#pss.place_shape(pss.mesh_Shps[0,:,:],lx,0,1,UC,LX=lx,LY=ly)
#pss.place_shape(pss.mesh_Shps[0,:,:],0,ly,1,UC,LX=lx,LY=ly)
#pss.place_shape(pss.mesh_Shps[0,:,:],lx,ly,1,UC,LX=lx,LY=ly)
plt.figure()
plt.imshow(UC[0,:,:],interpolation='nearest',cmap='binary')
plt.imshow(UC[1,:,:],interpolation='nearest',cmap='binary',alpha=.5)
plt.imshow(UC[2,:,:],interpolation='nearest',cmap='binary',alpha=.5)
plt.imshow(UC[3,:,:],interpolation='nearest',cmap='binary',alpha=.5)
Ms,xcoords,ycoords,radii = pss.copypasteUC(UC,UCX,UCY,RAD,MATS)
Ms = pss.mat_assignment(mats,xcoords,ycoords,radii)
#plt.figure()
#plt.imshow(pss.materials[0,:,:],interpolation='nearest',cmap='binary')
#plt.imshow(pss.materials[1,:,:],interpolation='nearest',cmap='binary',alpha=.5)
#plt.imshow(pss.materials[2,:,:],interpolation='nearest',cmap='binary',alpha=.5)
#plt.imshow(pss.materials[3,:,:],interpolation='nearest',cmap='binary',alpha=.5)
#plt.show()
S = float(np.sum(UC)-4*3)#There are 4 particles and 3 cells overlap per particle
print "Approximate Volume Fraction = {:3.1f}".format(S/float(lx*ly))
A,B = pss.part_distance(xcoords,ycoords,radii,Ms,plot=True)
xcoords *= GRIDSPC
ycoords *= GRIDSPC
radii *= GRIDSPC
pss.save_spherical_parts(xcoords,ycoords,radii,Ms,A)
#pss.place_shape(pss.mesh_Shps[0,:,:],48,32-16,4,UC,LX=lx,LY=ly)
#pss.place_shape(pss.mesh_Shps[0,:,:],32,32+20,1,UC,LX=lx,LY=ly)
#pss.place_shape(pss.mesh_Shps[0,:,:],lx,0,1,UC,LX=lx,LY=ly)
#pss.place_shape(pss.mesh_Shps[0,:,:],0,ly,1,UC,LX=lx,LY=ly)
#pss.place_shape(pss.mesh_Shps[0,:,:],lx,ly,1,UC,LX=lx,LY=ly)
plt.figure()
plt.imshow(UC[0, :, :], interpolation='nearest', cmap='binary')
plt.imshow(UC[1, :, :], interpolation='nearest', cmap='binary', alpha=.5)
plt.imshow(UC[2, :, :], interpolation='nearest', cmap='binary', alpha=.5)
plt.imshow(UC[3, :, :], interpolation='nearest', cmap='binary', alpha=.5)
Ms, xcoords, ycoords, radii = pss.copypasteUC(UC, UCX, UCY, RAD, MATS)
Ms = pss.mat_assignment(mats, xcoords, ycoords, radii)
#plt.figure()
#plt.imshow(pss.materials[0,:,:],interpolation='nearest',cmap='binary')
#plt.imshow(pss.materials[1,:,:],interpolation='nearest',cmap='binary',alpha=.5)
#plt.imshow(pss.materials[2,:,:],interpolation='nearest',cmap='binary',alpha=.5)
#plt.imshow(pss.materials[3,:,:],interpolation='nearest',cmap='binary',alpha=.5)
#plt.show()
S = float(np.sum(UC) -
4 * 3) #There are 4 particles and 3 cells overlap per particle
print "Approximate Volume Fraction = {:3.1f}".format(S / float(lx * ly))
A, B = pss.part_distance(xcoords, ycoords, radii, Ms, plot=True)
xcoords *= GRIDSPC
ycoords *= GRIDSPC
radii *= GRIDSPC
xcr = np.array(xcoords)
ycr = np.array(ycoords)
radii = np.array(radii)
XINT = np.copy(xcr) # Coordinates and radii are in units of 'cells' up to here
YINT = np.copy(
ycr
) # This keeps a copy of these before they're converted to physical units
xcr = xcr.astype(float) # Convert to floats
ycr = ycr.astype(float)
radii = radii.astype(float)
xcr *= GRIDSPC # Convert to physical units
ycr *= GRIDSPC
MAT = pss.mat_assignment(pss.mats, xcr,
ycr) # Assign materials to the particles
radii *= GRIDSPC
#pss.save_spherical_parts(xcr,ycr,radii,MAT,A,fname='coords.txt') # Save particle coordinates, radii and material number as a txt file with file name fname
# When fname is not 'meso' A doe snot need to be anything and can just be zero as it is not used
pss.save_particle_mesh(
I_shape, XINT, YINT, MAT, J
) # Save full mesh as a meso_m.iSALE file. NB This uses the integer coords we had before
print "total particles placed: {}".format(J)
placed_part_area = np.array(placed_part_area)
vol_frac_calc = np.sum(placed_part_area) / (pss.meshx * pss.meshy)
if abs(vol_frac_calc - pss.vol_frac) <= 0.02:
print "GREAT SUCCESS! Volume Fraction = {:3.3f}%".format(vol_frac_calc *
w *= sc
h *= sc
xc *= sc * GRIDSPC
yc *= sc * GRIDSPC
rc *= sc * GRIDSPC
# Calculate number of occurences
No = X_cells * Y_cells / (w * h)
Nx = int(X_cells / w)
Ny = int(Y_cells / h)
w *= GRIDSPC
h *= GRIDSPC
X = []
Y = []
for i in range(Nx):
for j in range(Ny):
X.append(xc + i * w)
Y.append(yc + j * h)
X = np.array(X)
Y = np.array(Y)
N = np.size(X)
radii = np.full((N), r)
MAT = pss.mat_assignment(mats, X, Y, radii)
A, B = pss.part_distance(X, Y, radii, MAT, plot=True)
pss.save_spherical_parts(X, Y, radii, MAT, A)
pss.view_mesoiSALE(filepath='meso_A-{:3.4f}.iSALE'.format(A))
"""
XY = np.column_stack((xcr,ycr))
mytree = scsp.cKDTree(XY,leafsize=100)
for item in XY:
print mytree.query(item, k=np.size(mats)+1, distance_upper_bound=pss.cppr_max*3)
"""
xcr *= GRIDSPC
ycr *= GRIDSPC
zcr *= GRIDSPC
radii *= GRIDSPC
MAT = pss.mat_assignment(mats,xcr,ycr)
DMY = np.zeros_like(xcoords)
A,B = pss.part_distance(xcr,ycr,radii,MAT,False)
print "The Contacts Measure, A = {}".format(A)
print "Avg Contacts Between the Same Materials, B = {}".format(B)
print 'Total contacts between same materials = {}, Total particles = {}'.format(B*J,J)
ALL = np.column_stack((MAT,xcr,ycr,radii))
pss.populate_materials(I_shape,XINT,YINT,MAT,J,TRACERS=True,ON=J_shape) # Now populate the materials meshes (NB these are different to the 'mesh' and are
pss.save_spherical_parts(xcr,ycr,radii,MAT,A)
print 'save to meso_A-{:3.4f}.iSALE'.format(A)
pss.save_general_mesh(tracers=True)
A2, contact_matrix = pss.discrete_contacts_number(I_shape,XINT,YINT,J,J_shape)
print '\n'
radii = radii.astype(float)
angle = angle.astype(float)
eccen2 = eccen2.astype(float)
"""
XY = np.column_stack((xcr,ycr))
mytree = scsp.cKDTree(XY,leafsize=100)
for item in XY:
print mytree.query(item, k=np.size(mats)+1, distance_upper_bound=pss.cppr_max*3)
"""
xcr *= GRIDSPC
ycr *= GRIDSPC
zcr *= GRIDSPC
radii *= GRIDSPC
MAT = pss.mat_assignment(mats, xcr, ycr)
DMY = np.zeros_like(xcoords)
A, B = pss.part_distance(xcr, ycr, radii, MAT, False)
print "The Contacts Measure, A = {}".format(A)
print "Avg Contacts Between the Same Materials, B = {}".format(B)
print 'Total contacts between same materials = {}, Total particles = {}'.format(
B * J, J)
ALL = np.column_stack((MAT, xcr, ycr, radii))
pss.populate_materials(
I_shape, XINT, YINT, MAT, J, TRACERS=True, ON=J_shape
) # Now populate the materials meshes (NB these are different to the 'mesh' and are
#pss.save_spherical_parts(xcr,ycr,radii,MAT,A)
print 'save to meso_A-{:3.4f}.iSALE'.format(A)
pss.save_general_mesh(tracers=True)
break
old_vfrac = vf_pld
print "volume fraction achieved so far: {:3.3f}%".format(vf_pld * 100)
except KeyboardInterrupt:
pass
I_shape = np.array(
I_) # Convert the lists of index, shape number, and coordinates to arrays
J_shape = np.array(J_)
xcSI = np.array(xc)
ycSI = np.array(yc)
xcSI *= GRIDSPC # Turn the coordinates into physical units
ycSI *= GRIDSPC
MAT = pss.mat_assignment(
pss.mats[1:], xcSI, ycSI
) # Assign materials to the particles. This returns an array that is the same shape as xc,
# and contains the optimum corresponding material number for each particle
pss.populate_materials(
I_, xc, yc, MAT, J
) # Now populate the materials meshes (NB these are different to the 'mesh' and are
# the ones used in the actual iSALE input file)
pss.fill_rectangle(0, 0, pss.meshx * GRIDSPC, pss.meshy * GRIDSPC, pss.mats[0])
# pySALESetup prioritises material placed sooner. So later things will NOT overwrite previous ones
pss.save_general_mesh() # Save the mesh as meso_m.iSALE (default)
plt.figure() # plot the resulting mesh. Skip this bit if you do not need to.
for KK in range(pss.Ms):
matter = np.copy(pss.materials[KK, :, :]) * (KK + 1)
matter = np.ma.masked_where(matter == 0., matter)
print '# volume fraction no longer increasing. Break here #'
print '##########~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~##########'
break
old_vfrac = vf_pld
print "volume fraction achieved so far: {:3.3f}%".format(vf_pld*100)
except KeyboardInterrupt:
pass
I_shape = np.array(I_) # Convert the lists of index, shape number, and coordinates to arrays
J_shape = np.array(J_)
xcSI = np.array(xc)
ycSI = np.array(yc)
xcSI*= GRIDSPC # Turn the coordinates into physical units
ycSI*= GRIDSPC
MAT = pss.mat_assignment(pss.mats[1:],xcSI,ycSI) # Assign materials to the particles. This returns an array that is the same shape as xc,
# and contains the optimum corresponding material number for each particle
pss.populate_materials(I_,xc,yc,MAT,J) # Now populate the materials meshes (NB these are different to the 'mesh' and are
# the ones used in the actual iSALE input file)
pss.fill_rectangle(0,0,pss.meshx*GRIDSPC,pss.meshy*GRIDSPC,pss.mats[0])
# pySALESetup prioritises material placed sooner. So later things will NOT overwrite previous ones
pss.save_general_mesh() # Save the mesh as meso_m.iSALE (default)
plt.figure() # plot the resulting mesh. Skip this bit if you do not need to.
for KK in range(pss.Ms):
matter = np.copy(pss.materials[KK,:,:])*(KK+1)
matter = np.ma.masked_where(matter==0.,matter)
plt.imshow(matter, cmap='viridis',vmin=0,vmax=pss.Ms,interpolation='nearest')
matter = np.copy(pss.materials[pss.Ms-1,:,:])*(pss.Ms)
xc*= sc*GRIDSPC
yc*= sc*GRIDSPC
rc*= sc*GRIDSPC
# Calculate number of occurences
No = X_cells*Y_cells/(w*h)
Nx = int(X_cells/w)
Ny = int(Y_cells/h)
w *= GRIDSPC
h *= GRIDSPC
X = []
Y = []
for i in range(Nx):
for j in range(Ny):
X.append(xc+i*w)
Y.append(yc+j*h)
X = np.array(X)
Y = np.array(Y)
N = np.size(X)
radii = np.full((N),r)
MAT = pss.mat_assignment(mats,X,Y,radii)
A,B = pss.part_distance(X,Y,radii,MAT,plot=True)
pss.save_spherical_parts(X,Y,radii,MAT,A)
pss.view_mesoiSALE(filepath='meso_A-{:3.4f}.iSALE'.format(A))
xcr = np.array(xcoords)
ycr = np.array(ycoords)
radii = np.array(radii)
XINT = np.copy(xcr) # Coordinates and radii are in units of 'cells' up to here
YINT = np.copy(ycr) # This keeps a copy of these before they're converted to physical units
xcr = xcr.astype(float) # Convert to floats
ycr = ycr.astype(float)
radii = radii.astype(float)
xcr *= GRIDSPC # Convert to physical units
ycr *= GRIDSPC
MAT = pss.mat_assignment(pss.mats,xcr,ycr) # Assign materials to the particles
radii *= GRIDSPC
#pss.save_spherical_parts(xcr,ycr,radii,MAT,A,fname='coords.txt') # Save particle coordinates, radii and material number as a txt file with file name fname
# When fname is not 'meso' A doe snot need to be anything and can just be zero as it is not used
pss.save_particle_mesh(I_shape,XINT,YINT,MAT,J) # Save full mesh as a meso_m.iSALE file. NB This uses the integer coords we had before
print "total particles placed: {}".format(J)
placed_part_area = np.array(placed_part_area)
vol_frac_calc = np.sum(placed_part_area)/(pss.meshx*pss.meshy)
if abs(vol_frac_calc - pss.vol_frac) <= 0.02:
print "GREAT SUCCESS! Volume Fraction = {:3.3f}%".format(vol_frac_calc*100.)
else:
