{
 "cells": [
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Import supporting package"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 1,
   "metadata": {},
   "outputs": [],
   "source": [
    "import copy\n",
    "import glob\n",
    "from datetime import datetime\n",
    "\n",
    "# The package for data structure\n",
    "import xarray as xr\n",
    "import pandas as pd\n",
    "import numpy as np\n",
    "\n",
    "# The packages for working with uncertainties\n",
    "from uncertainties import ufloat\n",
    "from uncertainties import unumpy as unp\n",
    "from uncertainties import umath\n",
    "\n",
    "# The package for plotting\n",
    "import matplotlib.pyplot as plt\n",
    "plt.rcParams['font.size'] = 18 # Set the global font size\n",
    "\n",
    "# -------------- The modules written by us --------------\n",
    "\n",
    "# The packages for read data\n",
    "from DataContainer.ReadData import read_hdf5_file, read_hdf5_global, read_hdf5_run_time, read_csv_file\n",
    "\n",
    "# The packages for data analysis\n",
    "from Analyser.ImagingAnalyser import ImageAnalyser\n",
    "from Analyser.FitAnalyser import FitAnalyser\n",
    "from Analyser.FitAnalyser import ThomasFermi2dModel, DensityProfileBEC2dModel, Polylog22dModel\n",
    "from Analyser.FFTAnalyser import fft, ifft, fft_nutou\n",
    "from ToolFunction.ToolFunction import *\n",
    "\n",
    "# Add errorbar plot to xarray package\n",
    "from ToolFunction.HomeMadeXarrayFunction import errorbar, dataarray_plot_errorbar\n",
    "xr.plot.dataarray_plot.errorbar = errorbar\n",
    "xr.plot.accessor.DataArrayPlotAccessor.errorbar = dataarray_plot_errorbar"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Start a client for parallel computing"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "C:\\Users\\data\\AppData\\Roaming\\Python\\Python39\\site-packages\\distributed\\node.py:182: UserWarning: Port 8787 is already in use.\n",
      "Perhaps you already have a cluster running?\n",
      "Hosting the HTTP server on port 57804 instead\n",
      "  warnings.warn(\n"
     ]
    },
    {
     "data": {
      "text/html": [
       "<div>\n",
       "    <div style=\"width: 24px; height: 24px; background-color: #e1e1e1; border: 3px solid #9D9D9D; border-radius: 5px; position: absolute;\"> </div>\n",
       "    <div style=\"margin-left: 48px;\">\n",
       "        <h3 style=\"margin-bottom: 0px;\">Client</h3>\n",
       "        <p style=\"color: #9D9D9D; margin-bottom: 0px;\">Client-dfee8bd5-35d5-11ee-960c-80e82ce2fa8e</p>\n",
       "        <table style=\"width: 100%; text-align: left;\">\n",
       "\n",
       "        <tr>\n",
       "        \n",
       "            <td style=\"text-align: left;\"><strong>Connection method:</strong> Cluster object</td>\n",
       "            <td style=\"text-align: left;\"><strong>Cluster type:</strong> distributed.LocalCluster</td>\n",
       "        \n",
       "        </tr>\n",
       "\n",
       "        \n",
       "            <tr>\n",
       "                <td style=\"text-align: left;\">\n",
       "                    <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:57804/status\" target=\"_blank\">http://127.0.0.1:57804/status</a>\n",
       "                </td>\n",
       "                <td style=\"text-align: left;\"></td>\n",
       "            </tr>\n",
       "        \n",
       "\n",
       "        </table>\n",
       "\n",
       "        \n",
       "\n",
       "        \n",
       "            <details>\n",
       "            <summary style=\"margin-bottom: 20px;\"><h3 style=\"display: inline;\">Cluster Info</h3></summary>\n",
       "            <div class=\"jp-RenderedHTMLCommon jp-RenderedHTML jp-mod-trusted jp-OutputArea-output\">\n",
       "    <div style=\"width: 24px; height: 24px; background-color: #e1e1e1; border: 3px solid #9D9D9D; border-radius: 5px; position: absolute;\">\n",
       "    </div>\n",
       "    <div style=\"margin-left: 48px;\">\n",
       "        <h3 style=\"margin-bottom: 0px; margin-top: 0px;\">LocalCluster</h3>\n",
       "        <p style=\"color: #9D9D9D; margin-bottom: 0px;\">162c46da</p>\n",
       "        <table style=\"width: 100%; text-align: left;\">\n",
       "            <tr>\n",
       "                <td style=\"text-align: left;\">\n",
       "                    <strong>Dashboard:</strong> <a href=\"http://127.0.0.1:57804/status\" target=\"_blank\">http://127.0.0.1:57804/status</a>\n",
       "                </td>\n",
       "                <td style=\"text-align: left;\">\n",
       "                    <strong>Workers:</strong> 6\n",
       "                </td>\n",
       "            </tr>\n",
       "            <tr>\n",
       "                <td style=\"text-align: left;\">\n",
       "                    <strong>Total threads:</strong> 60\n",
       "                </td>\n",
       "                <td style=\"text-align: left;\">\n",
       "                    <strong>Total memory:</strong> 55.88 GiB\n",
       "                </td>\n",
       "            </tr>\n",
       "            \n",
       "            <tr>\n",
       "    <td style=\"text-align: left;\"><strong>Status:</strong> running</td>\n",
       "    <td style=\"text-align: left;\"><strong>Using processes:</strong> True</td>\n",
       "</tr>\n",
       "\n",
       "            \n",
       "        </table>\n",
       "\n",
       "        <details>\n",
       "            <summary style=\"margin-bottom: 20px;\">\n",
       "                <h3 style=\"display: inline;\">Scheduler Info</h3>\n",
       "            </summary>\n",
       "\n",
       "            <div style=\"\">\n",
       "    <div>\n",
       "        <div style=\"width: 24px; height: 24px; background-color: #FFF7E5; border: 3px solid #FF6132; border-radius: 5px; position: absolute;\"> </div>\n",
       "        <div style=\"margin-left: 48px;\">\n",
       "            <h3 style=\"margin-bottom: 0px;\">Scheduler</h3>\n",
       "            <p style=\"color: #9D9D9D; margin-bottom: 0px;\">Scheduler-b1db6959-375b-4ed2-9a77-02ce7ec59048</p>\n",
       "            <table style=\"width: 100%; text-align: left;\">\n",
       "                <tr>\n",
       "                    <td style=\"text-align: left;\">\n",
       "                        <strong>Comm:</strong> tcp://127.0.0.1:57807\n",
       "                    </td>\n",
       "                    <td style=\"text-align: left;\">\n",
       "                        <strong>Workers:</strong> 6\n",
       "                    </td>\n",
       "                </tr>\n",
       "                <tr>\n",
       "                    <td style=\"text-align: left;\">\n",
       "                        <strong>Dashboard:</strong> <a href=\"http://127.0.0.1:57804/status\" target=\"_blank\">http://127.0.0.1:57804/status</a>\n",
       "                    </td>\n",
       "                    <td style=\"text-align: left;\">\n",
       "                        <strong>Total threads:</strong> 60\n",
       "                    </td>\n",
       "                </tr>\n",
       "                <tr>\n",
       "                    <td style=\"text-align: left;\">\n",
       "                        <strong>Started:</strong> Just now\n",
       "                    </td>\n",
       "                    <td style=\"text-align: left;\">\n",
       "                        <strong>Total memory:</strong> 55.88 GiB\n",
       "                    </td>\n",
       "                </tr>\n",
       "            </table>\n",
       "        </div>\n",
       "    </div>\n",
       "\n",
       "    <details style=\"margin-left: 48px;\">\n",
       "        <summary style=\"margin-bottom: 20px;\">\n",
       "            <h3 style=\"display: inline;\">Workers</h3>\n",
       "        </summary>\n",
       "\n",
       "        \n",
       "        <div style=\"margin-bottom: 20px;\">\n",
       "            <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
       "            <div style=\"margin-left: 48px;\">\n",
       "            <details>\n",
       "                <summary>\n",
       "                    <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 0</h4>\n",
       "                </summary>\n",
       "                <table style=\"width: 100%; text-align: left;\">\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Comm: </strong> tcp://127.0.0.1:57846\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Total threads: </strong> 10\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:57847/status\" target=\"_blank\">http://127.0.0.1:57847/status</a>\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Memory: </strong> 9.31 GiB\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Nanny: </strong> tcp://127.0.0.1:57810\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\"></td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td colspan=\"2\" style=\"text-align: left;\">\n",
       "                            <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-o0fweh8b\n",
       "                        </td>\n",
       "                    </tr>\n",
       "\n",
       "                    \n",
       "\n",
       "                    \n",
       "\n",
       "                </table>\n",
       "            </details>\n",
       "            </div>\n",
       "        </div>\n",
       "        \n",
       "        <div style=\"margin-bottom: 20px;\">\n",
       "            <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
       "            <div style=\"margin-left: 48px;\">\n",
       "            <details>\n",
       "                <summary>\n",
       "                    <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 1</h4>\n",
       "                </summary>\n",
       "                <table style=\"width: 100%; text-align: left;\">\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Comm: </strong> tcp://127.0.0.1:57840\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Total threads: </strong> 10\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:57842/status\" target=\"_blank\">http://127.0.0.1:57842/status</a>\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Memory: </strong> 9.31 GiB\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Nanny: </strong> tcp://127.0.0.1:57811\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\"></td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td colspan=\"2\" style=\"text-align: left;\">\n",
       "                            <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-toa8_m6l\n",
       "                        </td>\n",
       "                    </tr>\n",
       "\n",
       "                    \n",
       "\n",
       "                    \n",
       "\n",
       "                </table>\n",
       "            </details>\n",
       "            </div>\n",
       "        </div>\n",
       "        \n",
       "        <div style=\"margin-bottom: 20px;\">\n",
       "            <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
       "            <div style=\"margin-left: 48px;\">\n",
       "            <details>\n",
       "                <summary>\n",
       "                    <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 2</h4>\n",
       "                </summary>\n",
       "                <table style=\"width: 100%; text-align: left;\">\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Comm: </strong> tcp://127.0.0.1:57834\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Total threads: </strong> 10\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:57835/status\" target=\"_blank\">http://127.0.0.1:57835/status</a>\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Memory: </strong> 9.31 GiB\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Nanny: </strong> tcp://127.0.0.1:57812\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\"></td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td colspan=\"2\" style=\"text-align: left;\">\n",
       "                            <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-_6d2fpz3\n",
       "                        </td>\n",
       "                    </tr>\n",
       "\n",
       "                    \n",
       "\n",
       "                    \n",
       "\n",
       "                </table>\n",
       "            </details>\n",
       "            </div>\n",
       "        </div>\n",
       "        \n",
       "        <div style=\"margin-bottom: 20px;\">\n",
       "            <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
       "            <div style=\"margin-left: 48px;\">\n",
       "            <details>\n",
       "                <summary>\n",
       "                    <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 3</h4>\n",
       "                </summary>\n",
       "                <table style=\"width: 100%; text-align: left;\">\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Comm: </strong> tcp://127.0.0.1:57837\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Total threads: </strong> 10\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:57838/status\" target=\"_blank\">http://127.0.0.1:57838/status</a>\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Memory: </strong> 9.31 GiB\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Nanny: </strong> tcp://127.0.0.1:57813\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\"></td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td colspan=\"2\" style=\"text-align: left;\">\n",
       "                            <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-jquysjj5\n",
       "                        </td>\n",
       "                    </tr>\n",
       "\n",
       "                    \n",
       "\n",
       "                    \n",
       "\n",
       "                </table>\n",
       "            </details>\n",
       "            </div>\n",
       "        </div>\n",
       "        \n",
       "        <div style=\"margin-bottom: 20px;\">\n",
       "            <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
       "            <div style=\"margin-left: 48px;\">\n",
       "            <details>\n",
       "                <summary>\n",
       "                    <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 4</h4>\n",
       "                </summary>\n",
       "                <table style=\"width: 100%; text-align: left;\">\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Comm: </strong> tcp://127.0.0.1:57849\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Total threads: </strong> 10\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:57850/status\" target=\"_blank\">http://127.0.0.1:57850/status</a>\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Memory: </strong> 9.31 GiB\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Nanny: </strong> tcp://127.0.0.1:57814\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\"></td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td colspan=\"2\" style=\"text-align: left;\">\n",
       "                            <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-okg6p_4_\n",
       "                        </td>\n",
       "                    </tr>\n",
       "\n",
       "                    \n",
       "\n",
       "                    \n",
       "\n",
       "                </table>\n",
       "            </details>\n",
       "            </div>\n",
       "        </div>\n",
       "        \n",
       "        <div style=\"margin-bottom: 20px;\">\n",
       "            <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
       "            <div style=\"margin-left: 48px;\">\n",
       "            <details>\n",
       "                <summary>\n",
       "                    <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 5</h4>\n",
       "                </summary>\n",
       "                <table style=\"width: 100%; text-align: left;\">\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Comm: </strong> tcp://127.0.0.1:57841\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Total threads: </strong> 10\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:57843/status\" target=\"_blank\">http://127.0.0.1:57843/status</a>\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Memory: </strong> 9.31 GiB\n",
       "                        </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td style=\"text-align: left;\">\n",
       "                            <strong>Nanny: </strong> tcp://127.0.0.1:57815\n",
       "                        </td>\n",
       "                        <td style=\"text-align: left;\"></td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <td colspan=\"2\" style=\"text-align: left;\">\n",
       "                            <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-iszz7udd\n",
       "                        </td>\n",
       "                    </tr>\n",
       "\n",
       "                    \n",
       "\n",
       "                    \n",
       "\n",
       "                </table>\n",
       "            </details>\n",
       "            </div>\n",
       "        </div>\n",
       "        \n",
       "\n",
       "    </details>\n",
       "</div>\n",
       "\n",
       "        </details>\n",
       "    </div>\n",
       "</div>\n",
       "            </details>\n",
       "        \n",
       "\n",
       "    </div>\n",
       "</div>"
      ],
      "text/plain": [
       "<Client: 'tcp://127.0.0.1:57807' processes=6 threads=60, memory=55.88 GiB>"
      ]
     },
     "execution_count": 2,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "from dask.distributed import Client\n",
    "client = Client(n_workers=6, threads_per_worker=10, processes=True, memory_limit='10GB')\n",
    "client"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Load Data"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## With Modulation"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "metadata": {},
   "outputs": [
    {
     "data": {
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       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.DataArray &#x27;CH1&#x27; (x: 6000000)&gt;\n",
       "array([0.329, 0.317, 0.309, ..., 0.293, 0.305, 0.309])\n",
       "Coordinates:\n",
       "  * x        (x) float64 0.0 2e-06 4e-06 6e-06 8e-06 ... 12.0 12.0 12.0 12.0</pre><div class='xr-wrap' style='display:none'><div class='xr-header'><div class='xr-obj-type'>xarray.DataArray</div><div class='xr-array-name'>'CH1'</div><ul class='xr-dim-list'><li><span class='xr-has-index'>x</span>: 6000000</li></ul></div><ul class='xr-sections'><li class='xr-section-item'><div class='xr-array-wrap'><input id='section-cd69e8af-adb0-4d58-8d60-e88ea56db5b0' class='xr-array-in' type='checkbox' checked><label for='section-cd69e8af-adb0-4d58-8d60-e88ea56db5b0' title='Show/hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-array-preview xr-preview'><span>0.329 0.317 0.309 0.305 0.309 0.317 ... 0.273 0.281 0.293 0.305 0.309</span></div><div class='xr-array-data'><pre>array([0.329, 0.317, 0.309, ..., 0.293, 0.305, 0.309])</pre></div></div></li><li class='xr-section-item'><input id='section-bc920d53-f2bd-40af-bc4d-8f591ba63893' class='xr-section-summary-in' type='checkbox'  checked><label for='section-bc920d53-f2bd-40af-bc4d-8f591ba63893' class='xr-section-summary' >Coordinates: <span>(1)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>x</span></div><div class='xr-var-dims'>(x)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 2e-06 4e-06 ... 12.0 12.0 12.0</div><input id='attrs-acbf94cc-4894-45e9-8a54-c2bd6c8d627b' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-acbf94cc-4894-45e9-8a54-c2bd6c8d627b' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-40334779-fbfa-4a07-a197-7deb87a48270' class='xr-var-data-in' type='checkbox'><label for='data-40334779-fbfa-4a07-a197-7deb87a48270' title='Show/Hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-var-attrs'><dl class='xr-attrs'></dl></div><div class='xr-var-data'><pre>array([0.000000e+00, 2.000000e-06, 4.000000e-06, ..., 1.199999e+01,\n",
       "       1.200000e+01, 1.200000e+01])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-95913ac9-6209-44de-a908-d3343b013a35' class='xr-section-summary-in' type='checkbox'  ><label for='section-95913ac9-6209-44de-a908-d3343b013a35' class='xr-section-summary' >Indexes: <span>(1)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'><li class='xr-var-item'><div class='xr-index-name'><div>x</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-2e83bee0-b8fc-40ad-9a4f-f16a2f330b4a' class='xr-index-data-in' type='checkbox'/><label for='index-2e83bee0-b8fc-40ad-9a4f-f16a2f330b4a' title='Show/Hide index repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-index-data'><pre>PandasIndex(Float64Index([                  0.0,                 2e-06,\n",
       "                              4e-06,                 6e-06,\n",
       "                              8e-06, 9.999999999999999e-06,\n",
       "                            1.2e-05,               1.4e-05,\n",
       "                            1.6e-05,               1.8e-05,\n",
       "              ...\n",
       "                 11.999979999999999,             11.999982,\n",
       "                          11.999984,             11.999986,\n",
       "                          11.999988,    11.999989999999999,\n",
       "                 11.999991999999999,             11.999994,\n",
       "                          11.999996,             11.999998],\n",
       "             dtype=&#x27;float64&#x27;, name=&#x27;x&#x27;, length=6000000))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-ba5d9fa6-1249-46a1-897b-98e029355046' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-ba5d9fa6-1249-46a1-897b-98e029355046' class='xr-section-summary'  title='Expand/collapse section'>Attributes: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'></dl></div></li></ul></div></div>"
      ],
      "text/plain": [
       "<xarray.DataArray 'CH1' (x: 6000000)>\n",
       "array([0.329, 0.317, 0.309, ..., 0.293, 0.305, 0.309])\n",
       "Coordinates:\n",
       "  * x        (x) float64 0.0 2e-06 4e-06 6e-06 8e-06 ... 12.0 12.0 12.0 12.0"
      ]
     },
     "execution_count": 3,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "filePath = r'F:\\Jianshun\\AccordionLatticeShorTermStability\\20230808\\withModulation.csv'\n",
    "\n",
    "data = read_csv_file(filePath, csvEngine='pandas', csvKwargs=dict(header=[0], skiprows=[1], encoding = \"ISO-8859-1\",))\n",
    "dataWithModulation = xr.DataArray(\n",
    "    data=data.CH1[0,:],\n",
    "    dims=['x'],\n",
    "    coords=dict(\n",
    "        x=data.X[0,:].to_numpy() * 2e-6\n",
    "    )\n",
    ")\n",
    "dataWithModulation"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 44580 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "dataWithModulation.plot.errorbar()\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "metadata": {},
   "outputs": [],
   "source": [
    "dataWithModulation = dataWithModulation - dataWithModulation.mean()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 44788 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "fig = plt.figure()\n",
    "ax = fig.gca()\n",
    "\n",
    "dataWithModulation.plot.errorbar(ax=ax)\n",
    "# ax.set_xlim([0.5, 1])\n",
    "# ax.set_ylim([0, 0.25])\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "metadata": {},
   "outputs": [],
   "source": [
    "dataWithModulationFFT = fft(dataWithModulation)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 22864 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "fig = plt.figure()\n",
    "ax = fig.gca()\n",
    "\n",
    "abs(dataWithModulationFFT).plot.errorbar(ax=ax, x='freq_x')\n",
    "ax.set_xlim([0, 500])\n",
    "# ax.set_ylim([0, 0.25])\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Without Modulation"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 9,
   "metadata": {},
   "outputs": [
    {
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       "\n",
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       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.DataArray &#x27;CH1&#x27; (x: 6000000)&gt;\n",
       "array([0.501, 0.485, 0.473, ..., 0.501, 0.485, 0.477])\n",
       "Coordinates:\n",
       "  * x        (x) float64 0.0 2e-06 4e-06 6e-06 8e-06 ... 12.0 12.0 12.0 12.0</pre><div class='xr-wrap' style='display:none'><div class='xr-header'><div class='xr-obj-type'>xarray.DataArray</div><div class='xr-array-name'>'CH1'</div><ul class='xr-dim-list'><li><span class='xr-has-index'>x</span>: 6000000</li></ul></div><ul class='xr-sections'><li class='xr-section-item'><div class='xr-array-wrap'><input id='section-fe3719a9-f72c-43e4-a4f2-36d213e72f04' class='xr-array-in' type='checkbox' checked><label for='section-fe3719a9-f72c-43e4-a4f2-36d213e72f04' title='Show/hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-array-preview xr-preview'><span>0.501 0.485 0.473 0.465 0.469 0.477 ... 0.509 0.513 0.501 0.485 0.477</span></div><div class='xr-array-data'><pre>array([0.501, 0.485, 0.473, ..., 0.501, 0.485, 0.477])</pre></div></div></li><li class='xr-section-item'><input id='section-5397a53a-6e8e-42d7-9c49-a622d357f6f6' class='xr-section-summary-in' type='checkbox'  checked><label for='section-5397a53a-6e8e-42d7-9c49-a622d357f6f6' class='xr-section-summary' >Coordinates: <span>(1)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>x</span></div><div class='xr-var-dims'>(x)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 2e-06 4e-06 ... 12.0 12.0 12.0</div><input id='attrs-424b853b-629f-4f96-ae98-8b9c32ea38de' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-424b853b-629f-4f96-ae98-8b9c32ea38de' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-3805d3f8-8130-48f7-a818-fedd5f92f304' class='xr-var-data-in' type='checkbox'><label for='data-3805d3f8-8130-48f7-a818-fedd5f92f304' title='Show/Hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-var-attrs'><dl class='xr-attrs'></dl></div><div class='xr-var-data'><pre>array([0.000000e+00, 2.000000e-06, 4.000000e-06, ..., 1.199999e+01,\n",
       "       1.200000e+01, 1.200000e+01])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-21c608c9-9a05-41d1-b33b-fde7446732f7' class='xr-section-summary-in' type='checkbox'  ><label for='section-21c608c9-9a05-41d1-b33b-fde7446732f7' class='xr-section-summary' >Indexes: <span>(1)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'><li class='xr-var-item'><div class='xr-index-name'><div>x</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-c1452f30-9046-4fb4-9e30-f4bc2670a046' class='xr-index-data-in' type='checkbox'/><label for='index-c1452f30-9046-4fb4-9e30-f4bc2670a046' title='Show/Hide index repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-index-data'><pre>PandasIndex(Float64Index([                  0.0,                 2e-06,\n",
       "                              4e-06,                 6e-06,\n",
       "                              8e-06, 9.999999999999999e-06,\n",
       "                            1.2e-05,               1.4e-05,\n",
       "                            1.6e-05,               1.8e-05,\n",
       "              ...\n",
       "                 11.999979999999999,             11.999982,\n",
       "                          11.999984,             11.999986,\n",
       "                          11.999988,    11.999989999999999,\n",
       "                 11.999991999999999,             11.999994,\n",
       "                          11.999996,             11.999998],\n",
       "             dtype=&#x27;float64&#x27;, name=&#x27;x&#x27;, length=6000000))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-2eb331e4-d81c-48b8-8452-b948b64c7a6f' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-2eb331e4-d81c-48b8-8452-b948b64c7a6f' class='xr-section-summary'  title='Expand/collapse section'>Attributes: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'></dl></div></li></ul></div></div>"
      ],
      "text/plain": [
       "<xarray.DataArray 'CH1' (x: 6000000)>\n",
       "array([0.501, 0.485, 0.473, ..., 0.501, 0.485, 0.477])\n",
       "Coordinates:\n",
       "  * x        (x) float64 0.0 2e-06 4e-06 6e-06 8e-06 ... 12.0 12.0 12.0 12.0"
      ]
     },
     "execution_count": 9,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "filePath = r'F:\\Jianshun\\AccordionLatticeShorTermStability\\20230808\\withoutModulation.csv'\n",
    "\n",
    "data = read_csv_file(filePath, csvEngine='pandas', csvKwargs=dict(header=[0], skiprows=[1], encoding = \"ISO-8859-1\",))\n",
    "dataWithoutModulation = xr.DataArray(\n",
    "    data=data.CH1[0,:],\n",
    "    dims=['x'],\n",
    "    coords=dict(\n",
    "        x=data.X[0,:].to_numpy() * 2e-6\n",
    "    )\n",
    ")\n",
    "dataWithoutModulation"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 30604 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "dataWithoutModulation.plot.errorbar()\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 11,
   "metadata": {},
   "outputs": [],
   "source": [
    "dataWithoutModulation = dataWithoutModulation - dataWithoutModulation.mean()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 29840 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "fig = plt.figure()\n",
    "ax = fig.gca()\n",
    "\n",
    "dataWithoutModulation.plot.errorbar(ax=ax)\n",
    "# ax.set_xlim([0.5, 1])\n",
    "# ax.set_ylim([0, 0.25])\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "metadata": {},
   "outputs": [],
   "source": [
    "dataWithoutModulationFFT = fft(dataWithoutModulation)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 35,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 27296 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "fig = plt.figure()\n",
    "ax = fig.gca()\n",
    "\n",
    "abs(dataWithoutModulationFFT).plot.errorbar(ax=ax, x='freq_x')\n",
    "ax.set_xlim([0, 50e3])\n",
    "# ax.set_ylim([0, 0.25])\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Data analyse"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Transform intensity to phase"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "metadata": {},
   "outputs": [],
   "source": [
    "from Analyser.FitAnalyser import NewFitModel"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "metadata": {},
   "outputs": [],
   "source": [
    "def sine_with_offset(x, amplitude=1.0, frequency=1.0, shift=0.0, offset=0.0):\n",
    "    \"\"\"Return a sinusoidal function.\n",
    "\n",
    "    sine(x, amplitude, frequency, shift) =\n",
    "        amplitude * sin(x*frequency + shift)\n",
    "\n",
    "    \"\"\"\n",
    "    return amplitude*np.sin(x*frequency + shift) + offset"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 17,
   "metadata": {},
   "outputs": [],
   "source": [
    "fitModel = NewFitModel(sine_with_offset)\n",
    "fitAnalyser = FitAnalyser(fitModel, fitDim=1)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 36,
   "metadata": {},
   "outputs": [],
   "source": [
    "params = fitAnalyser.fitModel.make_params()\n",
    "params.add(name=\"amplitude\", value=  0.2, max=np.inf, min=0, vary=True)\n",
    "params.add(name=\"frequency\", value=  1*2*np.pi, max=np.inf, min=0, vary=True)\n",
    "params.add(name=\"shift\", value=  np.pi/2, max=2*np.pi, min=0, vary=True)\n",
    "params.add(name=\"offset\", value=  0, max=np.inf, min=-np.inf, vary=True)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 45,
   "metadata": {},
   "outputs": [],
   "source": [
    "# param = fitAnalyser.guess(dataWithModulation)\n",
    "fitResult = fitAnalyser.fit(\n",
    "    dataWithModulation.where(-0.1<dataWithModulation).where(dataWithModulation<0.1), \n",
    "    params\n",
    ")\n",
    "fitCurve = fitAnalyser.eval(fitResult, x=dataWithModulation.x)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 64,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 85784 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "fig = plt.figure()\n",
    "ax = fig.gca()\n",
    "dataWithModulation.plot.errorbar(ax=ax)\n",
    "fitCurve.plot.errorbar(ax=ax)\n",
    "ax.plot([0, 12.5], [0.1, 0.1], 'r--')\n",
    "ax.plot([0, 12.5], [-0.1, -0.1], 'r--')\n",
    "plt.xlabel('t (s)')\n",
    "plt.ylabel('PD signal (V)')\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 39,
   "metadata": {},
   "outputs": [
    {
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       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.Dataset&gt;\n",
       "Dimensions:    ()\n",
       "Data variables:\n",
       "    amplitude  float64 0.2026\n",
       "    frequency  float64 6.283\n",
       "    shift      float64 3.003\n",
       "    offset     float64 2.599e-06</pre><div class='xr-wrap' style='display:none'><div class='xr-header'><div class='xr-obj-type'>xarray.Dataset</div></div><ul class='xr-sections'><li class='xr-section-item'><input id='section-0e946e25-39d4-48d4-b84f-54b7aa323331' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-0e946e25-39d4-48d4-b84f-54b7aa323331' class='xr-section-summary'  title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-11404388-0b91-434d-b3e5-b176cb78aa6d' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-11404388-0b91-434d-b3e5-b176cb78aa6d' class='xr-section-summary'  title='Expand/collapse section'>Coordinates: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-b374b4d9-7237-410f-968c-42131949e58b' class='xr-section-summary-in' type='checkbox'  checked><label for='section-b374b4d9-7237-410f-968c-42131949e58b' class='xr-section-summary' >Data variables: <span>(4)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'><li class='xr-var-item'><div class='xr-var-name'><span>amplitude</span></div><div class='xr-var-dims'>()</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.2026</div><input id='attrs-1d120eea-f2d7-4e0a-b0b7-b9d724874cec' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-1d120eea-f2d7-4e0a-b0b7-b9d724874cec' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ecd60395-5201-408b-996d-a7f4f2ff4c7e' class='xr-var-data-in' type='checkbox'><label for='data-ecd60395-5201-408b-996d-a7f4f2ff4c7e' title='Show/Hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-var-attrs'><dl class='xr-attrs'></dl></div><div class='xr-var-data'><pre>array(0.20263455)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>frequency</span></div><div class='xr-var-dims'>()</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>6.283</div><input id='attrs-a15c60eb-d28b-4a3b-9bc3-c5c266189e35' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-a15c60eb-d28b-4a3b-9bc3-c5c266189e35' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-5829198a-541a-4384-a9d2-50d6d6a4ab16' class='xr-var-data-in' type='checkbox'><label for='data-5829198a-541a-4384-a9d2-50d6d6a4ab16' title='Show/Hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-var-attrs'><dl class='xr-attrs'></dl></div><div class='xr-var-data'><pre>array(6.28264352)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>shift</span></div><div class='xr-var-dims'>()</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>3.003</div><input id='attrs-34209ee8-ce22-4624-8824-91c47595ea3b' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-34209ee8-ce22-4624-8824-91c47595ea3b' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-61002a13-5e14-442e-9ae4-5521942dc934' class='xr-var-data-in' type='checkbox'><label for='data-61002a13-5e14-442e-9ae4-5521942dc934' title='Show/Hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-var-attrs'><dl class='xr-attrs'></dl></div><div class='xr-var-data'><pre>array(3.00276275)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>offset</span></div><div class='xr-var-dims'>()</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>2.599e-06</div><input id='attrs-eafbafea-face-430d-a066-fb5f4fb8324e' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-eafbafea-face-430d-a066-fb5f4fb8324e' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ed2c4f8f-00ef-41c8-bbbc-880bc20503f4' class='xr-var-data-in' type='checkbox'><label for='data-ed2c4f8f-00ef-41c8-bbbc-880bc20503f4' title='Show/Hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-var-attrs'><dl class='xr-attrs'></dl></div><div class='xr-var-data'><pre>array(2.59883314e-06)</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-6ef0af21-7cf8-4336-8e8f-97ff24117555' class='xr-section-summary-in' type='checkbox' disabled 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      ],
      "text/plain": [
       "<xarray.Dataset>\n",
       "Dimensions:    ()\n",
       "Data variables:\n",
       "    amplitude  float64 0.2026\n",
       "    frequency  float64 6.283\n",
       "    shift      float64 3.003\n",
       "    offset     float64 2.599e-06"
      ]
     },
     "execution_count": 39,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "val = fitAnalyser.get_fit_value(fitResult)\n",
    "val"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 47,
   "metadata": {},
   "outputs": [],
   "source": [
    "def voltage_to_phase(voltage):\n",
    "    # voltage = (voltage - val.offset)\n",
    "    # voltage = voltage / val.amplitude\n",
    "    voltage_frac, b= np.modf(voltage.to_numpy())\n",
    "    voltage = xr.where(np.abs(voltage) > 1, np.arcsin(voltage_frac) + np.trunc(voltage) * np.pi, np.arcsin(voltage))\n",
    "    voltage = np.arcsin(voltage)\n",
    "    return voltage"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 48,
   "metadata": {},
   "outputs": [],
   "source": [
    "def autocorr(x):\n",
    "    result = np.correlate(x, x, mode='full')\n",
    "    return result[len(result)//2:]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 49,
   "metadata": {},
   "outputs": [],
   "source": [
    "def get_noise_spectrum(data):\n",
    "    data = data - data.mean()\n",
    "    dataAutoCorr = autocorr(data)\n",
    "    dataAutoCorr = xr.DataArray(\n",
    "        data=dataAutoCorr,\n",
    "        dims=['x'],\n",
    "        coords=dict(\n",
    "            x=data.x\n",
    "        )\n",
    "    )\n",
    "    \n",
    "    dataNoiseSpec = fft(dataAutoCorr)\n",
    "    \n",
    "    return dataNoiseSpec\n",
    "    "
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 50,
   "metadata": {},
   "outputs": [],
   "source": [
    "phaseWithoutModulation = voltage_to_phase(dataWithoutModulation)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 68,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 25148 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "fig = plt.figure()\n",
    "ax = fig.gca()\n",
    "\n",
    "(phaseWithoutModulation/np.pi).plot.errorbar(ax=ax)\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 53,
   "metadata": {},
   "outputs": [],
   "source": [
    "noiseWithoutModulation = get_noise_spectrum(phaseWithoutModulation)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 55,
   "metadata": {},
   "outputs": [
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       ".xr-attrs dd {\n",
       "  grid-column: 2;\n",
       "  white-space: pre-wrap;\n",
       "  word-break: break-all;\n",
       "}\n",
       "\n",
       ".xr-icon-database,\n",
       ".xr-icon-file-text2,\n",
       ".xr-no-icon {\n",
       "  display: inline-block;\n",
       "  vertical-align: middle;\n",
       "  width: 1em;\n",
       "  height: 1.5em !important;\n",
       "  stroke-width: 0;\n",
       "  stroke: currentColor;\n",
       "  fill: currentColor;\n",
       "}\n",
       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.DataArray (freq_x: 6000000)&gt;\n",
       "array([0.00146663-2.99062180e-13j, 0.00146904+2.91230736e-06j,\n",
       "       0.00146276+5.40701190e-06j, ..., 0.00146716+7.80786951e-06j,\n",
       "       0.00146276-5.40701190e-06j, 0.00146904-2.91230736e-06j])\n",
       "Coordinates:\n",
       "  * freq_x   (freq_x) float64 -2.5e+05 -2.5e+05 -2.5e+05 ... 2.5e+05 2.5e+05</pre><div class='xr-wrap' style='display:none'><div class='xr-header'><div class='xr-obj-type'>xarray.DataArray</div><div class='xr-array-name'></div><ul class='xr-dim-list'><li><span class='xr-has-index'>freq_x</span>: 6000000</li></ul></div><ul class='xr-sections'><li class='xr-section-item'><div class='xr-array-wrap'><input id='section-8af54559-f573-490b-a117-c7aa63419946' class='xr-array-in' type='checkbox' checked><label for='section-8af54559-f573-490b-a117-c7aa63419946' title='Show/hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-array-preview xr-preview'><span>(0.0014666294599858997-2.9906217954251947e-13j) ... (0.001469035917...</span></div><div class='xr-array-data'><pre>array([0.00146663-2.99062180e-13j, 0.00146904+2.91230736e-06j,\n",
       "       0.00146276+5.40701190e-06j, ..., 0.00146716+7.80786951e-06j,\n",
       "       0.00146276-5.40701190e-06j, 0.00146904-2.91230736e-06j])</pre></div></div></li><li class='xr-section-item'><input id='section-f9cdbaba-091e-43bc-9be8-5d807bf3e21c' class='xr-section-summary-in' type='checkbox'  checked><label for='section-f9cdbaba-091e-43bc-9be8-5d807bf3e21c' class='xr-section-summary' >Coordinates: <span>(1)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>freq_x</span></div><div class='xr-var-dims'>(freq_x)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>-2.5e+05 -2.5e+05 ... 2.5e+05</div><input id='attrs-c95594e6-a8a2-40ed-82c2-baa1acc0597d' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-c95594e6-a8a2-40ed-82c2-baa1acc0597d' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ec813544-e010-40ae-8dd8-bedc0ddbd5b1' class='xr-var-data-in' type='checkbox'><label for='data-ec813544-e010-40ae-8dd8-bedc0ddbd5b1' title='Show/Hide data repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-var-attrs'><dl class='xr-attrs'><dt><span>spacing :</span></dt><dd>0.08333333334303461</dd><dt><span>direct_lag :</span></dt><dd>6.0</dd></dl></div><div class='xr-var-data'><pre>array([-250000.      , -249999.916667, -249999.833333, ...,  249999.75    ,\n",
       "        249999.833333,  249999.916667])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-b98ca7ef-738d-46b9-9d88-6de529f88bbb' class='xr-section-summary-in' type='checkbox'  ><label for='section-b98ca7ef-738d-46b9-9d88-6de529f88bbb' class='xr-section-summary' >Indexes: <span>(1)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'><li class='xr-var-item'><div class='xr-index-name'><div>freq_x</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-3af2a7d6-d077-46e3-a60c-a7b786e143b8' class='xr-index-data-in' type='checkbox'/><label for='index-3af2a7d6-d077-46e3-a60c-a7b786e143b8' title='Show/Hide index repr'><svg class='icon xr-icon-database'><use xlink:href='#icon-database'></use></svg></label><div class='xr-index-data'><pre>PandasIndex(Float64Index([          -250000.0, -249999.91666666666,  -249999.8333333333,\n",
       "                       -249999.75, -249999.66666666666,  -249999.5833333333,\n",
       "                        -249999.5, -249999.41666666666,  -249999.3333333333,\n",
       "                       -249999.25,\n",
       "              ...\n",
       "               249999.16666666666,           249999.25,   249999.3333333333,\n",
       "               249999.41666666666,            249999.5,   249999.5833333333,\n",
       "               249999.66666666666,           249999.75,   249999.8333333333,\n",
       "               249999.91666666666],\n",
       "             dtype=&#x27;float64&#x27;, name=&#x27;freq_x&#x27;, length=6000000))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-3e3ebfd1-e26b-45b5-9eb4-c87263ca6f2a' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-3e3ebfd1-e26b-45b5-9eb4-c87263ca6f2a' class='xr-section-summary'  title='Expand/collapse section'>Attributes: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'></dl></div></li></ul></div></div>"
      ],
      "text/plain": [
       "<xarray.DataArray (freq_x: 6000000)>\n",
       "array([0.00146663-2.99062180e-13j, 0.00146904+2.91230736e-06j,\n",
       "       0.00146276+5.40701190e-06j, ..., 0.00146716+7.80786951e-06j,\n",
       "       0.00146276-5.40701190e-06j, 0.00146904-2.91230736e-06j])\n",
       "Coordinates:\n",
       "  * freq_x   (freq_x) float64 -2.5e+05 -2.5e+05 -2.5e+05 ... 2.5e+05 2.5e+05"
      ]
     },
     "execution_count": 55,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "noiseWithoutModulation"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 70,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "image/png": "[encoded data, 15944 characters]",
      "text/plain": [
       "<Figure size 640x480 with 1 Axes>"
      ]
     },
     "metadata": {},
     "output_type": "display_data"
    }
   ],
   "source": [
    "fig = plt.figure()\n",
    "ax = fig.gca()\n",
    "\n",
    "abs(noiseWithoutModulation).plot.errorbar(ax=ax)\n",
    "\n",
    "# plt.xlim([25, 100e3])\n",
    "plt.xlim([0, 250e3])\n",
    "plt.ylim([0, 4])\n",
    "plt.show()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 28,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "250.0\n",
      "0.08333333333333333\n"
     ]
    }
   ],
   "source": [
    "dt = 2e-6\n",
    "samplingFreq = 1/ dt\n",
    "blockLength = 6e6\n",
    "df = samplingFreq / blockLength\n",
    "print(samplingFreq / 2 / 1e3)\n",
    "print(df)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 73,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "[5, 4, 3, 2, 1, 0]\n"
     ]
    }
   ],
   "source": [
    "print(list(range(5, -1 ,-1)))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  }
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