From 22771ef507a02d2eefac3d9257e419266d7dc941 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Marek=20Ne=C4=8Dada?= Date: Thu, 11 May 2017 12:10:29 +0300 Subject: [PATCH] Basic plotting of the dispersion_chunks.py generated data Former-commit-id: 852034a558b1a8b09937d60687bb9c1a3e994946 --- misc/dispersion_chunks.py | 3 +- misc/hexdisplot.py | 197 ++++++++++++++++++++++++++++++++++++++ 2 files changed, 199 insertions(+), 1 deletion(-) create mode 100755 misc/hexdisplot.py diff --git a/misc/dispersion_chunks.py b/misc/dispersion_chunks.py index 8f71a75..3168c35 100755 --- a/misc/dispersion_chunks.py +++ b/misc/dispersion_chunks.py @@ -1,6 +1,5 @@ #!/usr/bin/env python3 - import argparse, re, random, string import subprocess from scipy.constants import hbar, e as eV, pi, c @@ -200,9 +199,11 @@ if verbose: sys.stderr.flush() metadata = np.array({ + 'lMax' : lMax, 'maxlayer' : maxlayer, 'gaussianSigma' : gaussianSigma, 'epsilon_b' : epsilon_b, + 'hexside' : hexside, 'chunkn' : chunkn, 'TMatrix_file' : TMatrix_file, 'ops' : ops, diff --git a/misc/hexdisplot.py b/misc/hexdisplot.py new file mode 100755 index 0000000..186263e --- /dev/null +++ b/misc/hexdisplot.py @@ -0,0 +1,197 @@ +#!/usr/bin/env python3 + +import argparse, re, random, string +from scipy.constants import hbar, e as eV, pi, c + +parser = argparse.ArgumentParser() +#TODO? použít type=argparse.FileType('r') ? +parser.add_argument('--output', '-o', action='store', help='Path to output PDF') +parser.add_argument('--nSV', action='store', metavar='N', type=int, default=1, help='Draw N minimum singular values') +#parser.add_argument('--eVfreq', action='store', required=True, type=float, help='Frequency in eV') +parser.add_argument('inputfile', nargs='+', help='Npz file(s) generated by dispersion_chunks.py or other script') +pargs=parser.parse_args() +print(pargs) + +#freq = eVfreq*eV/hbar + +pdfout = pargs.output if pargs.output else '%s.pdf' % pargs.inputfile[-1] +print(pdfout) + +svn = pargs.nSV + +# -----------------finished basic CLI parsing (except for op arguments) ------------------ +import time +begtime=time.time() + +import qpms +from matplotlib.path import Path +import matplotlib.patches as patches +import matplotlib.pyplot as plt +import numpy as np +import os, sys, warnings, math +from matplotlib import pyplot as plt +from matplotlib.backends.backend_pdf import PdfPages +from scipy import interpolate + +# We do not want to import whole qpms, so copy and modify this only fun needed +def nelem2lMax(nelem): + lMax = round(math.sqrt(1+nelem) - 1) + if ((lMax < 1) or ((lMax + 2) * lMax != nelem)): + raise + else: + return lMax + + + +nx = None +s3 = math.sqrt(3) + + +# read data from files +lMax = None +epsilon_b = None +hexside = None +karrlist = list() +svTElist = list() +svTMlist = list() +omegalist = list() +records = 0 +for filename in pargs.inputfile: + npz = np.load(filename) + lMaxRead = npz['metadata'][()]['lMax'] if 'lMax' in npz['metadata'][()] else nelem2lMax(npz['sTE'].shape[1] / 2) + if lMax is None: lMax = lMaxRead + elif lMax != lMaxRead: raise + if epsilon_b is None: epsilon_b = npz['metadata'][()]['epsilon_b'] + elif epsilon_b != npz['metadata'][()]['epsilon_b'] : raise + if hexside is None: hexside = npz['metadata'][()]['hexside'] + elif hexside != npz['metadata'][()]['hexside'] : raise + omegalist.append(npz['omega'][()]) + karrlist.append(np.array(npz['klist'])) + svTElist.append(np.array(npz['sTE'][:,-svn:])) + svTMlist.append(np.array(npz['sTM'][:,-svn:])) + records += 1 + npz.close() + +# sort by frequencies +omegas = set(omegalist) +print(omegas) +k = dict() +svTE = dict() +svTM = dict() +for omega in omegas: + k[omega] = list() + svTE[omega] = list() + svTM[omega] = list() +for i in range(records): + omega = omegalist[i] + k[omega].append(karrlist[i]) + svTE[omega].append(svTElist[i]) + svTM[omega].append(svTMlist[i]) +# concatenate arrays for each frequency +for omega in omegas: + k[omega] = np.concatenate(k[omega]) + svTE[omega] = np.concatenate(svTE[omega]) + svTM[omega] = np.concatenate(svTM[omega]) + +# ... that was for the slices. TODO fill also the righternmost plot with the calculated (which?) modes. + +pdf = PdfPages(pdfout) + +# In[3]: + +cdn = c/ math.sqrt(epsilon_b) +#my, ny = qpms.get_mn_y(lMax) +#nelem = len(my) +nelem = lMax * (lMax + 2) + + +''' The new pretty diffracted order drawing ''' +maxlayer_reciprocal=4 +cdn = c/ math.sqrt(epsilon_b) +bz_0 = np.array((0,0,)) +bz_K1 = np.array((1.,0))*4*np.pi/3/hexside/s3 +bz_K2 = np.array((1./2.,s3/2))*4*np.pi/3/hexside/s3 +bz_M = np.array((3./4, s3/4))*4*np.pi/3/hexside/s3 + +# reciprocal lattice basis +B1 = 2* bz_K1 - bz_K2 +B2 = 2* bz_K2 - bz_K1 + +k2density = 100 +k0Mlist = bz_0 + (bz_M-bz_0) * np.linspace(0,1,k2density)[:,nx] +kMK1list = bz_M + (bz_K1-bz_M) * np.linspace(0,1,k2density)[:,nx] +kK10list = bz_K1 + (bz_0-bz_K1) * np.linspace(0,1,k2density)[:,nx] +k0K2list = bz_0 + (bz_K2-bz_0) * np.linspace(0,1,k2density)[:,nx] +kK2Mlist = bz_K2 + (bz_M-bz_K2) * np.linspace(0,1,k2density)[:,nx] +k2list = np.concatenate((k0Mlist,kMK1list,kK10list,k0K2list,kK2Mlist), axis=0) +kxmaplist = np.concatenate((np.array([0]),np.cumsum(np.linalg.norm(np.diff(k2list, axis=0), axis=-1)))) + +centers2=qpms.generate_trianglepoints(maxlayer_reciprocal, v3d = False, include_origin= True)*4*np.pi/3/hexside +rot90 = np.array([[0,-1],[1,0]]) +centers2=np.dot(centers2,rot90) + +import matplotlib.pyplot as plt +import matplotlib +from matplotlib.path import Path +import matplotlib.patches as patches +cmap = matplotlib.cm.prism +colormax = np.amax(np.linalg.norm(centers2,axis=0)) + + +for omega in sorted(omegas): + klist = k[omega] + minsvTElist = svTE[omega] + minsvTMlist = svTM[omega] + for minN in reversed(range(svn)): + f, axes = plt.subplots(1,3, figsize=(20,4.8)) + ax = axes[0] + sc = ax.scatter(klist[:,0], klist[:,1], c = np.clip(np.abs(minsvTElist[:,minN]),0,1), lw=0) + for center in centers2: + circle=plt.Circle((center[0],center[1]),omega/cdn, facecolor='none', edgecolor=cmap(np.linalg.norm(center)/colormax),lw=0.5) + ax.add_artist(circle) + verts = [(math.cos(math.pi*i/3)*4*np.pi/3/hexside/s3,math.sin(math.pi*i/3)*4*np.pi/3/hexside/s3) for i in range(6 +1)] + codes = [Path.MOVETO,Path.LINETO,Path.LINETO,Path.LINETO,Path.LINETO,Path.LINETO,Path.CLOSEPOLY,] + path = Path(verts, codes) + patch = patches.PathPatch(path, facecolor='none', edgecolor='black', lw=1) + ax.add_patch(patch) + ax.set_xticks([]) + ax.set_yticks([]) + ax.title.set_text('E in-plane ("TE"), %d. lowest SV' % minN) + f.colorbar(sc,ax=ax) + + + ax = axes[1] + sc = ax.scatter(klist[:,0], klist[:,1], c = np.clip(np.abs(minsvTMlist[:,minN]),0,1), lw=0) + for center in centers2: + circle=plt.Circle((center[0],center[1]),omega/cdn, facecolor='none', edgecolor=cmap(np.linalg.norm(center)/colormax),lw=0.5) + ax.add_artist(circle) + verts = [(math.cos(math.pi*i/3)*4*np.pi/3/hexside/s3,math.sin(math.pi*i/3)*4*np.pi/3/hexside/s3) for i in range(6 +1)] + codes = [Path.MOVETO,Path.LINETO,Path.LINETO,Path.LINETO,Path.LINETO,Path.LINETO,Path.CLOSEPOLY,] + path = Path(verts, codes) + patch = patches.PathPatch(path, facecolor='none', edgecolor='black', lw=1) + ax.add_patch(patch) + ax.set_xticks([]) + ax.set_yticks([]) + ax.title.set_text('E perpendicular ("TM"), %d. lowest SV' % minN) + f.colorbar(sc,ax=ax) + + ax = axes[2] + for center in centers2: + ax.plot(kxmaplist, np.linalg.norm(k2list-center,axis=-1)*cdn, '-', color=cmap(np.linalg.norm(center)/colormax)) + + #ax.set_xlim([np.min(kxmlarr),np.max(kxmlarr)]) + #ax.set_ylim([np.min(omegalist),np.max(omegalist)]) + xticklist = [0, kxmaplist[len(k0Mlist)-1], kxmaplist[len(k0Mlist)+len(kMK1list)-1], kxmaplist[len(k0Mlist)+len(kMK1list)+len(kK10list)-1], kxmaplist[len(k0Mlist)+len(kMK1list)+len(kK10list)+len(k0K2list)-1], kxmaplist[len(k0Mlist)+len(kMK1list)+len(kK10list)+len(k0K2list)+len(kK2Mlist)-1]] + ax.set_xticks(xticklist) + for xt in xticklist: + ax.axvline(xt, ls='dotted', lw=0.3,c='k') + ax.set_xticklabels(['Γ', 'M', 'K', 'Γ', 'K\'','M']) + ax.axhline(omega, c='black') + ax.set_ylim([0,5e15]) + ax2 = ax.twinx() + ax2.set_ylim([ax.get_ylim()[0]/eV*hbar,ax.get_ylim()[1]/eV*hbar]) + + pdf.savefig(f) + +pdf.close() +