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DAMASK_EICMD
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save some memory (avoid copies if not needed)

This commit is contained in:
Martin Diehl 2019-05-29 07:49:43 +02:00
parent 9f68923038
commit bb6f54963a
9 changed files with 41 additions and 51 deletions
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8
processing/pre/geom_clean.py
View File

@ -45,12 +45,10 @@ for name in filenames:
damask.util.report(scriptName,name)
geom = damask.Geom.from_file(StringIO(''.join(sys.stdin.read())) if name is None else name)
microstructure = geom.get_microstructure()
microstructure = ndimage.filters.generic_filter(microstructure,mostFrequent,
size=(options.stencil,)*3).astype(microstructure.dtype)
damask.util.croak(geom.update(microstructure))
damask.util.croak(geom.update(ndimage.filters.generic_filter(
geom.microstructure,mostFrequent,
size=(options.stencil,)*3).astype(geom.microstructure.dtype)))
geom.add_comments(scriptID + ' ' + ' '.join(sys.argv[1:]))
if name is None:

5
processing/pre/geom_grainGrowth.py
View File

@ -60,11 +60,10 @@ for name in filenames:
damask.util.report(scriptName,name)
geom = damask.Geom.from_file(StringIO(''.join(sys.stdin.read())) if name is None else name)
microstructure = geom.get_microstructure()
grid_original = geom.get_grid()
damask.util.croak(geom)
grid_original = geom.get_grid()
microstructure = np.tile(geom.get_microstructure(),np.where(grid_original == 1, 2,1)) # make one copy along dimensions with grid == 1
microstructure = np.tile(geom.microstructure,np.where(grid_original == 1, 2,1)) # make one copy along dimensions with grid == 1
grid = np.array(microstructure.shape)
# --- initialize support data ---------------------------------------------------------------------

29
processing/pre/geom_pack.py
View File

@ -30,7 +30,6 @@ for name in filenames:
damask.util.report(scriptName,name)
geom = damask.Geom.from_file(StringIO(''.join(sys.stdin.read())) if name is None else name)
microstructure = geom.get_microstructure().flatten('F')
damask.util.croak(geom)
geom.add_comments(scriptID + ' ' + ' '.join(sys.argv[1:]))
@ -38,7 +37,12 @@ for name in filenames:
former = start = -1
reps = 0
for current in microstructure:
if name is None:
f = sys.stdout
else:
f= open(name,'w')
for current in geom.microstructure.flatten('F'):
if abs(current - former) == 1 and (start - current) == reps*(former - current):
compressType = 'to'
reps += 1
@ -47,13 +51,13 @@ for name in filenames:
reps += 1
else:
if compressType is None:
out = geom.get_header()
f.write('\n'.join(geom.get_header())+'\n')
elif compressType == '.':
out.append('{}'.format(former))
f.write('{}\n'.format(former))
elif compressType == 'to':
out.append('{} to {}'.format(start,former))
f.write('{} to {}\n'.format(start,former))
elif compressType == 'of':
out.append('{} of {}'.format(reps,former))
f.write('{} of {}\n'.format(reps,former))
compressType = '.'
start = current
@ -62,15 +66,8 @@ for name in filenames:
former = current
if compressType == '.':
out.append('{}'.format(former))
f.write('{}\n'.format(former))
elif compressType == 'to':
out.append('{} to {}'.format(start,former))
f.write('{} to {}\n'.format(start,former))
elif compressType == 'of':
out.append('{} of {}'.format(reps,former))
if name is None:
sys.stdout.write('\n'.join(out)+'\n')
else:
with open(name,'w') as f:
f.write('\n'.join(out)+'\n')
f.write('{} of {}\n'.format(reps,former))

7
processing/pre/geom_renumber.py
View File

@ -32,11 +32,10 @@ for name in filenames:
damask.util.report(scriptName,name)
geom = damask.Geom.from_file(StringIO(''.join(sys.stdin.read())) if name is None else name)
microstructure = geom.get_microstructure()
renumbered = np.copy(microstructure)
for i, oldID in enumerate(np.unique(microstructure)):
renumbered = np.where(microstructure == oldID, i+1, renumbered)
renumbered = np.empty(geom.get_grid(),dtype=geom.microstructure.dtype)
for i, oldID in enumerate(np.unique(geom.microstructure)):
renumbered = np.where(geom.microstructure == oldID, i+1, renumbered)
damask.util.croak(geom.update(renumbered))
geom.add_comments(scriptID + ' ' + ' '.join(sys.argv[1:]))

14
processing/pre/geom_rescale.py
View File

@ -43,7 +43,6 @@ for name in filenames:
damask.util.report(scriptName,name)
geom = damask.Geom.from_file(StringIO(''.join(sys.stdin.read())) if name is None else name)
microstructure = geom.get_microstructure()
grid = geom.get_grid()
size = geom.get_size()
@ -55,11 +54,14 @@ for name in filenames:
np.array([o*float(n.lower().replace('x','')) if n.lower().endswith('x') \
else float(n) for o,n in zip(size,options.size)],dtype=float)
if np.any(new_grid != grid):
microstructure = ndimage.interpolation.zoom(microstructure, new_grid/grid,output=microstructure.dtype,
order=0,mode='nearest', prefilter=False)
damask.util.croak(geom.update(microstructure,new_size))
damask.util.croak(geom.update(microstructure =
ndimage.interpolation.zoom(
geom.microstructure,
new_grid/grid,output=geom.microstructure.dtype,
order=0,mode='nearest', prefilter=False\
) \
if np.any(new_grid != grid) else None,
size = new_size))
geom.add_comments(scriptID + ' ' + ' '.join(sys.argv[1:]))
if name is None:

1
processing/pre/geom_rotate.py
View File

@ -88,7 +88,6 @@ for name in filenames:
microstructure = ndimage.rotate(microstructure,eulers[0],(0,1),order=0,
prefilter=False,output=dtype,cval=fill) # rotation around z
damask.util.croak(geom.update(microstructure,rescale=True))
geom.add_comments(scriptID + ' ' + ' '.join(sys.argv[1:]))

5
processing/pre/geom_toTable.py
View File

@ -32,8 +32,7 @@ for name in filenames:
damask.util.report(scriptName,name)
geom = damask.Geom.from_file(StringIO(''.join(sys.stdin.read())) if name is None else name)
damask.util.croak(geom)
microstructure = geom.get_microstructure().flatten('F')
damask.util.croak(geom)
grid = geom.get_grid()
size = geom.get_size()
origin = geom.get_origin()
@ -55,6 +54,6 @@ for name in filenames:
table.labels_append(['{}_{}'.format(1+i,'pos') for i in range(3)]+['microstructure'])
table.head_write()
table.output_flush()
table.data = np.squeeze(np.dstack((xx,yy,zz,microstructure)),axis=0)
table.data = np.squeeze(np.dstack((xx,yy,zz,geom.microstructure.flatten('F'))),axis=0)
table.data_writeArray()
table.close()

5
processing/pre/geom_translate.py
View File

@ -51,10 +51,9 @@ for name in filenames:
damask.util.report(scriptName,name)
geom = damask.Geom.from_file(StringIO(''.join(sys.stdin.read())) if name is None else name)
microstructure = geom.get_microstructure()
substituted = np.copy(microstructure)
substituted = geom.get_microstructure()
for old,new in zip(sub[0::2],sub[1::2]): substituted[microstructure==old] = new # substitute microstructure indices
for old,new in zip(sub[0::2],sub[1::2]): substituted[substituted==old] = new # substitute microstructure indices
substituted += options.microstructure # constant shift
damask.util.croak(geom.update(substituted,origin=geom.get_origin()+options.origin))

18
processing/pre/geom_vicinityOffset.py
View File

@ -70,18 +70,16 @@ for name in filenames:
damask.util.report(scriptName,name)
geom = damask.Geom.from_file(StringIO(''.join(sys.stdin.read())) if name is None else name)
microstructure = geom.get_microstructure()
offset = np.nanmax(microstructure) if options.offset is None else options.offset
offset = np.nanmax(geom.microstructure) if options.offset is None else options.offset
microstructure = np.where(ndimage.filters.generic_filter(microstructure,
taintedNeighborhood,
size=1+2*options.vicinity,mode=options.mode,
extra_arguments=(),
extra_keywords={"trigger":options.trigger,"size":1+2*options.vicinity}),
microstructure + offset,microstructure)
damask.util.croak(geom.update(microstructure))
damask.util.croak(geom.update(np.where(ndimage.filters.generic_filter(
geom.microstructure,
taintedNeighborhood,
size=1+2*options.vicinity,mode=options.mode,
extra_arguments=(),
extra_keywords={"trigger":options.trigger,"size":1+2*options.vicinity}),
geom.microstructure + offset,geom.microstructure)))
geom.add_comments(scriptID + ' ' + ' '.join(sys.argv[1:]))
if name is None: