Add the size vs. lMax script from triton.
Former-commit-id: b2670f5fb1c54242dd670a4e71eb018a85e2ea6c
This commit is contained in:
Marek Nečada
parent
7f2e36e956
commit
14e415dfc5
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#!/bin/bash
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#SBATCH --mem=200
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#SBATCH -t 30:00
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#SBATCH -c 4
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#SBATCH -p short-ivb
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#SBATCH --array=0-250
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cat $0
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contour_points=410
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#radii_nm=(`seq 80 1 150`)
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radii_nm=(`seq 50 1 300`)
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radius_nm=${radii_nm[$SLURM_ARRAY_TASK_ID]}
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for lMax in $(seq 1 5); do
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srun rectlat_simple_modes.py -p 580e-9 -m '4+0.7j' -r ${radius_nm}e-9 -k 0 0 --kpi -n 1.52 -L lMax -t 1e11 -b -2 -f 0.1 -i 1. -T .3 -N ${contour_points}
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done
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#!/bin/bash
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kx=0.0
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contour_points=410
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radii_nm=(`seq 50 1 300`)
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radius_nm=${radii_nm[$SLURM_ARRAY_TASK_ID]}
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for lMax in $(seq 1 5) ; do
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for radius_nm in $(seq 50 1 300) ; do
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rectlat_simple_modes.py -p 580e-9 -m 'Au' -r ${radius_nm}e-9 -k $kx 0 --kpi -n 1.52 -L $lMax -t 1e11 -b -2 -f 0.1 -i 1. -T .3 -N ${contour_points} --lMax-extend 10
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done
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done
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#!/bin/bash
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kx=0.0
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contour_points=410
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radii_nm=(`seq 50 1 300`)
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radius_nm=${radii_nm[$SLURM_ARRAY_TASK_ID]}
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for radius_nm in $(seq 50 1 300) ; do
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rectlat_simple_modes.py -p 580e-9 -m 'Au' -r ${radius_nm}e-9 -k $kx 0 --kpi -n 1.52 -L 1 -t 1e11 -b -2 -f 0.1 -i 1. -T .3 -N ${contour_points}
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done
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@ -0,0 +1,300 @@
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{
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"cells": [
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{
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"cell_type": "code",
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"execution_count": 1,
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"metadata": {},
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"outputs": [],
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"source": [
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"%matplotlib inline\n",
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"import re\n",
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"import numpy as np\n",
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"import matplotlib\n",
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"from matplotlib import pyplot as plt\n",
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"from scipy.constants import hbar, e as eV, c\n",
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"eh = eV/hbar\n",
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"import glob\n",
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"def ri(z): return (z.real, z.imag)\n",
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"#m = re.compile(r\"([^_]+)_r([0-9.]+)nm_\")\n",
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"#removek = re.compile(r\"(k\\([^)]+\\)um-1_)\")\n",
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"remover = re.compile(r\"r[0-9.]+nm_\")\n",
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"\n",
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"\n",
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"markerdict = {\n",
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" 4: \"3\",\n",
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" -4: \"4\",\n",
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" 3: \"^\",\n",
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" -3: \"v\",\n",
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" -2: 'x',\n",
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" 2: '+',\n",
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" 1: 's',\n",
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" -1: 'd',\n",
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"}\n",
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"\n",
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"prop_cycle = plt.rcParams['axes.prop_cycle']\n",
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"colors = prop_cycle.by_key()['color']\n",
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"colordict = {i: colors[(i+1)] for i in range(-4,8)}\n",
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"\n",
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"def markerfun(b):\n",
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" if b in markerdict.keys():\n",
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" return markerdict[b]\n",
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" else: return 'X'\n",
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"\n",
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"def colorfun(b):\n",
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" if (b+1) in colordict.keys():\n",
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" return colordict[b+1]\n",
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" else: return colordict[0]"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 2,
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"metadata": {},
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"outputs": [],
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"source": [
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"allfiles=glob.glob('*sph*k(0_0)*.npz')\n",
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"allgraphs=dict()\n",
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"for f in allfiles:\n",
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" base = remover.sub('', f)\n",
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" if base in allgraphs.keys():\n",
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" allgraphs[base] += 1\n",
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" else:\n",
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" allgraphs[base] = 1\n",
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"for k in sorted(allgraphs.keys()):\n",
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" print(k, allgraphs[k])"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 3,
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"metadata": {},
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"outputs": [
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{
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"ename": "FileNotFoundError",
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"evalue": "[Errno 2] No such file or directory: 'projectors_D4h_lMax1.npz'",
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"output_type": "error",
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"traceback": [
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"\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
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"\u001b[0;31mFileNotFoundError\u001b[0m Traceback (most recent call last)",
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"\u001b[0;32m<ipython-input-3-0c266089be08>\u001b[0m in \u001b[0;36m<module>\u001b[0;34m\u001b[0m\n\u001b[1;32m 3\u001b[0m \u001b[0mlMaxes\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0;34m[\u001b[0m\u001b[0mlMax\u001b[0m \u001b[0;32mfor\u001b[0m \u001b[0mlMax\u001b[0m \u001b[0;32min\u001b[0m \u001b[0mrange\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0;36m1\u001b[0m\u001b[0;34m,\u001b[0m\u001b[0;36m6\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m]\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 4\u001b[0m \u001b[0;32mfor\u001b[0m \u001b[0mlMax\u001b[0m \u001b[0;32min\u001b[0m \u001b[0mlMaxes\u001b[0m\u001b[0;34m:\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0;32m----> 5\u001b[0;31m \u001b[0mproj\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0mnp\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0mload\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0;34m'projectors_D4h_lMax%d.npz'\u001b[0m \u001b[0;34m%\u001b[0m \u001b[0mlMax\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0m\u001b[1;32m 6\u001b[0m \u001b[0mirlabels\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0msorted\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mproj\u001b[0m\u001b[0;34m.\u001b[0m\u001b[0mkeys\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 7\u001b[0m \u001b[0mproj\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0;34m{\u001b[0m\u001b[0mf\u001b[0m\u001b[0;34m:\u001b[0m \u001b[0mproj\u001b[0m\u001b[0;34m[\u001b[0m\u001b[0mf\u001b[0m\u001b[0;34m]\u001b[0m \u001b[0;32mfor\u001b[0m \u001b[0mf\u001b[0m \u001b[0;32min\u001b[0m \u001b[0mirlabels\u001b[0m\u001b[0;34m}\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n",
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"\u001b[0;32m~/.local/lib/python3.7/site-packages/numpy-1.17.3-py3.7-linux-x86_64.egg/numpy/lib/npyio.py\u001b[0m in \u001b[0;36mload\u001b[0;34m(file, mmap_mode, allow_pickle, fix_imports, encoding)\u001b[0m\n\u001b[1;32m 426\u001b[0m \u001b[0mown_fid\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0;32mFalse\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 427\u001b[0m \u001b[0;32melse\u001b[0m\u001b[0;34m:\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0;32m--> 428\u001b[0;31m \u001b[0mfid\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0mopen\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mos_fspath\u001b[0m\u001b[0;34m(\u001b[0m\u001b[0mfile\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m,\u001b[0m \u001b[0;34m\"rb\"\u001b[0m\u001b[0;34m)\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[0m\u001b[1;32m 429\u001b[0m \u001b[0mown_fid\u001b[0m \u001b[0;34m=\u001b[0m \u001b[0;32mTrue\u001b[0m\u001b[0;34m\u001b[0m\u001b[0;34m\u001b[0m\u001b[0m\n\u001b[1;32m 430\u001b[0m \u001b[0;34m\u001b[0m\u001b[0m\n",
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"\u001b[0;31mFileNotFoundError\u001b[0m: [Errno 2] No such file or directory: 'projectors_D4h_lMax1.npz'"
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]
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}
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],
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"source": [
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"projectors = dict()\n",
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"projectors_list = dict()\n",
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"lMaxes = [lMax for lMax in range(1,6)]\n",
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"for lMax in lMaxes:\n",
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" proj = np.load('projectors_D4h_lMax%d.npz' % lMax)\n",
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" irlabels = sorted(proj.keys())\n",
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" proj = {f: proj[f] for f in irlabels}\n",
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" proj_list = [proj[irlabels[i]] for i in range(len(proj))]\n",
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" projectors[lMax] = proj\n",
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" projectors_list[lMax] = proj_list\n",
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"globpattern = '*sph_r*_p580nmx580nm_mAu_n1.52_b?2_k(0_0)um-1_L?_cn???.npz'\n",
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"filenames=glob.glob(globpattern)\n",
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"plotfilename = 'collected_' + globpattern.replace('*', 'XXX').replace('?', 'X').replace('npz','pdf')\n",
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"print(filenames[:4], plotfilename)\n"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 41,
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"metadata": {},
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"outputs": [],
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"source": [
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"#projectors\n",
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"#glob.glob('cyl_r100nm*L3*3100.npz')\n",
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"#glob.glob('sph_r100*m5*.npz')\n",
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"#dat['meta'][()],list(dat.keys())"
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]
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"metadata": {},
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"outputs": [],
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"source": []
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},
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{
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"cell_type": "code",
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"execution_count": 42,
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"metadata": {},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"inpure result detected [1. 0.99999999 1. 0.97991334 0.99999996 0.9999989\n",
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" 0.99999983 0.99999966 0.99999322 0.99999721 0.99999653] [3.28735741e-04 2.66532534e-05 2.47011478e-05 1.45012420e-01\n",
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" 2.44785416e-04 7.05405359e-04 1.60203586e-03 1.71245137e-03\n",
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" 1.03244480e-02 9.18732728e-03 1.18651583e-02]\n",
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"inpure result detected [1. 1. 0.99999998 0.99999999 0.99999996 0.96608887\n",
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" 0.99999852 0.99999397 0.99998951 0.99999912 0.99982435] [2.66223026e-04 2.12357147e-05 3.54211968e-05 1.06651057e-04\n",
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" 2.79595790e-04 2.41939163e-01 2.17645058e-03 3.41541473e-03\n",
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" 1.14507609e-02 1.49639498e-02 2.33483138e-02]\n",
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"inpure result detected [1. 1. 0.92521572 1. 0.99999627 0.99990293\n",
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" 0.99946049] [1.59712906e-05 3.60193407e-05 2.48341492e-01 1.21848930e-03\n",
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" 3.81805601e-03 2.42649228e-02 2.99534246e-02]\n",
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"inpure result detected [1. 1. 0.99999998 0.99999961 0.93267685 0.99999964\n",
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" 0.99999822 0.99921774 0.99995547 0.99997301] [5.22490396e-04 3.01556792e-05 4.88795563e-05 6.29703960e-04\n",
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" 2.34414238e-01 3.72766210e-03 4.72444059e-03 7.62106094e-02\n",
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" 6.32796684e-02 5.63231562e-02]\n"
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]
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}
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],
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"source": [
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"plotdata = {}\n",
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"for file in filenames:\n",
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" dat = np.load(file, allow_pickle=True)\n",
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" kx = dat['meta'][()]['k'][0]\n",
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" radius = dat['meta'][()]['radius']\n",
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" b = dat['meta'][()]['band_index']\n",
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" eigvals = dat['eigval']\n",
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" lMax = dat['meta'][()]['lMax']\n",
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" residuals = dat['residuals']\n",
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" ef =dat['empty_freqs']\n",
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" eigvecs = dat['eigvec']\n",
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" irweights = []\n",
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" #for proj in projectors_list[lMax]:\n",
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" # try:\n",
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" # irweights.append(np.linalg.norm(np.tensordot(proj, eigvecs, axes=(-1, -1)), axis=0,ord=2) if len(proj) != 0 else np.zeros((len(eigvecs),)))\n",
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" # except ValueError as err:\n",
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" # print(proj, len(proj))\n",
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" # raise err\n",
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" irweights = np.array(irweights)\n",
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" #print(irweights)\n",
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" irweights = np.array([np.linalg.norm(np.tensordot(proj, eigvecs, axes=(-1, -1)), axis=0,ord=2) if len(proj) != 0 else np.zeros((len(eigvecs),)) for proj in projectors_list[lMax]]).T\n",
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" irclass = np.argmax(irweights, axis=-1)\n",
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" purities = np.amax(irweights, axis=-1)\n",
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" if (np.any(purities < 0.98)):\n",
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" print(\"inpure result detected\", purities, residuals)\n",
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" #print(purities)\n",
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" \n",
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" #for i in range(len(residuals)): \n",
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" # if residuals[i] < 0.01:\n",
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" # vec = eigvecs[i]\n",
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" # for irlabel, proj in projectors.items():\n",
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" # print(irlabel, np.linalg.norm(np.dot(proj, vec))) #maybe some conj() here?\n",
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" # print('--->', irlabels[irclass[i]])\n",
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"\n",
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" \n",
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" plotdata[(lMax,radius)] = (eigvals, residuals, b, ef, irclass,)\n"
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]
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},
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{
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"cell_type": "code",
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"execution_count": null,
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"metadata": {},
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"outputs": [],
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"source": [
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"fig = plt.figure(figsize=(15,6))\n",
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"axesR = {}\n",
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"axesI = {}\n",
|
||||||
|
"for i, lMax in enumerate(lMaxes):\n",
|
||||||
|
" axesR[lMax] = fig.add_subplot(2,len(lMaxes),i+1)\n",
|
||||||
|
" axesR[lMax].set_xlim([50,300])\n",
|
||||||
|
" axesR[lMax].set_ylim([1.25, ef[1]/eh])\n",
|
||||||
|
" axesI[lMax] = fig.add_subplot(2,len(lMaxes),len(lMaxes)+i+1)\n",
|
||||||
|
" axesI[lMax].set_xlim([50,300])\n",
|
||||||
|
" axesI[lMax].set_ylim([-60, 30])\n",
|
||||||
|
" axesR[lMax].set_title('$l_\\max = %d $' % lMax) \n",
|
||||||
|
" axesR[lMax].tick_params(labelbottom=False) \n",
|
||||||
|
" if i == len(lMaxes)//2:\n",
|
||||||
|
" axesI[lMax].set_xlabel(\"Particle base radius / nm\")\n",
|
||||||
|
" if i == 0:\n",
|
||||||
|
" axesR[lMax].set_ylabel('$\\hbar \\Re \\omega / \\mathrm{eV}$')\n",
|
||||||
|
" axesI[lMax].set_ylabel('$\\hbar \\Im \\omega / \\mathrm{meV}$')\n",
|
||||||
|
" else:\n",
|
||||||
|
" axesR[lMax].tick_params(labelleft=False) \n",
|
||||||
|
" axesI[lMax].tick_params(labelleft=False) \n",
|
||||||
|
"\n",
|
||||||
|
"res_thr = 0.005\n",
|
||||||
|
"\n",
|
||||||
|
"ir_labeled=set()\n",
|
||||||
|
"if True:\n",
|
||||||
|
" for (lMax, radius), (eigvals, residuals, b, ef, irclass) in plotdata.items():\n",
|
||||||
|
" for i, (e, res, iri) in enumerate(zip(eigvals, residuals, irclass)):\n",
|
||||||
|
" #if i == 0:\n",
|
||||||
|
" if res < res_thr:# and e.real < 2.14e15:\n",
|
||||||
|
" if iri in ir_labeled: \n",
|
||||||
|
" label=None\n",
|
||||||
|
" else:\n",
|
||||||
|
" ir_labeled.add(iri)\n",
|
||||||
|
" label=irlabels[iri]\n",
|
||||||
|
" axesR[lMax].plot(radius*1e9, e.real/eh, \n",
|
||||||
|
" marker='.',\n",
|
||||||
|
" #marker=markerfun(b),\n",
|
||||||
|
" ms=4, #c=colorfun(b)\n",
|
||||||
|
" c=matplotlib.cm.hsv(iri/9),\n",
|
||||||
|
" #c = colorfun(iri),\n",
|
||||||
|
" label=label,\n",
|
||||||
|
" )\n",
|
||||||
|
" axesI[lMax].plot(radius*1e9, e.imag/eh*1000, \n",
|
||||||
|
" #marker='x', \n",
|
||||||
|
" #c=colorfun(b), \n",
|
||||||
|
" c=matplotlib.cm.hsv(iri/9),#colorfun(iri),\n",
|
||||||
|
" marker='.', #markerfun(b),\n",
|
||||||
|
" ms=4,\n",
|
||||||
|
" #label=label\n",
|
||||||
|
" )\n",
|
||||||
|
"fig.legend(title=\"Irrep\", loc=\"center right\")\n",
|
||||||
|
"#fig.suptitle('$l_\\mathrm{max}=%d$, residual threshold = %g' % (lMax, res_thr) )\n",
|
||||||
|
"fig.savefig(plotfilename)\n",
|
||||||
|
"fig.savefig(plotfilename.replace('pdf', 'png'))\n",
|
||||||
|
"print(plotfilename)"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": 55,
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [
|
||||||
|
{
|
||||||
|
"data": {
|
||||||
|
"text/plain": [
|
||||||
|
"array([0. , 1.40635433, 1.98888536, 2.81270865, 3.14470387,\n",
|
||||||
|
" 3.97777072, 4.21906298, 4.44728287])"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
"execution_count": 55,
|
||||||
|
"metadata": {},
|
||||||
|
"output_type": "execute_result"
|
||||||
|
}
|
||||||
|
],
|
||||||
|
"source": [
|
||||||
|
"ef / eh"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": []
|
||||||
|
}
|
||||||
|
],
|
||||||
|
"metadata": {
|
||||||
|
"kernelspec": {
|
||||||
|
"display_name": "Python 3",
|
||||||
|
"language": "python",
|
||||||
|
"name": "python3"
|
||||||
|
},
|
||||||
|
"language_info": {
|
||||||
|
"codemirror_mode": {
|
||||||
|
"name": "ipython",
|
||||||
|
"version": 3
|
||||||
|
},
|
||||||
|
"file_extension": ".py",
|
||||||
|
"mimetype": "text/x-python",
|
||||||
|
"name": "python",
|
||||||
|
"nbconvert_exporter": "python",
|
||||||
|
"pygments_lexer": "ipython3",
|
||||||
|
"version": "3.7.6"
|
||||||
|
}
|
||||||
|
},
|
||||||
|
"nbformat": 4,
|
||||||
|
"nbformat_minor": 4
|
||||||
|
}
|
||||||
Loading…
Reference in New Issue