2012-01-16 09:32:36 +00:00
parent 3a22bf7e27
commit 7ed2c19d0f
5 changed files with 89 additions and 81 deletions
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4
processing/post/mentat_colorMap.py
View File

@ -1,10 +1,10 @@
#!/usr/bin/env python
import sys, os, msc_tools, string
import sys, os, string, damask
from colorsys import *
from optparse import OptionParser
sys.path.append(msc_tools.MSC_TOOLS().libraryPath(sys.argv[0],'../../'))
sys.path.append(damask.solver.Marc().libraryPath('../../'))
try:
from py_mentat import *

6
processing/post/postResults.py
View File

@ -1,7 +1,7 @@
#!/usr/bin/env python
import pdb, os, sys, gc, math, re, threading, time, struct, string
import msc_tools
import damask
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
@ -755,7 +755,7 @@ if options.filetype not in ['marc','spectral']:
parser.error('file type "%s" not supported...'%options.filetype)
if options.filetype == 'marc':
sys.path.append(msc_tools.MSC_TOOLS().libraryPath(sys.argv[0],'../../'))
sys.path.append(damask.solver.Marc().libraryPath('../../'))
try:
from py_post import *
@ -838,7 +838,7 @@ for opt in ['nodalScalar','elemScalar','elemTensor','homogenizationResult','crys
if options.info:
if options.filetype == 'marc':
print '\n\nMentat release %s'%msc_tools.MSC_TOOLS().version(sys.argv[0],'../../')
print '\n\nMentat release %s'%damask.solver.Marc().version('../../')
if options.filetype == 'spectral':
print '\n\n',p

4
processing/pre/mentat_pbcOnBoxMesh.py
View File

@ -1,9 +1,9 @@
#!/usr/bin/env python
import sys,os,pwd,math,re,string,msc_tools
import sys,os,pwd,math,re,string, damask
from optparse import OptionParser
sys.path.append(msc_tools.MSC_TOOLS().libraryPath(sys.argv[0],'../../'))
sys.path.append(damask.solver.Marc().libraryPath('../../'))
try:
from py_mentat import *

4
processing/pre/mentat_spectralBox.py
View File

@ -1,6 +1,6 @@
#!/usr/bin/env python
import os, sys, math, re, threading, time, string, msc_tools
import os, sys, math, re, threading, time, string, damask
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
@ -251,7 +251,7 @@ parser.set_defaults(homogenization = 1)
(options, args) = parser.parse_args()
sys.path.append(msc_tools.MSC_TOOLS().libraryPath(sys.argv[0],'../../'))
sys.path.append(damask.solver.Marc().libraryPath('../../'))
try:
from py_mentat import *

152
processing/pre/patchFromReconstructedBoundaries.py
View File

@ -1,6 +1,6 @@
#!/usr/bin/env python
import sys,os,math,re,string, msc_tools
import sys,os,math,re,string, damask
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
@ -10,7 +10,7 @@ try: # check for Python Image Lib
except:
ImageCapability = False
sys.path.append(msc_tools.MSC_TOOLS().libraryPath(sys.argv[0],'../../'))
sys.path.append(damask.solver.Marc().libraryPath('../../'))
try: # check for MSC.Mentat Python interface
from py_mentat import *
@ -79,15 +79,16 @@ def rcbOrientationParser(content):
grains = []
myOrientation = [0.0,0.0,0.0]
for line in content:
if line[0] != '#': # skip comments
for grain in range(2):
myID = int(line.split()[12+grain]) # get grain id
myOrientation = map(float,line.split())[3*grain:3+3*grain] # get orientation
if len(grains) < myID:
for i in range(myID-len(grains)): # extend list to necessary length
grains.append([0.0,0.0,0.0])
grains[myID-1] = myOrientation # store Euler angles
m = re.match(r'\s*(#|$)',line)
if m: continue # skip comments and blank lines
for grain in range(2):
myID = int(line.split()[12+grain]) # get grain id
myOrientation = map(float,line.split())[3*grain:3+3*grain] # get orientation
if len(grains) < myID:
for i in range(myID-len(grains)): # extend list to necessary length
grains.append([0.0,0.0,0.0])
grains[myID-1] = myOrientation # store Euler angles
return grains
def rcbParser(content,M,size,tolerance): # parser for TSL-OIM reconstructed boundary files
@ -99,14 +100,15 @@ def rcbParser(content,M,size,tolerance): # parser for TSL-O
x = [0.,0.]
y = [0.,0.]
for line in content:
if line[0] != '#': # skip comments
(x[0],y[0],x[1],y[1]) = map(float,line.split())[8:12] # get start and end coordinates of each segment.
(x[0],y[0]) = (M[0]*x[0]+M[1]*y[0],M[2]*x[0]+M[3]*y[0]) # apply transformation to coordinates
(x[1],y[1]) = (M[0]*x[1]+M[1]*y[1],M[2]*x[1]+M[3]*y[1]) # to get rcb --> Euler system
boxX[0] = min(boxX[0],x[0],x[1])
boxX[1] = max(boxX[1],x[0],x[1])
boxY[0] = min(boxY[0],y[0],y[1])
boxY[1] = max(boxY[1],y[0],y[1])
m = re.match(r'\s*(#|$)',line)
if m: continue # skip comments and blank lines
(x[0],y[0],x[1],y[1]) = map(float,line.split())[8:12] # get start and end coordinates of each segment.
(x[0],y[0]) = (M[0]*x[0]+M[1]*y[0],M[2]*x[0]+M[3]*y[0]) # apply transformation to coordinates
(x[1],y[1]) = (M[0]*x[1]+M[1]*y[1],M[2]*x[1]+M[3]*y[1]) # to get rcb --> Euler system
boxX[0] = min(boxX[0],x[0],x[1])
boxX[1] = max(boxX[1],x[0],x[1])
boxY[0] = min(boxY[0],y[0],y[1])
boxY[1] = max(boxY[1],y[0],y[1])
dX = boxX[1]-boxX[0]
dY = boxY[1]-boxY[0]
@ -122,50 +124,51 @@ def rcbParser(content,M,size,tolerance): # parser for TSL-O
grainNeighbors = []
for line in content:
if line[0] != '#': # skip comments
(x[0],y[0],x[1],y[1]) = map(float,line.split())[8:12] # get start and end coordinates of each segment
(x[0],y[0]) = (M[0]*x[0]+M[1]*y[0],M[2]*x[0]+M[3]*y[0]) # apply transformation to coordinates
(x[1],y[1]) = (M[0]*x[1]+M[1]*y[1],M[2]*x[1]+M[3]*y[1]) # to get rcb --> Euler system
m = re.match(r'\s*(#|$)',line)
if m: continue # skip comments and blank lines
(x[0],y[0],x[1],y[1]) = map(float,line.split())[8:12] # get start and end coordinates of each segment
(x[0],y[0]) = (M[0]*x[0]+M[1]*y[0],M[2]*x[0]+M[3]*y[0]) # apply transformation to coordinates
(x[1],y[1]) = (M[0]*x[1]+M[1]*y[1],M[2]*x[1]+M[3]*y[1]) # to get rcb --> Euler system
x[0] -= boxX[0] # make relative to origin of bounding box
x[1] -= boxX[0]
y[0] -= boxY[0]
y[1] -= boxY[0]
grainNeighbors.append(map(int,line.split()[12:14])) # remember right and left grain per segment
for i in range(2): # store segment to both points
match = False # check whether point is already known (within a small range)
for posX in connectivityXY.keys():
if (abs(float(posX)-x[i])<dX*tolerance):
for posY in connectivityXY[posX].keys():
if (abs(float(posY)-y[i])<dY*tolerance):
keyX = posX
keyY = posY
match = True
break
break
if (not match):
# force to boundary if inside tolerance to it
if (abs(x[i])<dX*tolerance):
x[i] = 0
if (abs(dX-x[i])<dX*tolerance):
x[i] = dX
if (abs(y[i])<dY*tolerance):
y[i] = 0
if (abs(dY-y[i])<dY*tolerance):
y[i] = dY
keyX = "%g"%x[i]
keyY = "%g"%y[i]
if keyX not in connectivityXY: # create new hash entry for so far unknown point
connectivityXY[keyX] = {}
if keyY not in connectivityXY[keyX]: # create new hash entry for so far unknown point
connectivityXY[keyX][keyY] = []
if keyY not in connectivityYX: # create new hash entry for so far unknown point
connectivityYX[keyY] = {}
if keyX not in connectivityYX[keyY]: # create new hash entry for so far unknown point
connectivityYX[keyY][keyX] = []
connectivityXY[keyX][keyY].append(segment)
connectivityYX[keyY][keyX].append(segment)
segment += 1
x[0] -= boxX[0] # make relative to origin of bounding box
x[1] -= boxX[0]
y[0] -= boxY[0]
y[1] -= boxY[0]
grainNeighbors.append(map(int,line.split()[12:14])) # remember right and left grain per segment
for i in range(2): # store segment to both points
match = False # check whether point is already known (within a small range)
for posX in connectivityXY.keys():
if (abs(float(posX)-x[i])<dX*tolerance):
for posY in connectivityXY[posX].keys():
if (abs(float(posY)-y[i])<dY*tolerance):
keyX = posX
keyY = posY
match = True
break
break
if (not match):
# force to boundary if inside tolerance to it
if (abs(x[i])<dX*tolerance):
x[i] = 0
if (abs(dX-x[i])<dX*tolerance):
x[i] = dX
if (abs(y[i])<dY*tolerance):
y[i] = 0
if (abs(dY-y[i])<dY*tolerance):
y[i] = dY
keyX = "%g"%x[i]
keyY = "%g"%y[i]
if keyX not in connectivityXY: # create new hash entry for so far unknown point
connectivityXY[keyX] = {}
if keyY not in connectivityXY[keyX]: # create new hash entry for so far unknown point
connectivityXY[keyX][keyY] = []
if keyY not in connectivityYX: # create new hash entry for so far unknown point
connectivityYX[keyY] = {}
if keyX not in connectivityYX[keyY]: # create new hash entry for so far unknown point
connectivityYX[keyY][keyX] = []
connectivityXY[keyX][keyY].append(segment)
connectivityYX[keyY][keyX].append(segment)
segment += 1
# top border
@ -282,7 +285,7 @@ def rcbParser(content,M,size,tolerance): # parser for TSL-O
grains['box'] = grainLegs
pointId += 1
# build overall data structure
rcData = {'dimension':[dX,dY], 'point': [],'segment': [], 'grain': [], 'grainMapping': []}
@ -295,18 +298,23 @@ def rcbParser(content,M,size,tolerance): # parser for TSL-O
rcData['segment'].append(segment)
print " built %i segments"%(len(rcData['segment']))
for grain in grains['legs']:
rcData['grain'].append(grain)
for legs in grains['legs']: # loop over grains
rcData['grain'].append(legs) # store list of boundary segments
myNeighbors = {}
for leg in grain:
if leg < len(grainNeighbors):
for side in range(2):
if grainNeighbors[leg][side] in myNeighbors:
for leg in legs: # test each boundary segment
if leg < len(grainNeighbors): # a valid segment index?
for side in range(2): # look at both sides of the segment
if grainNeighbors[leg][side] in myNeighbors: # count occurrence of grain IDs
myNeighbors[grainNeighbors[leg][side]] += 1
else:
myNeighbors[grainNeighbors[leg][side]] = 1
if myNeighbors: # do I have any neighbors
rcData['grainMapping'].append(sorted(myNeighbors.iteritems(), key=lambda (k,v): (v,k), reverse=True)[0][0]) # most frequent grain is me
if myNeighbors: # do I have any neighbors (i.e., non-bounding box segment)
candidateGrains = sorted(myNeighbors.iteritems(), key=lambda (k,v): (v,k), reverse=True) # sort grain counting
if candidateGrains[0][0] not in rcData['grainMapping']: # most frequent one not yet seen?
rcData['grainMapping'].append(candidateGrains[0][0]) # must be me then
else:
rcData['grainMapping'].append(candidateGrains[1][0]) # special case of bi-crystal situation...
print " found %i grains\n"%(len(rcData['grain']))
rcData['box'] = grains['box']
@ -682,7 +690,7 @@ def image(name,imgsize,marginX,marginY,rcData):
draw.text([offsetX+center[0]*scaleImg,sizeY-(offsetY+center[1]*scaleImg)],'%i -> %i'%(grain,origGrain),fill=(128,32,32))
img.save(name+'.png',"PNG")
img.save(name+'.png',"PNG")
# -------------------------
def inside(x,y,points): # tests whether point(x,y) is within polygon described by points