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5388 lines
322 KiB
5388 lines
322 KiB
{
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"cells": [
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"# How to read data from HFD5 files"
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]
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},
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"This is an example to read the data from those HDF5 files generated by LabScript.\n",
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"\n",
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"The idea is that one just need to give\n",
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"\n",
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"+ The path where data is stored\n",
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"+ The date of the data\n",
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"+ The shot number\n",
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"+ The path of data in HDF5 file (i.e. the name of group)\n",
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"\n",
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"It can automatically find the scan axes, and package all of them into an object of DataSet() in xarray package.\n",
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"\n",
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"Let us start with importing the supporting packages. In order to keep things ealier, here we will import all the packages, but not all of them will be used."
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]
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},
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"## Import supporting packages"
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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": 1,
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"metadata": {},
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"outputs": [],
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"source": [
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"# Set the system path for importing packages\n",
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"# This is just because I put all example scripts in another folder\n",
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"# You DO NOT need to do this \n",
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"# -------------- You do NOT need following part --------------\n",
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"import sys\n",
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"import os\n",
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"sys.path.insert(0, os.path.abspath('..'))\n",
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"# -------------- You do NOT need above part --------------\n",
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"\n",
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"import copy\n",
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"import glob\n",
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"from datetime import datetime\n",
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"\n",
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"# The package for data structure\n",
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"import xarray as xr\n",
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"import pandas as pd\n",
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"import numpy as np\n",
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"\n",
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"# The packages for working with uncertainties\n",
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"from uncertainties import ufloat\n",
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"from uncertainties import unumpy as unp\n",
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"from uncertainties import umath\n",
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"\n",
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"# The package for plotting\n",
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"import matplotlib.pyplot as plt\n",
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"plt.rcParams['font.size'] = 18 # Set the global font size\n",
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"\n",
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"# -------------- The modules written by us --------------\n",
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"\n",
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"# The packages for read data\n",
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"from DataContainer.ReadData import read_hdf5_file, read_hdf5_global, read_hdf5_run_time, read_csv_file\n",
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"\n",
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"# The packages for data analysis\n",
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"from Analyser.ImagingAnalyser import ImageAnalyser\n",
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"from Analyser.FitAnalyser import FitAnalyser\n",
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"from Analyser.FitAnalyser import ThomasFermi2dModel, DensityProfileBEC2dModel, Polylog22dModel\n",
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"from Analyser.FFTAnalyser import fft, ifft, fft_nutou\n",
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"from ToolFunction.ToolFunction import *\n",
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"\n",
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"# Add errorbar plot to xarray package\n",
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"from ToolFunction.HomeMadeXarrayFunction import errorbar, dataarray_plot_errorbar\n",
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"xr.plot.dataarray_plot.errorbar = errorbar\n",
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"xr.plot.accessor.DataArrayPlotAccessor.errorbar = dataarray_plot_errorbar"
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]
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},
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"## Start a client for parallel computing"
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]
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},
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"If one wants to read tens or few hundreds files, a normal script can finish in several minutes. However, very likely, we have load and analyse thousands or even more shots, which is going to take much longer time. Therefore, it is necessary to use some other technics to accelerate the script. One solution is to do parallel loading and computing by using the dask package."
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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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{
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"data": {
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"text/html": [
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"<div>\n",
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" <div style=\"width: 24px; height: 24px; background-color: #e1e1e1; border: 3px solid #9D9D9D; border-radius: 5px; position: absolute;\"> </div>\n",
|
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" <div style=\"margin-left: 48px;\">\n",
|
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" <h3 style=\"margin-bottom: 0px;\">Client</h3>\n",
|
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" <p style=\"color: #9D9D9D; margin-bottom: 0px;\">Client-836bc314-1f0a-11ee-9fac-80e82ce2fa8e</p>\n",
|
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" <table style=\"width: 100%; text-align: left;\">\n",
|
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"\n",
|
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" <tr>\n",
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" \n",
|
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" <td style=\"text-align: left;\"><strong>Connection method:</strong> Cluster object</td>\n",
|
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" <td style=\"text-align: left;\"><strong>Cluster type:</strong> distributed.LocalCluster</td>\n",
|
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" \n",
|
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" </tr>\n",
|
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"\n",
|
|
" \n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
|
|
" <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:8787/status\" target=\"_blank\">http://127.0.0.1:8787/status</a>\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\"></td>\n",
|
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" </tr>\n",
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" \n",
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"\n",
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" </table>\n",
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"\n",
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" \n",
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"\n",
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" \n",
|
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" <details>\n",
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" <summary style=\"margin-bottom: 20px;\"><h3 style=\"display: inline;\">Cluster Info</h3></summary>\n",
|
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" <div class=\"jp-RenderedHTMLCommon jp-RenderedHTML jp-mod-trusted jp-OutputArea-output\">\n",
|
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" <div style=\"width: 24px; height: 24px; background-color: #e1e1e1; border: 3px solid #9D9D9D; border-radius: 5px; position: absolute;\">\n",
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" </div>\n",
|
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" <div style=\"margin-left: 48px;\">\n",
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" <h3 style=\"margin-bottom: 0px; margin-top: 0px;\">LocalCluster</h3>\n",
|
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" <p style=\"color: #9D9D9D; margin-bottom: 0px;\">78c63c01</p>\n",
|
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" <table style=\"width: 100%; text-align: left;\">\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Dashboard:</strong> <a href=\"http://127.0.0.1:8787/status\" target=\"_blank\">http://127.0.0.1:8787/status</a>\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Workers:</strong> 6\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Total threads:</strong> 60\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Total memory:</strong> 55.88 GiB\n",
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" </td>\n",
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" </tr>\n",
|
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" \n",
|
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" <tr>\n",
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" <td style=\"text-align: left;\"><strong>Status:</strong> running</td>\n",
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" <td style=\"text-align: left;\"><strong>Using processes:</strong> True</td>\n",
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"</tr>\n",
|
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"\n",
|
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" \n",
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" </table>\n",
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"\n",
|
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" <details>\n",
|
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" <summary style=\"margin-bottom: 20px;\">\n",
|
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" <h3 style=\"display: inline;\">Scheduler Info</h3>\n",
|
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" </summary>\n",
|
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"\n",
|
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" <div style=\"\">\n",
|
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" <div>\n",
|
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" <div style=\"width: 24px; height: 24px; background-color: #FFF7E5; border: 3px solid #FF6132; border-radius: 5px; position: absolute;\"> </div>\n",
|
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" <div style=\"margin-left: 48px;\">\n",
|
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" <h3 style=\"margin-bottom: 0px;\">Scheduler</h3>\n",
|
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" <p style=\"color: #9D9D9D; margin-bottom: 0px;\">Scheduler-7b91ae15-611f-4967-a585-347a12dbf884</p>\n",
|
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" <table style=\"width: 100%; text-align: left;\">\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Comm:</strong> tcp://127.0.0.1:60497\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Workers:</strong> 6\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Dashboard:</strong> <a href=\"http://127.0.0.1:8787/status\" target=\"_blank\">http://127.0.0.1:8787/status</a>\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Total threads:</strong> 60\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Started:</strong> Just now\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Total memory:</strong> 55.88 GiB\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" </table>\n",
|
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" </div>\n",
|
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" </div>\n",
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"\n",
|
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" <details style=\"margin-left: 48px;\">\n",
|
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" <summary style=\"margin-bottom: 20px;\">\n",
|
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" <h3 style=\"display: inline;\">Workers</h3>\n",
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" </summary>\n",
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"\n",
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" \n",
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" <div style=\"margin-bottom: 20px;\">\n",
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" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
|
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" <div style=\"margin-left: 48px;\">\n",
|
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" <details>\n",
|
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" <summary>\n",
|
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" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 0</h4>\n",
|
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" </summary>\n",
|
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" <table style=\"width: 100%; text-align: left;\">\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Comm: </strong> tcp://127.0.0.1:60537\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Total threads: </strong> 10\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:60539/status\" target=\"_blank\">http://127.0.0.1:60539/status</a>\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Memory: </strong> 9.31 GiB\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Nanny: </strong> tcp://127.0.0.1:60500\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\"></td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td colspan=\"2\" style=\"text-align: left;\">\n",
|
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" <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-hgh81x58\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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"\n",
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" \n",
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"\n",
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" \n",
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"\n",
|
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" </table>\n",
|
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" </details>\n",
|
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" </div>\n",
|
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" </div>\n",
|
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" \n",
|
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" <div style=\"margin-bottom: 20px;\">\n",
|
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" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
|
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" <div style=\"margin-left: 48px;\">\n",
|
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" <details>\n",
|
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" <summary>\n",
|
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" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 1</h4>\n",
|
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" </summary>\n",
|
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" <table style=\"width: 100%; text-align: left;\">\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Comm: </strong> tcp://127.0.0.1:60536\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Total threads: </strong> 10\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:60538/status\" target=\"_blank\">http://127.0.0.1:60538/status</a>\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Memory: </strong> 9.31 GiB\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
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" <td style=\"text-align: left;\">\n",
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" <strong>Nanny: </strong> tcp://127.0.0.1:60501\n",
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" </td>\n",
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" <td style=\"text-align: left;\"></td>\n",
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" </tr>\n",
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" <tr>\n",
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" <td colspan=\"2\" style=\"text-align: left;\">\n",
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" <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-l6g2y451\n",
|
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" </td>\n",
|
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" </tr>\n",
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"\n",
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" \n",
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"\n",
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" \n",
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"\n",
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" </table>\n",
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" </details>\n",
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" </div>\n",
|
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" </div>\n",
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" \n",
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" <div style=\"margin-bottom: 20px;\">\n",
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" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
|
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" <div style=\"margin-left: 48px;\">\n",
|
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" <details>\n",
|
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" <summary>\n",
|
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" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 2</h4>\n",
|
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" </summary>\n",
|
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" <table style=\"width: 100%; text-align: left;\">\n",
|
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" <tr>\n",
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" <td style=\"text-align: left;\">\n",
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" <strong>Comm: </strong> tcp://127.0.0.1:60527\n",
|
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" </td>\n",
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" <td style=\"text-align: left;\">\n",
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" <strong>Total threads: </strong> 10\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:60528/status\" target=\"_blank\">http://127.0.0.1:60528/status</a>\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Memory: </strong> 9.31 GiB\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Nanny: </strong> tcp://127.0.0.1:60502\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\"></td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
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" <td colspan=\"2\" style=\"text-align: left;\">\n",
|
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" <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-2ecklsip\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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"\n",
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" \n",
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"\n",
|
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" \n",
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"\n",
|
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" </table>\n",
|
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" </details>\n",
|
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" </div>\n",
|
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" </div>\n",
|
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" \n",
|
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" <div style=\"margin-bottom: 20px;\">\n",
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" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
|
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" <div style=\"margin-left: 48px;\">\n",
|
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" <details>\n",
|
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" <summary>\n",
|
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" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 3</h4>\n",
|
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" </summary>\n",
|
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" <table style=\"width: 100%; text-align: left;\">\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Comm: </strong> tcp://127.0.0.1:60524\n",
|
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" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Total threads: </strong> 10\n",
|
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" </td>\n",
|
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" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:60525/status\" target=\"_blank\">http://127.0.0.1:60525/status</a>\n",
|
|
" </td>\n",
|
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" <td style=\"text-align: left;\">\n",
|
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" <strong>Memory: </strong> 9.31 GiB\n",
|
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" </td>\n",
|
|
" </tr>\n",
|
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" <tr>\n",
|
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" <td style=\"text-align: left;\">\n",
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" <strong>Nanny: </strong> tcp://127.0.0.1:60503\n",
|
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" </td>\n",
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" <td style=\"text-align: left;\"></td>\n",
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" </tr>\n",
|
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" <tr>\n",
|
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" <td colspan=\"2\" style=\"text-align: left;\">\n",
|
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" <strong>Local directory: </strong> C:\\Users\\data\\AppData\\Local\\Temp\\dask-worker-space\\worker-_bx_rrx9\n",
|
|
" </td>\n",
|
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" </tr>\n",
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"\n",
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" \n",
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"\n",
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" \n",
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"\n",
|
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" </table>\n",
|
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" </details>\n",
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" </div>\n",
|
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" </div>\n",
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" \n",
|
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" <div style=\"margin-bottom: 20px;\">\n",
|
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" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
|
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" <div style=\"margin-left: 48px;\">\n",
|
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" <details>\n",
|
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" <summary>\n",
|
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" <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://127.0.0.1:60531\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://127.0.0.1:60534/status\" target=\"_blank\">http://127.0.0.1:60534/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://127.0.0.1:60504\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-gi8gzg2l\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://127.0.0.1:60530\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://127.0.0.1:60532/status\" target=\"_blank\">http://127.0.0.1:60532/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://127.0.0.1:60505\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-oy_0wm2p\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://127.0.0.1:60497' 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"
|
|
]
|
|
},
|
|
{
|
|
"attachments": {},
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"## Set the path for different cameras"
|
|
]
|
|
},
|
|
{
|
|
"attachments": {},
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"In our current experiment configuration (06.07.2023), the images of absorption imaging from different camera are stored in the following structure:\n",
|
|
"\n",
|
|
" | - images\n",
|
|
" | | - The name of the camera #1\n",
|
|
" | | | - in_situ_absorption\n",
|
|
" | | | | - atoms\n",
|
|
" | | | | - background\n",
|
|
" | | | | - dard\n",
|
|
" | | | \n",
|
|
" | | - The name of the camera #2\n",
|
|
" | | | - in_situ_absorption\n",
|
|
" | | | | - atoms\n",
|
|
" | | | | - background\n",
|
|
" | | | | - dard\n",
|
|
"\n",
|
|
"Here we do not need to specify the name of the data we want to load. The programe only needs to know the group where the data are stored. Due to the way HDF5 file storing the data, going through and loading all the data under the same group won't significantly increase the time consumption.\n",
|
|
"\n",
|
|
"Therefore, in this example, the path of our absorption imaging data taken by the side-imaging camera is\n",
|
|
" \n",
|
|
" \"images/MOT_3D_Camera/in_situ_absorption\"\n",
|
|
"\n",
|
|
"Then we can create a dictionary for all three cameras "
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 3,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": [
|
|
"groupList = [\n",
|
|
" \"images/MOT_3D_Camera/in_situ_absorption\",\n",
|
|
" \"images/ODT_1_Axis_Camera/in_situ_absorption\",\n",
|
|
" \"images/ODT_2_Axis_Camera/in_situ_absorption\",\n",
|
|
"]\n",
|
|
"\n",
|
|
"# give a short name to each path (or let's say each camera)\n",
|
|
"dskey = {\n",
|
|
" \"images/MOT_3D_Camera/in_situ_absorption\": \"camera_0\",\n",
|
|
" \"images/ODT_1_Axis_Camera/in_situ_absorption\": \"camera_1\",\n",
|
|
" \"images/ODT_2_Axis_Camera/in_situ_absorption\": \"camera_2\",\n",
|
|
"}"
|
|
]
|
|
},
|
|
{
|
|
"attachments": {},
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"## Set global path for experiment"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 4,
|
|
"metadata": {},
|
|
"outputs": [],
|
|
"source": [
|
|
"img_dir = '//DyLabNAS/Data/'\n",
|
|
"SequenceName = \"Evaporative_Cooling\" + \"/\"\n",
|
|
"folderPath = img_dir + SequenceName + '2023/04/17'# get_date()"
|
|
]
|
|
},
|
|
{
|
|
"attachments": {},
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"Here we will load the data from our NAS servers, taken by sequence 'Evaporative_Cooling', on 17.04.2023.\n",
|
|
"\n",
|
|
"The get_date() funciton in ToolFunction.ToolFunction module can return the date of today in a format of 'YYYY/MM/DD'."
|
|
]
|
|
},
|
|
{
|
|
"attachments": {},
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"## Load shot 0058"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "code",
|
|
"execution_count": 5,
|
|
"metadata": {},
|
|
"outputs": [
|
|
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" --xr-background-color-row-even: var(--jp-layout-color1, white);\n",
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".xr-header {\n",
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" padding-bottom: 6px;\n",
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" margin-bottom: 4px;\n",
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" border-bottom: solid 1px var(--xr-border-color);\n",
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"}\n",
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"\n",
|
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".xr-header > div,\n",
|
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".xr-header > ul {\n",
|
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" display: inline;\n",
|
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" margin-top: 0;\n",
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".xr-obj-type,\n",
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".xr-array-name {\n",
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".xr-section-item input + label {\n",
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".xr-section-item input:enabled + label {\n",
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|
" content: ')';\n",
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|
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|
"\n",
|
|
".xr-dim-list li:not(:last-child):after {\n",
|
|
" content: ',';\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-has-index {\n",
|
|
" font-weight: bold;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list,\n",
|
|
".xr-var-item {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > div,\n",
|
|
".xr-var-item label,\n",
|
|
".xr-var-item > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-even);\n",
|
|
" margin-bottom: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > .xr-var-name:hover span {\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list > li:nth-child(odd) > div,\n",
|
|
".xr-var-list > li:nth-child(odd) > label,\n",
|
|
".xr-var-list > li:nth-child(odd) > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-odd);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name {\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dims {\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dtype {\n",
|
|
" grid-column: 3;\n",
|
|
" text-align: right;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-preview {\n",
|
|
" grid-column: 4;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-index-preview {\n",
|
|
" grid-column: 2 / 5;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name,\n",
|
|
".xr-var-dims,\n",
|
|
".xr-var-dtype,\n",
|
|
".xr-preview,\n",
|
|
".xr-attrs dt {\n",
|
|
" white-space: nowrap;\n",
|
|
" overflow: hidden;\n",
|
|
" text-overflow: ellipsis;\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name:hover,\n",
|
|
".xr-var-dims:hover,\n",
|
|
".xr-var-dtype:hover,\n",
|
|
".xr-attrs dt:hover {\n",
|
|
" overflow: visible;\n",
|
|
" width: auto;\n",
|
|
" z-index: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" display: none;\n",
|
|
" background-color: var(--xr-background-color) !important;\n",
|
|
" padding-bottom: 5px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
|
|
".xr-var-data-in:checked ~ .xr-var-data,\n",
|
|
".xr-index-data-in:checked ~ .xr-index-data {\n",
|
|
" display: block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-data > table {\n",
|
|
" float: right;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name span,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-name div,\n",
|
|
".xr-index-data,\n",
|
|
".xr-attrs {\n",
|
|
" padding-left: 25px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs,\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
"dl.xr-attrs {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 125px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt,\n",
|
|
".xr-attrs dd {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" float: left;\n",
|
|
" padding-right: 10px;\n",
|
|
" width: auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt {\n",
|
|
" font-weight: normal;\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt:hover span {\n",
|
|
" display: inline-block;\n",
|
|
" background: var(--xr-background-color);\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".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'><xarray.Dataset>\n",
|
|
"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Data variables:\n",
|
|
" atoms (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
|
" background (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
|
" dark (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
|
" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
|
"Attributes: (12/100)\n",
|
|
" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
|
" absorption_imaging_flag: True\n",
|
|
" backup_data: True\n",
|
|
" blink_off_time: nan\n",
|
|
" blink_on_time: nan\n",
|
|
" ... ...\n",
|
|
" z_offset: 0.195\n",
|
|
" z_offset_img: 0.195\n",
|
|
" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
|
" scanAxis: ['runs' 'truncation_value']\n",
|
|
" scanAxisLength: [55. 55.]</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-52a2826f-78a1-4723-b61e-fc303baeb0a5' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-52a2826f-78a1-4723-b61e-fc303baeb0a5' class='xr-section-summary' title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span class='xr-has-index'>runs</span>: 5</li><li><span class='xr-has-index'>truncation_value</span>: 11</li><li><span>y</span>: 1200</li><li><span>x</span>: 1920</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-624f54d2-c088-46c9-84dd-c2c785678ac1' class='xr-section-summary-in' type='checkbox' checked><label for='section-624f54d2-c088-46c9-84dd-c2c785678ac1' class='xr-section-summary' >Coordinates: <span>(2)</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'>runs</span></div><div class='xr-var-dims'>(runs)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 1.0 2.0 3.0 4.0</div><input id='attrs-aa739bb0-d908-406d-ad58-7797fa93cc70' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-aa739bb0-d908-406d-ad58-7797fa93cc70' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-f53a9642-1ee0-4049-92ea-05a19f5a8b2f' class='xr-var-data-in' type='checkbox'><label for='data-f53a9642-1ee0-4049-92ea-05a19f5a8b2f' 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., 1., 2., 3., 4.])</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>truncation_value</span></div><div class='xr-var-dims'>(truncation_value)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.8 0.83 0.85 ... 0.97 0.99 1.0</div><input id='attrs-e7279b66-2f51-40e7-9d62-907562076764' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-e7279b66-2f51-40e7-9d62-907562076764' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-54cb0760-919d-42c2-ba0a-4a9bb01f0524' class='xr-var-data-in' type='checkbox'><label for='data-54cb0760-919d-42c2-ba0a-4a9bb01f0524' 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([0.8 , 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1. ])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-34e44800-f311-4aa3-a5b4-1c4dd37fc02a' class='xr-section-summary-in' type='checkbox' checked><label for='section-34e44800-f311-4aa3-a5b4-1c4dd37fc02a' 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>atoms</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray></div><input id='attrs-ff28fbfc-ba73-43df-8afe-c4183ed91183' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-ff28fbfc-ba73-43df-8afe-c4183ed91183' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8e05466c-a52b-425a-a3e9-ec3b882b122a' class='xr-var-data-in' type='checkbox'><label for='data-8e05466c-a52b-425a-a3e9-ec3b882b122a' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
|
|
" <tr>\n",
|
|
" <td>\n",
|
|
" <table style=\"border-collapse: collapse;\">\n",
|
|
" <thead>\n",
|
|
" <tr>\n",
|
|
" <td> </td>\n",
|
|
" <th> Array </th>\n",
|
|
" <th> Chunk </th>\n",
|
|
" </tr>\n",
|
|
" </thead>\n",
|
|
" <tbody>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Bytes </th>\n",
|
|
" <td> 241.70 MiB </td>\n",
|
|
" <td> 4.39 MiB </td>\n",
|
|
" </tr>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11, 1200, 1920) </td>\n",
|
|
" <td> (1, 1, 1200, 1920) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 55 chunks in 177 graph layers </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
" </tbody>\n",
|
|
" </table>\n",
|
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" </td>\n",
|
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" <td>\n",
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" <svg width=\"374\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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"\n",
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|
" <text x=\"249.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,249.948598,52.448598)\">1200</text>\n",
|
|
" <text x=\"92.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,92.474299,102.474299)\">11</text>\n",
|
|
"</svg>\n",
|
|
" </td>\n",
|
|
" </tr>\n",
|
|
"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>background</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray></div><input id='attrs-e575457f-bf29-48bc-9ea0-eda4a32a3fea' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e575457f-bf29-48bc-9ea0-eda4a32a3fea' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-5e6173c2-df0f-42f5-a440-b1c7e4e16998' class='xr-var-data-in' type='checkbox'><label for='data-5e6173c2-df0f-42f5-a440-b1c7e4e16998' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
|
|
" <tr>\n",
|
|
" <td>\n",
|
|
" <table style=\"border-collapse: collapse;\">\n",
|
|
" <thead>\n",
|
|
" <tr>\n",
|
|
" <td> </td>\n",
|
|
" <th> Array </th>\n",
|
|
" <th> Chunk </th>\n",
|
|
" </tr>\n",
|
|
" </thead>\n",
|
|
" <tbody>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Bytes </th>\n",
|
|
" <td> 241.70 MiB </td>\n",
|
|
" <td> 4.39 MiB </td>\n",
|
|
" </tr>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11, 1200, 1920) </td>\n",
|
|
" <td> (1, 1, 1200, 1920) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 55 chunks in 177 graph layers </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
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|
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|
" </td>\n",
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" <text x=\"92.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,92.474299,102.474299)\">11</text>\n",
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|
"</svg>\n",
|
|
" </td>\n",
|
|
" </tr>\n",
|
|
"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>dark</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray></div><input id='attrs-573cf8d8-6ef0-40b5-b1d8-2320952509f7' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-573cf8d8-6ef0-40b5-b1d8-2320952509f7' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-948e2b79-02fd-405c-80d6-0ea6679a17fa' class='xr-var-data-in' type='checkbox'><label for='data-948e2b79-02fd-405c-80d6-0ea6679a17fa' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
|
|
" <tr>\n",
|
|
" <td>\n",
|
|
" <table style=\"border-collapse: collapse;\">\n",
|
|
" <thead>\n",
|
|
" <tr>\n",
|
|
" <td> </td>\n",
|
|
" <th> Array </th>\n",
|
|
" <th> Chunk </th>\n",
|
|
" </tr>\n",
|
|
" </thead>\n",
|
|
" <tbody>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Bytes </th>\n",
|
|
" <td> 241.70 MiB </td>\n",
|
|
" <td> 4.39 MiB </td>\n",
|
|
" </tr>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11, 1200, 1920) </td>\n",
|
|
" <td> (1, 1, 1200, 1920) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 55 chunks in 177 graph layers </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
" </tbody>\n",
|
|
" </table>\n",
|
|
" </td>\n",
|
|
" <td>\n",
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" <svg width=\"374\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>shotNum</span></div><div class='xr-var-dims'>(runs, truncation_value)</div><div class='xr-var-dtype'><U2</div><div class='xr-var-preview xr-preview'>'00' '01' '02' ... '52' '53' '54'</div><input id='attrs-ee4a563b-d565-4262-a2e6-fa3814412fbe' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-ee4a563b-d565-4262-a2e6-fa3814412fbe' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-931c6eec-5a93-453f-a84b-fd5d02a7c1ea' class='xr-var-data-in' type='checkbox'><label for='data-931c6eec-5a93-453f-a84b-fd5d02a7c1ea' 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([['00', '01', '02', '03', '04', '05', '06', '07', '08', '09', '10'],\n",
|
|
" ['11', '12', '13', '14', '15', '16', '17', '18', '19', '20', '21'],\n",
|
|
" ['22', '23', '24', '25', '26', '27', '28', '29', '30', '31', '32'],\n",
|
|
" ['33', '34', '35', '36', '37', '38', '39', '40', '41', '42', '43'],\n",
|
|
" ['44', '45', '46', '47', '48', '49', '50', '51', '52', '53', '54']],\n",
|
|
" dtype='<U2')</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-f8963280-0317-4a2a-b8c4-3be8d82d74f1' class='xr-section-summary-in' type='checkbox' ><label for='section-f8963280-0317-4a2a-b8c4-3be8d82d74f1' class='xr-section-summary' >Indexes: <span>(2)</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>runs</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-567a94b5-c76d-42ca-81d2-9689871778c4' class='xr-index-data-in' type='checkbox'/><label for='index-567a94b5-c76d-42ca-81d2-9689871778c4' 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, 1.0, 2.0, 3.0, 4.0], dtype='float64', name='runs'))</pre></div></li><li class='xr-var-item'><div class='xr-index-name'><div>truncation_value</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-1e3e3e87-7fd6-49e0-9f34-482bec9200ac' class='xr-index-data-in' type='checkbox'/><label for='index-1e3e3e87-7fd6-49e0-9f34-482bec9200ac' 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([0.8, 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1.0], dtype='float64', name='truncation_value'))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-f9b9880d-2cd4-427b-aed4-02ee83d56013' class='xr-section-summary-in' type='checkbox' ><label for='section-f9b9880d-2cd4-427b-aed4-02ee83d56013' class='xr-section-summary' >Attributes: <span>(100)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>TOF_free :</span></dt><dd>0.02</dd><dt><span>abs_img_freq :</span></dt><dd>110.866</dd><dt><span>absorption_imaging_flag :</span></dt><dd>True</dd><dt><span>backup_data :</span></dt><dd>True</dd><dt><span>blink_off_time :</span></dt><dd>nan</dd><dt><span>blink_on_time :</span></dt><dd>nan</dd><dt><span>c_duration :</span></dt><dd>0.2</dd><dt><span>cmot_final_current :</span></dt><dd>0.65</dd><dt><span>cmot_hold :</span></dt><dd>0.06</dd><dt><span>cmot_initial_current :</span></dt><dd>0.18</dd><dt><span>compX_current :</span></dt><dd>0.005</dd><dt><span>compX_current_sg :</span></dt><dd>0</dd><dt><span>compX_final_current :</span></dt><dd>0.002</dd><dt><span>compX_initial_current :</span></dt><dd>0.005</dd><dt><span>compY_current :</span></dt><dd>0</dd><dt><span>compY_current_sg :</span></dt><dd>0</dd><dt><span>compY_final_current :</span></dt><dd>0</dd><dt><span>compY_initial_current :</span></dt><dd>0</dd><dt><span>compZ_current :</span></dt><dd>0</dd><dt><span>compZ_current_sg :</span></dt><dd>0.195</dd><dt><span>compZ_final_current :</span></dt><dd>0.287</dd><dt><span>compZ_initial_current :</span></dt><dd>0</dd><dt><span>default_camera :</span></dt><dd>0</dd><dt><span>evap_1_final_pow_1 :</span></dt><dd>4.8</dd><dt><span>evap_1_final_pow_2 :</span></dt><dd>2.2</dd><dt><span>evap_1_final_pow_3 :</span></dt><dd>1.2</dd><dt><span>evap_1_final_pow_4 :</span></dt><dd>0.526</dd><dt><span>evap_1_ramp_duration_1 :</span></dt><dd>0.15</dd><dt><span>evap_1_ramp_duration_2 :</span></dt><dd>0.3</dd><dt><span>evap_1_ramp_duration_3 :</span></dt><dd>0.2</dd><dt><span>evap_1_ramp_duration_4 :</span></dt><dd>0.5</dd><dt><span>evap_1_start_pow_1 :</span></dt><dd>7</dd><dt><span>evap_1_start_pow_2 :</span></dt><dd>4.8</dd><dt><span>evap_1_start_pow_3 :</span></dt><dd>2.2</dd><dt><span>evap_1_start_pow_4 :</span></dt><dd>1.2</dd><dt><span>evap_2_final_pow_1 :</span></dt><dd>0.35</dd><dt><span>evap_2_ramp_duration_1 :</span></dt><dd>0.5</dd><dt><span>evap_2_start_pow_1 :</span></dt><dd>0.526</dd><dt><span>evap_3_arm_1_final_pow :</span></dt><dd>0.037</dd><dt><span>evap_3_arm_1_start_pow :</span></dt><dd>0.35</dd><dt><span>evap_3_arm_2_final_pow :</span></dt><dd>0.09</dd><dt><span>evap_3_arm_2_start_pow :</span></dt><dd>5</dd><dt><span>evap_3_ramp_duration :</span></dt><dd>1</dd><dt><span>evap_3_rate_constant_1 :</span></dt><dd>0.37</dd><dt><span>evap_3_rate_constant_2 :</span></dt><dd>0.71</dd><dt><span>evap_4_arm_1_final_pow :</span></dt><dd>0.085</dd><dt><span>evap_4_arm_1_start_pow :</span></dt><dd>0.037</dd><dt><span>evap_ramp_4_duration :</span></dt><dd>0.1</dd><dt><span>final_amp :</span></dt><dd>0.00018</dd><dt><span>final_freq :</span></dt><dd>104</dd><dt><span>gradCoil_current :</span></dt><dd>0.18</dd><dt><span>gradCoil_current_sg :</span></dt><dd>0</dd><dt><span>imaging_method :</span></dt><dd>in_situ_absorption</dd><dt><span>imaging_pulse_duration :</span></dt><dd>2.5e-05</dd><dt><span>imaging_wavelength :</span></dt><dd>4.21291e-07</dd><dt><span>initial_amp :</span></dt><dd>0.62</dd><dt><span>initial_freq :</span></dt><dd>101.9</dd><dt><span>mod_depth_1_fin :</span></dt><dd>0.5</dd><dt><span>mod_depth_1_ini :</span></dt><dd>1</dd><dt><span>mod_depth_2_fin :</span></dt><dd>0.2</dd><dt><span>mod_depth_2_ini :</span></dt><dd>0.5</dd><dt><span>mod_depth_3_fin :</span></dt><dd>0.15</dd><dt><span>mod_depth_3_ini :</span></dt><dd>0.2</dd><dt><span>mod_depth_4_fin :</span></dt><dd>0</dd><dt><span>mod_depth_4_ini :</span></dt><dd>0.15</dd><dt><span>mod_depth_ini :</span></dt><dd>1</dd><dt><span>mod_depth_on_final :</span></dt><dd>0.35</dd><dt><span>mod_depth_on_initial :</span></dt><dd>0</dd><dt><span>mot_3d_amp :</span></dt><dd>0.62</dd><dt><span>mot_3d_camera_exposure_time :</span></dt><dd>0.002</dd><dt><span>mot_3d_camera_trigger_duration :</span></dt><dd>0.00025</dd><dt><span>mot_3d_freq :</span></dt><dd>101.9</dd><dt><span>mot_load_duration :</span></dt><dd>2</dd><dt><span>odt_axis_camera_trigger_duration :</span></dt><dd>0.002</dd><dt><span>odt_hold_time_1 :</span></dt><dd>0.01</dd><dt><span>odt_hold_time_2 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_3 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_4 :</span></dt><dd>1</dd><dt><span>pow_arm_1 :</span></dt><dd>7</dd><dt><span>pow_arm_2 :</span></dt><dd>0</dd><dt><span>pow_fin_arm_2 :</span></dt><dd>5</dd><dt><span>pow_ini_arm_2 :</span></dt><dd>0</dd><dt><span>pulse_delay :</span></dt><dd>8e-05</dd><dt><span>push_amp :</span></dt><dd>0.16</dd><dt><span>push_freq :</span></dt><dd>102.6</dd><dt><span>ramp_duration :</span></dt><dd>1</dd><dt><span>save_results :</span></dt><dd>False</dd><dt><span>stern_gerlach_duration :</span></dt><dd>0.001</dd><dt><span>wait_after_2dmot_off :</span></dt><dd>0</dd><dt><span>wait_time_between_images :</span></dt><dd>0.22</dd><dt><span>x_offset :</span></dt><dd>0</dd><dt><span>x_offset_img :</span></dt><dd>0</dd><dt><span>y_offset :</span></dt><dd>0</dd><dt><span>y_offset_img :</span></dt><dd>0</dd><dt><span>z_offset :</span></dt><dd>0.195</dd><dt><span>z_offset_img :</span></dt><dd>0.195</dd><dt><span>truncation_value :</span></dt><dd>[0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85\n",
|
|
" 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91\n",
|
|
" 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97\n",
|
|
" 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. ]</dd><dt><span>runs :</span></dt><dd>[0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 2. 2.\n",
|
|
" 2. 2. 2. 2. 2. 2. 2. 2. 2. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 4. 4. 4. 4.\n",
|
|
" 4. 4. 4. 4. 4. 4. 4.]</dd><dt><span>scanAxis :</span></dt><dd>['runs' 'truncation_value']</dd><dt><span>scanAxisLength :</span></dt><dd>[55. 55.]</dd></dl></div></li></ul></div></div>"
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],
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"text/plain": [
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"<xarray.Dataset>\n",
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"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
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"Coordinates:\n",
|
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" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
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" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
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"Dimensions without coordinates: y, x\n",
|
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"Data variables:\n",
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" atoms (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
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" background (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
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" dark (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
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" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
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"Attributes: (12/100)\n",
|
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" TOF_free: 0.02\n",
|
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" abs_img_freq: 110.866\n",
|
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" absorption_imaging_flag: True\n",
|
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" backup_data: True\n",
|
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" blink_off_time: nan\n",
|
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" blink_on_time: nan\n",
|
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" ... ...\n",
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" z_offset: 0.195\n",
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" z_offset_img: 0.195\n",
|
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" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
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" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
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" scanAxis: ['runs' 'truncation_value']\n",
|
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" scanAxisLength: [55. 55.]"
|
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]
|
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},
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"execution_count": 5,
|
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"metadata": {},
|
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"output_type": "execute_result"
|
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}
|
|
],
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"source": [
|
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"shotNum = \"0058\"\n",
|
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"filePath = folderPath + \"/\" + shotNum + \"/*.h5\"\n",
|
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"\n",
|
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"dataSetDict = {\n",
|
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" dskey[groupList[i]]: read_hdf5_file(filePath, groupList[i])\n",
|
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" for i in [0] # range(len(groupList)) # uncommont to load data for all three cameras\n",
|
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"}\n",
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"dataSet = dataSetDict[\"camera_0\"]\n",
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"\n",
|
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"dataSet = swap_xy(dataSet)\n",
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"\n",
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"scanAxis = get_scanAxis(dataSet)\n",
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"\n",
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"dataSet"
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]
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},
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
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"source": [
|
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"The above script reads the three images of 'camera_0', the side imaging camera, as an object of Datase() in xarray package. It has several key properties:\n",
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"\n",
|
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"- values: a numpy.ndarray holding the array’s values\n",
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"\n",
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"- dims: dimension names for each axis (e.g., ('x', 'y', 'z'))\n",
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"\n",
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"- coords: a dict-like container of arrays (coordinates) that label each point (e.g., 1-dimensional arrays of numbers, datetime objects or strings)\n",
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"\n",
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"- attrs: dict to hold arbitrary metadata (attributes)\n",
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"\n",
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"Xarray uses dims and coords to enable its core metadata aware operations. Dimensions provide names that xarray uses instead of the axis argument found in many numpy functions. Coordinates enable fast label based indexing and alignment, building on the functionality of the index found on a pandas DataFrame or Series.\n",
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"\n",
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"For more details about the data strcuture, please read the following link\n",
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"\n",
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"https://docs.xarray.dev/en/stable/user-guide/data-structures.html\n",
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"\n",
|
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"In our case, the coordinates are the scan axes of the sequence, which will be automatically recognized by going through all the global parameters among all HDF5 files.\n",
|
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"\n",
|
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"`If there are other parameters, who have the same value as the scanned one, the script will randomly return one of their name (depends on the storing order in HDF5 file).`\n",
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"\n",
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"`If there are other parameters, who have different values and change as the scanning parameters changing. the script can not tell which is the scan axes and raise an error message.`\n",
|
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"\n",
|
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"`In order to prevent the above two situations, please use the argument 'excludeAxis' to exclude those axes.`\n",
|
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"\n",
|
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"By put data into the xarray data structure, the data will automatically sorted by the coordinates (scan axes). In order to reach the original HDF5 file, it also return the shot number of each data point.\n",
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"\n",
|
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"The attributes records all the global parameters from HDF5 file.\n",
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"\n",
|
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"However, you may notice that now all the data values are 'Chunk', instead of any numbers. This is because we use the dask package for parallel reading and computing. Now the script does NOT read any thing from the disk, but it associates the data with the location in hard disk. Once you call or use the data, it then will start to really read them from hard disk. \n",
|
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"\n",
|
|
"And please read more in the following link to get an idea how to work with parallel computing.\n",
|
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"\n",
|
|
"https://docs.dask.org/en/stable/10-minutes-to-dask.html\n",
|
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"\n",
|
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"In one sentance, the basic idea of parallel computing is\n",
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"\n",
|
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"- In the very beginning, we draw a map for the computing, but the computer does not really do any calculation. Then it will return the results in 'chunks', which tells us the structure of data after calculation and how it will be distributed to different CPUs and threads.\n",
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"\n",
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"- After that, we can call .computer() method to let the computer do calculation once.\n",
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"\n",
|
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"- Or call .load() method to load the result into RAM."
|
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]
|
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},
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
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"source": [
|
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"## Use .compute() method to calculate once \n",
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"\n",
|
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"We can call the .compute() method to let the computer calculate once."
|
|
]
|
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},
|
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{
|
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"cell_type": "code",
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"execution_count": 6,
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"metadata": {},
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"outputs": [
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|
|
" border-bottom: solid 1px var(--xr-border-color);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-header > div,\n",
|
|
".xr-header > ul {\n",
|
|
" display: inline;\n",
|
|
" margin-top: 0;\n",
|
|
" margin-bottom: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-obj-type,\n",
|
|
".xr-array-name {\n",
|
|
" margin-left: 2px;\n",
|
|
" margin-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-obj-type {\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-sections {\n",
|
|
" padding-left: 0 !important;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 150px auto auto 1fr 20px 20px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item input {\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item input + label {\n",
|
|
" color: var(--xr-disabled-color);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item input:enabled + label {\n",
|
|
" cursor: pointer;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item input:enabled + label:hover {\n",
|
|
" color: var(--xr-font-color0);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary {\n",
|
|
" grid-column: 1;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
" font-weight: 500;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary > span {\n",
|
|
" display: inline-block;\n",
|
|
" padding-left: 0.5em;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:disabled + label {\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in + label:before {\n",
|
|
" display: inline-block;\n",
|
|
" content: 'â–º';\n",
|
|
" font-size: 11px;\n",
|
|
" width: 15px;\n",
|
|
" text-align: center;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:disabled + label:before {\n",
|
|
" color: var(--xr-disabled-color);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:checked + label:before {\n",
|
|
" content: 'â–¼';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:checked + label > span {\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary,\n",
|
|
".xr-section-inline-details {\n",
|
|
" padding-top: 4px;\n",
|
|
" padding-bottom: 4px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-inline-details {\n",
|
|
" grid-column: 2 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-details {\n",
|
|
" display: none;\n",
|
|
" grid-column: 1 / -1;\n",
|
|
" margin-bottom: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:checked ~ .xr-section-details {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-wrap {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 20px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-wrap > label {\n",
|
|
" grid-column: 1;\n",
|
|
" vertical-align: top;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-preview {\n",
|
|
" color: var(--xr-font-color3);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-preview,\n",
|
|
".xr-array-data {\n",
|
|
" padding: 0 5px !important;\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-data,\n",
|
|
".xr-array-in:checked ~ .xr-array-preview {\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-in:checked ~ .xr-array-data,\n",
|
|
".xr-array-preview {\n",
|
|
" display: inline-block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list {\n",
|
|
" display: inline-block !important;\n",
|
|
" list-style: none;\n",
|
|
" padding: 0 !important;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li {\n",
|
|
" display: inline-block;\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:before {\n",
|
|
" content: '(';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:after {\n",
|
|
" content: ')';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li:not(:last-child):after {\n",
|
|
" content: ',';\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-has-index {\n",
|
|
" font-weight: bold;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list,\n",
|
|
".xr-var-item {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > div,\n",
|
|
".xr-var-item label,\n",
|
|
".xr-var-item > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-even);\n",
|
|
" margin-bottom: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > .xr-var-name:hover span {\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list > li:nth-child(odd) > div,\n",
|
|
".xr-var-list > li:nth-child(odd) > label,\n",
|
|
".xr-var-list > li:nth-child(odd) > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-odd);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name {\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dims {\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dtype {\n",
|
|
" grid-column: 3;\n",
|
|
" text-align: right;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-preview {\n",
|
|
" grid-column: 4;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-index-preview {\n",
|
|
" grid-column: 2 / 5;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name,\n",
|
|
".xr-var-dims,\n",
|
|
".xr-var-dtype,\n",
|
|
".xr-preview,\n",
|
|
".xr-attrs dt {\n",
|
|
" white-space: nowrap;\n",
|
|
" overflow: hidden;\n",
|
|
" text-overflow: ellipsis;\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name:hover,\n",
|
|
".xr-var-dims:hover,\n",
|
|
".xr-var-dtype:hover,\n",
|
|
".xr-attrs dt:hover {\n",
|
|
" overflow: visible;\n",
|
|
" width: auto;\n",
|
|
" z-index: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" display: none;\n",
|
|
" background-color: var(--xr-background-color) !important;\n",
|
|
" padding-bottom: 5px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
|
|
".xr-var-data-in:checked ~ .xr-var-data,\n",
|
|
".xr-index-data-in:checked ~ .xr-index-data {\n",
|
|
" display: block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-data > table {\n",
|
|
" float: right;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name span,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-name div,\n",
|
|
".xr-index-data,\n",
|
|
".xr-attrs {\n",
|
|
" padding-left: 25px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs,\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
"dl.xr-attrs {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 125px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt,\n",
|
|
".xr-attrs dd {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" float: left;\n",
|
|
" padding-right: 10px;\n",
|
|
" width: auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt {\n",
|
|
" font-weight: normal;\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt:hover span {\n",
|
|
" display: inline-block;\n",
|
|
" background: var(--xr-background-color);\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".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'><xarray.Dataset>\n",
|
|
"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Data variables:\n",
|
|
" atoms (runs, truncation_value, y, x) uint16 99 100 ... 126 129\n",
|
|
" background (runs, truncation_value, y, x) uint16 103 100 ... 122 124\n",
|
|
" dark (runs, truncation_value, y, x) uint16 51 52 52 ... 49 50\n",
|
|
" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
|
"Attributes: (12/100)\n",
|
|
" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
|
" absorption_imaging_flag: True\n",
|
|
" backup_data: True\n",
|
|
" blink_off_time: nan\n",
|
|
" blink_on_time: nan\n",
|
|
" ... ...\n",
|
|
" z_offset: 0.195\n",
|
|
" z_offset_img: 0.195\n",
|
|
" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
|
" scanAxis: ['runs' 'truncation_value']\n",
|
|
" scanAxisLength: [55. 55.]</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-2cbd3c31-d9b4-41eb-8f8d-a2f10e630002' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-2cbd3c31-d9b4-41eb-8f8d-a2f10e630002' class='xr-section-summary' title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span class='xr-has-index'>runs</span>: 5</li><li><span class='xr-has-index'>truncation_value</span>: 11</li><li><span>y</span>: 1200</li><li><span>x</span>: 1920</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-80dd022c-2588-488d-b07b-40cbb246c054' class='xr-section-summary-in' type='checkbox' checked><label for='section-80dd022c-2588-488d-b07b-40cbb246c054' class='xr-section-summary' >Coordinates: <span>(2)</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'>runs</span></div><div class='xr-var-dims'>(runs)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 1.0 2.0 3.0 4.0</div><input id='attrs-dd517d97-f908-49e1-8273-c87f01e6248a' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-dd517d97-f908-49e1-8273-c87f01e6248a' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-dac0ba8b-c9cb-430d-bb3b-def59776b913' class='xr-var-data-in' type='checkbox'><label for='data-dac0ba8b-c9cb-430d-bb3b-def59776b913' 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., 1., 2., 3., 4.])</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>truncation_value</span></div><div class='xr-var-dims'>(truncation_value)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.8 0.83 0.85 ... 0.97 0.99 1.0</div><input id='attrs-88406b5d-b054-489f-9c02-8b9ac9e23646' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-88406b5d-b054-489f-9c02-8b9ac9e23646' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-13dcf4c6-1b5c-4022-9389-7c55dfd90713' class='xr-var-data-in' type='checkbox'><label for='data-13dcf4c6-1b5c-4022-9389-7c55dfd90713' 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([0.8 , 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1. ])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-c2b89ea7-661b-4c97-86a2-b887c6f2098e' class='xr-section-summary-in' type='checkbox' checked><label for='section-c2b89ea7-661b-4c97-86a2-b887c6f2098e' 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>atoms</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>99 100 102 87 ... 130 125 126 129</div><input id='attrs-b93deaae-8b3a-4313-8f0d-17f016c34974' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-b93deaae-8b3a-4313-8f0d-17f016c34974' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-95ec1bb5-36d9-4070-a954-d3a54e615bb9' class='xr-var-data-in' type='checkbox'><label for='data-95ec1bb5-36d9-4070-a954-d3a54e615bb9' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[ 99, 100, 102, ..., 163, 153, 147],\n",
|
|
" [100, 106, 99, ..., 149, 148, 146],\n",
|
|
" [ 94, 95, 96, ..., 139, 144, 148],\n",
|
|
" ...,\n",
|
|
" [ 98, 106, 105, ..., 133, 142, 142],\n",
|
|
" [112, 109, 102, ..., 128, 136, 131],\n",
|
|
" [112, 113, 111, ..., 121, 122, 131]],\n",
|
|
"\n",
|
|
" [[102, 103, 100, ..., 155, 154, 142],\n",
|
|
" [ 97, 100, 101, ..., 146, 146, 156],\n",
|
|
" [ 91, 93, 97, ..., 142, 136, 151],\n",
|
|
" ...,\n",
|
|
" [105, 103, 103, ..., 144, 134, 142],\n",
|
|
" [102, 104, 112, ..., 133, 134, 135],\n",
|
|
" [114, 115, 113, ..., 119, 126, 122]],\n",
|
|
"\n",
|
|
" [[101, 105, 103, ..., 148, 152, 146],\n",
|
|
" [101, 102, 98, ..., 143, 146, 149],\n",
|
|
" [ 97, 98, 98, ..., 139, 137, 146],\n",
|
|
" ...,\n",
|
|
"...\n",
|
|
" ...,\n",
|
|
" [100, 102, 109, ..., 135, 141, 140],\n",
|
|
" [106, 103, 105, ..., 128, 140, 132],\n",
|
|
" [114, 107, 108, ..., 121, 123, 126]],\n",
|
|
"\n",
|
|
" [[101, 102, 101, ..., 153, 153, 146],\n",
|
|
" [101, 103, 100, ..., 148, 143, 149],\n",
|
|
" [ 96, 95, 98, ..., 145, 138, 144],\n",
|
|
" ...,\n",
|
|
" [ 98, 107, 103, ..., 140, 142, 145],\n",
|
|
" [106, 100, 103, ..., 133, 133, 136],\n",
|
|
" [115, 103, 102, ..., 123, 125, 128]],\n",
|
|
"\n",
|
|
" [[103, 100, 102, ..., 154, 147, 153],\n",
|
|
" [ 96, 103, 97, ..., 150, 150, 152],\n",
|
|
" [ 96, 100, 96, ..., 141, 142, 144],\n",
|
|
" ...,\n",
|
|
" [101, 102, 101, ..., 139, 142, 140],\n",
|
|
" [105, 105, 98, ..., 132, 135, 131],\n",
|
|
" [109, 111, 107, ..., 125, 126, 129]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>background</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>103 100 101 92 ... 130 122 122 124</div><input id='attrs-3ded8fcf-880a-4006-9aa1-337f9359c30c' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-3ded8fcf-880a-4006-9aa1-337f9359c30c' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-311c13b3-9ecb-4b0e-864f-bc726e8884a6' class='xr-var-data-in' type='checkbox'><label for='data-311c13b3-9ecb-4b0e-864f-bc726e8884a6' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[103, 100, 101, ..., 161, 147, 146],\n",
|
|
" [101, 96, 97, ..., 146, 144, 146],\n",
|
|
" [ 92, 95, 96, ..., 143, 134, 149],\n",
|
|
" ...,\n",
|
|
" [104, 103, 107, ..., 139, 142, 137],\n",
|
|
" [104, 105, 109, ..., 128, 133, 130],\n",
|
|
" [111, 111, 107, ..., 118, 120, 123]],\n",
|
|
"\n",
|
|
" [[ 96, 100, 99, ..., 155, 149, 139],\n",
|
|
" [ 94, 101, 100, ..., 149, 143, 151],\n",
|
|
" [ 94, 90, 97, ..., 140, 143, 139],\n",
|
|
" ...,\n",
|
|
" [103, 105, 103, ..., 126, 139, 144],\n",
|
|
" [104, 111, 105, ..., 131, 136, 134],\n",
|
|
" [111, 112, 104, ..., 121, 126, 137]],\n",
|
|
"\n",
|
|
" [[101, 99, 107, ..., 154, 146, 151],\n",
|
|
" [ 97, 101, 100, ..., 148, 148, 145],\n",
|
|
" [ 87, 102, 100, ..., 145, 133, 140],\n",
|
|
" ...,\n",
|
|
"...\n",
|
|
" ...,\n",
|
|
" [105, 100, 99, ..., 132, 142, 137],\n",
|
|
" [ 96, 104, 102, ..., 133, 135, 133],\n",
|
|
" [110, 109, 103, ..., 123, 122, 119]],\n",
|
|
"\n",
|
|
" [[101, 102, 101, ..., 156, 154, 149],\n",
|
|
" [ 95, 99, 99, ..., 140, 146, 153],\n",
|
|
" [ 91, 103, 97, ..., 142, 140, 147],\n",
|
|
" ...,\n",
|
|
" [ 98, 106, 106, ..., 132, 139, 147],\n",
|
|
" [102, 110, 108, ..., 127, 130, 131],\n",
|
|
" [110, 109, 106, ..., 127, 125, 127]],\n",
|
|
"\n",
|
|
" [[103, 106, 105, ..., 146, 146, 147],\n",
|
|
" [ 99, 103, 102, ..., 152, 142, 152],\n",
|
|
" [ 97, 100, 92, ..., 143, 138, 156],\n",
|
|
" ...,\n",
|
|
" [104, 108, 105, ..., 142, 141, 139],\n",
|
|
" [107, 104, 104, ..., 131, 137, 128],\n",
|
|
" [110, 109, 107, ..., 122, 122, 124]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>dark</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>51 52 52 51 51 ... 52 50 53 49 50</div><input id='attrs-580f100e-1b77-4fa1-a73d-f44702aa8282' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-580f100e-1b77-4fa1-a73d-f44702aa8282' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-c37d42f8-fe07-4cfe-b506-d18086456efa' class='xr-var-data-in' type='checkbox'><label for='data-c37d42f8-fe07-4cfe-b506-d18086456efa' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[51, 52, 52, ..., 50, 51, 51],\n",
|
|
" [50, 50, 51, ..., 51, 51, 49],\n",
|
|
" [51, 51, 50, ..., 50, 50, 49],\n",
|
|
" ...,\n",
|
|
" [50, 51, 50, ..., 50, 50, 49],\n",
|
|
" [50, 50, 49, ..., 50, 50, 51],\n",
|
|
" [51, 50, 50, ..., 50, 50, 51]],\n",
|
|
"\n",
|
|
" [[50, 52, 51, ..., 50, 50, 49],\n",
|
|
" [51, 50, 50, ..., 50, 50, 50],\n",
|
|
" [50, 51, 49, ..., 50, 50, 51],\n",
|
|
" ...,\n",
|
|
" [51, 50, 50, ..., 52, 50, 51],\n",
|
|
" [51, 50, 51, ..., 50, 52, 51],\n",
|
|
" [51, 52, 51, ..., 51, 50, 50]],\n",
|
|
"\n",
|
|
" [[51, 51, 52, ..., 51, 51, 50],\n",
|
|
" [50, 50, 51, ..., 51, 51, 51],\n",
|
|
" [50, 50, 50, ..., 50, 50, 50],\n",
|
|
" ...,\n",
|
|
"...\n",
|
|
" ...,\n",
|
|
" [51, 50, 51, ..., 51, 51, 51],\n",
|
|
" [50, 49, 50, ..., 49, 51, 51],\n",
|
|
" [50, 51, 50, ..., 50, 49, 51]],\n",
|
|
"\n",
|
|
" [[50, 50, 50, ..., 51, 50, 51],\n",
|
|
" [51, 50, 51, ..., 51, 50, 49],\n",
|
|
" [52, 49, 50, ..., 52, 51, 51],\n",
|
|
" ...,\n",
|
|
" [50, 50, 50, ..., 49, 50, 49],\n",
|
|
" [50, 49, 51, ..., 51, 50, 51],\n",
|
|
" [52, 51, 52, ..., 50, 51, 51]],\n",
|
|
"\n",
|
|
" [[50, 51, 49, ..., 50, 51, 51],\n",
|
|
" [51, 52, 51, ..., 51, 51, 50],\n",
|
|
" [52, 51, 51, ..., 49, 51, 51],\n",
|
|
" ...,\n",
|
|
" [52, 50, 51, ..., 52, 50, 51],\n",
|
|
" [50, 51, 50, ..., 51, 50, 50],\n",
|
|
" [50, 51, 51, ..., 53, 49, 50]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>shotNum</span></div><div class='xr-var-dims'>(runs, truncation_value)</div><div class='xr-var-dtype'><U2</div><div class='xr-var-preview xr-preview'>'00' '01' '02' ... '52' '53' '54'</div><input id='attrs-11895a4d-abb2-46e2-b813-c4b505fb6525' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-11895a4d-abb2-46e2-b813-c4b505fb6525' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-b66e3650-6864-403f-887b-a192143c9845' class='xr-var-data-in' type='checkbox'><label for='data-b66e3650-6864-403f-887b-a192143c9845' 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([['00', '01', '02', '03', '04', '05', '06', '07', '08', '09', '10'],\n",
|
|
" ['11', '12', '13', '14', '15', '16', '17', '18', '19', '20', '21'],\n",
|
|
" ['22', '23', '24', '25', '26', '27', '28', '29', '30', '31', '32'],\n",
|
|
" ['33', '34', '35', '36', '37', '38', '39', '40', '41', '42', '43'],\n",
|
|
" ['44', '45', '46', '47', '48', '49', '50', '51', '52', '53', '54']],\n",
|
|
" dtype='<U2')</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-12d0628b-8b3a-4165-8eb6-3fb67af5031b' class='xr-section-summary-in' type='checkbox' ><label for='section-12d0628b-8b3a-4165-8eb6-3fb67af5031b' class='xr-section-summary' >Indexes: <span>(2)</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>runs</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-8f5f0325-8556-40c5-97c3-0baa332519a7' class='xr-index-data-in' type='checkbox'/><label for='index-8f5f0325-8556-40c5-97c3-0baa332519a7' 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, 1.0, 2.0, 3.0, 4.0], dtype='float64', name='runs'))</pre></div></li><li class='xr-var-item'><div class='xr-index-name'><div>truncation_value</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-78da0206-026e-4348-b009-54082944ecdf' class='xr-index-data-in' type='checkbox'/><label for='index-78da0206-026e-4348-b009-54082944ecdf' 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([0.8, 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1.0], dtype='float64', name='truncation_value'))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-95c031b4-12c6-4933-afdf-a727e51b53f6' class='xr-section-summary-in' type='checkbox' ><label for='section-95c031b4-12c6-4933-afdf-a727e51b53f6' class='xr-section-summary' >Attributes: <span>(100)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>TOF_free :</span></dt><dd>0.02</dd><dt><span>abs_img_freq :</span></dt><dd>110.866</dd><dt><span>absorption_imaging_flag :</span></dt><dd>True</dd><dt><span>backup_data :</span></dt><dd>True</dd><dt><span>blink_off_time :</span></dt><dd>nan</dd><dt><span>blink_on_time :</span></dt><dd>nan</dd><dt><span>c_duration :</span></dt><dd>0.2</dd><dt><span>cmot_final_current :</span></dt><dd>0.65</dd><dt><span>cmot_hold :</span></dt><dd>0.06</dd><dt><span>cmot_initial_current :</span></dt><dd>0.18</dd><dt><span>compX_current :</span></dt><dd>0.005</dd><dt><span>compX_current_sg :</span></dt><dd>0</dd><dt><span>compX_final_current :</span></dt><dd>0.002</dd><dt><span>compX_initial_current :</span></dt><dd>0.005</dd><dt><span>compY_current :</span></dt><dd>0</dd><dt><span>compY_current_sg :</span></dt><dd>0</dd><dt><span>compY_final_current :</span></dt><dd>0</dd><dt><span>compY_initial_current :</span></dt><dd>0</dd><dt><span>compZ_current :</span></dt><dd>0</dd><dt><span>compZ_current_sg :</span></dt><dd>0.195</dd><dt><span>compZ_final_current :</span></dt><dd>0.287</dd><dt><span>compZ_initial_current :</span></dt><dd>0</dd><dt><span>default_camera :</span></dt><dd>0</dd><dt><span>evap_1_final_pow_1 :</span></dt><dd>4.8</dd><dt><span>evap_1_final_pow_2 :</span></dt><dd>2.2</dd><dt><span>evap_1_final_pow_3 :</span></dt><dd>1.2</dd><dt><span>evap_1_final_pow_4 :</span></dt><dd>0.526</dd><dt><span>evap_1_ramp_duration_1 :</span></dt><dd>0.15</dd><dt><span>evap_1_ramp_duration_2 :</span></dt><dd>0.3</dd><dt><span>evap_1_ramp_duration_3 :</span></dt><dd>0.2</dd><dt><span>evap_1_ramp_duration_4 :</span></dt><dd>0.5</dd><dt><span>evap_1_start_pow_1 :</span></dt><dd>7</dd><dt><span>evap_1_start_pow_2 :</span></dt><dd>4.8</dd><dt><span>evap_1_start_pow_3 :</span></dt><dd>2.2</dd><dt><span>evap_1_start_pow_4 :</span></dt><dd>1.2</dd><dt><span>evap_2_final_pow_1 :</span></dt><dd>0.35</dd><dt><span>evap_2_ramp_duration_1 :</span></dt><dd>0.5</dd><dt><span>evap_2_start_pow_1 :</span></dt><dd>0.526</dd><dt><span>evap_3_arm_1_final_pow :</span></dt><dd>0.037</dd><dt><span>evap_3_arm_1_start_pow :</span></dt><dd>0.35</dd><dt><span>evap_3_arm_2_final_pow :</span></dt><dd>0.09</dd><dt><span>evap_3_arm_2_start_pow :</span></dt><dd>5</dd><dt><span>evap_3_ramp_duration :</span></dt><dd>1</dd><dt><span>evap_3_rate_constant_1 :</span></dt><dd>0.37</dd><dt><span>evap_3_rate_constant_2 :</span></dt><dd>0.71</dd><dt><span>evap_4_arm_1_final_pow :</span></dt><dd>0.085</dd><dt><span>evap_4_arm_1_start_pow :</span></dt><dd>0.037</dd><dt><span>evap_ramp_4_duration :</span></dt><dd>0.1</dd><dt><span>final_amp :</span></dt><dd>0.00018</dd><dt><span>final_freq :</span></dt><dd>104</dd><dt><span>gradCoil_current :</span></dt><dd>0.18</dd><dt><span>gradCoil_current_sg :</span></dt><dd>0</dd><dt><span>imaging_method :</span></dt><dd>in_situ_absorption</dd><dt><span>imaging_pulse_duration :</span></dt><dd>2.5e-05</dd><dt><span>imaging_wavelength :</span></dt><dd>4.21291e-07</dd><dt><span>initial_amp :</span></dt><dd>0.62</dd><dt><span>initial_freq :</span></dt><dd>101.9</dd><dt><span>mod_depth_1_fin :</span></dt><dd>0.5</dd><dt><span>mod_depth_1_ini :</span></dt><dd>1</dd><dt><span>mod_depth_2_fin :</span></dt><dd>0.2</dd><dt><span>mod_depth_2_ini :</span></dt><dd>0.5</dd><dt><span>mod_depth_3_fin :</span></dt><dd>0.15</dd><dt><span>mod_depth_3_ini :</span></dt><dd>0.2</dd><dt><span>mod_depth_4_fin :</span></dt><dd>0</dd><dt><span>mod_depth_4_ini :</span></dt><dd>0.15</dd><dt><span>mod_depth_ini :</span></dt><dd>1</dd><dt><span>mod_depth_on_final :</span></dt><dd>0.35</dd><dt><span>mod_depth_on_initial :</span></dt><dd>0</dd><dt><span>mot_3d_amp :</span></dt><dd>0.62</dd><dt><span>mot_3d_camera_exposure_time :</span></dt><dd>0.002</dd><dt><span>mot_3d_camera_trigger_duration :</span></dt><dd>0.00025</dd><dt><span>mot_3d_freq :</span></dt><dd>101.9</dd><dt><span>mot_load_duration :</span></dt><dd>2</dd><dt><span>odt_axis_camera_trigger_duration :</span></dt><dd>0.002</dd><dt><span>odt_hold_time_1 :</span></dt><dd>0.01</dd><dt><span>odt_hold_time_2 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_3 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_4 :</span></dt><dd>1</dd><dt><span>pow_arm_1 :</span></dt><dd>7</dd><dt><span>pow_arm_2 :</span></dt><dd>0</dd><dt><span>pow_fin_arm_2 :</span></dt><dd>5</dd><dt><span>pow_ini_arm_2 :</span></dt><dd>0</dd><dt><span>pulse_delay :</span></dt><dd>8e-05</dd><dt><span>push_amp :</span></dt><dd>0.16</dd><dt><span>push_freq :</span></dt><dd>102.6</dd><dt><span>ramp_duration :</span></dt><dd>1</dd><dt><span>save_results :</span></dt><dd>False</dd><dt><span>stern_gerlach_duration :</span></dt><dd>0.001</dd><dt><span>wait_after_2dmot_off :</span></dt><dd>0</dd><dt><span>wait_time_between_images :</span></dt><dd>0.22</dd><dt><span>x_offset :</span></dt><dd>0</dd><dt><span>x_offset_img :</span></dt><dd>0</dd><dt><span>y_offset :</span></dt><dd>0</dd><dt><span>y_offset_img :</span></dt><dd>0</dd><dt><span>z_offset :</span></dt><dd>0.195</dd><dt><span>z_offset_img :</span></dt><dd>0.195</dd><dt><span>truncation_value :</span></dt><dd>[0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85\n",
|
|
" 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91\n",
|
|
" 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97\n",
|
|
" 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. ]</dd><dt><span>runs :</span></dt><dd>[0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 2. 2.\n",
|
|
" 2. 2. 2. 2. 2. 2. 2. 2. 2. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 4. 4. 4. 4.\n",
|
|
" 4. 4. 4. 4. 4. 4. 4.]</dd><dt><span>scanAxis :</span></dt><dd>['runs' 'truncation_value']</dd><dt><span>scanAxisLength :</span></dt><dd>[55. 55.]</dd></dl></div></li></ul></div></div>"
|
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],
|
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"text/plain": [
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"<xarray.Dataset>\n",
|
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"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Data variables:\n",
|
|
" atoms (runs, truncation_value, y, x) uint16 99 100 ... 126 129\n",
|
|
" background (runs, truncation_value, y, x) uint16 103 100 ... 122 124\n",
|
|
" dark (runs, truncation_value, y, x) uint16 51 52 52 ... 49 50\n",
|
|
" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
|
"Attributes: (12/100)\n",
|
|
" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
|
" absorption_imaging_flag: True\n",
|
|
" backup_data: True\n",
|
|
" blink_off_time: nan\n",
|
|
" blink_on_time: nan\n",
|
|
" ... ...\n",
|
|
" z_offset: 0.195\n",
|
|
" z_offset_img: 0.195\n",
|
|
" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
|
" scanAxis: ['runs' 'truncation_value']\n",
|
|
" scanAxisLength: [55. 55.]"
|
|
]
|
|
},
|
|
"execution_count": 6,
|
|
"metadata": {},
|
|
"output_type": "execute_result"
|
|
}
|
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],
|
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"source": [
|
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"dataSet.compute()"
|
|
]
|
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},
|
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{
|
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"attachments": {},
|
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"cell_type": "markdown",
|
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"metadata": {},
|
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"source": [
|
|
"Very important, .compute() method won't load the result to RAM. If we don't save the result, it will just be lost. We can now check what in dataSet again. "
|
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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": 7,
|
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"metadata": {},
|
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"outputs": [
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{
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"data": {
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"text/html": [
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"<div><svg style=\"position: absolute; width: 0; height: 0; overflow: hidden\">\n",
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"<defs>\n",
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"<symbol id=\"icon-database\" viewBox=\"0 0 32 32\">\n",
|
|
"<path d=\"M16 0c-8.837 0-16 2.239-16 5v4c0 2.761 7.163 5 16 5s16-2.239 16-5v-4c0-2.761-7.163-5-16-5z\"></path>\n",
|
|
"<path d=\"M16 17c-8.837 0-16-2.239-16-5v6c0 2.761 7.163 5 16 5s16-2.239 16-5v-6c0 2.761-7.163 5-16 5z\"></path>\n",
|
|
"<path d=\"M16 26c-8.837 0-16-2.239-16-5v6c0 2.761 7.163 5 16 5s16-2.239 16-5v-6c0 2.761-7.163 5-16 5z\"></path>\n",
|
|
"</symbol>\n",
|
|
"<symbol id=\"icon-file-text2\" viewBox=\"0 0 32 32\">\n",
|
|
"<path d=\"M28.681 7.159c-0.694-0.947-1.662-2.053-2.724-3.116s-2.169-2.030-3.116-2.724c-1.612-1.182-2.393-1.319-2.841-1.319h-15.5c-1.378 0-2.5 1.121-2.5 2.5v27c0 1.378 1.122 2.5 2.5 2.5h23c1.378 0 2.5-1.122 2.5-2.5v-19.5c0-0.448-0.137-1.23-1.319-2.841zM24.543 5.457c0.959 0.959 1.712 1.825 2.268 2.543h-4.811v-4.811c0.718 0.556 1.584 1.309 2.543 2.268zM28 29.5c0 0.271-0.229 0.5-0.5 0.5h-23c-0.271 0-0.5-0.229-0.5-0.5v-27c0-0.271 0.229-0.5 0.5-0.5 0 0 15.499-0 15.5 0v7c0 0.552 0.448 1 1 1h7v19.5z\"></path>\n",
|
|
"<path d=\"M23 26h-14c-0.552 0-1-0.448-1-1s0.448-1 1-1h14c0.552 0 1 0.448 1 1s-0.448 1-1 1z\"></path>\n",
|
|
"<path d=\"M23 22h-14c-0.552 0-1-0.448-1-1s0.448-1 1-1h14c0.552 0 1 0.448 1 1s-0.448 1-1 1z\"></path>\n",
|
|
"<path d=\"M23 18h-14c-0.552 0-1-0.448-1-1s0.448-1 1-1h14c0.552 0 1 0.448 1 1s-0.448 1-1 1z\"></path>\n",
|
|
"</symbol>\n",
|
|
"</defs>\n",
|
|
"</svg>\n",
|
|
"<style>/* CSS stylesheet for displaying xarray objects in jupyterlab.\n",
|
|
" *\n",
|
|
" */\n",
|
|
"\n",
|
|
":root {\n",
|
|
" --xr-font-color0: var(--jp-content-font-color0, rgba(0, 0, 0, 1));\n",
|
|
" --xr-font-color2: var(--jp-content-font-color2, rgba(0, 0, 0, 0.54));\n",
|
|
" --xr-font-color3: var(--jp-content-font-color3, rgba(0, 0, 0, 0.38));\n",
|
|
" --xr-border-color: var(--jp-border-color2, #e0e0e0);\n",
|
|
" --xr-disabled-color: var(--jp-layout-color3, #bdbdbd);\n",
|
|
" --xr-background-color: var(--jp-layout-color0, white);\n",
|
|
" --xr-background-color-row-even: var(--jp-layout-color1, white);\n",
|
|
" --xr-background-color-row-odd: var(--jp-layout-color2, #eeeeee);\n",
|
|
"}\n",
|
|
"\n",
|
|
"html[theme=dark],\n",
|
|
"body[data-theme=dark],\n",
|
|
"body.vscode-dark {\n",
|
|
" --xr-font-color0: rgba(255, 255, 255, 1);\n",
|
|
" --xr-font-color2: rgba(255, 255, 255, 0.54);\n",
|
|
" --xr-font-color3: rgba(255, 255, 255, 0.38);\n",
|
|
" --xr-border-color: #1F1F1F;\n",
|
|
" --xr-disabled-color: #515151;\n",
|
|
" --xr-background-color: #111111;\n",
|
|
" --xr-background-color-row-even: #111111;\n",
|
|
" --xr-background-color-row-odd: #313131;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-wrap {\n",
|
|
" display: block !important;\n",
|
|
" min-width: 300px;\n",
|
|
" max-width: 700px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-text-repr-fallback {\n",
|
|
" /* fallback to plain text repr when CSS is not injected (untrusted notebook) */\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-header {\n",
|
|
" padding-top: 6px;\n",
|
|
" padding-bottom: 6px;\n",
|
|
" margin-bottom: 4px;\n",
|
|
" border-bottom: solid 1px var(--xr-border-color);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-header > div,\n",
|
|
".xr-header > ul {\n",
|
|
" display: inline;\n",
|
|
" margin-top: 0;\n",
|
|
" margin-bottom: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-obj-type,\n",
|
|
".xr-array-name {\n",
|
|
" margin-left: 2px;\n",
|
|
" margin-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-obj-type {\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-sections {\n",
|
|
" padding-left: 0 !important;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 150px auto auto 1fr 20px 20px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item input {\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item input + label {\n",
|
|
" color: var(--xr-disabled-color);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item input:enabled + label {\n",
|
|
" cursor: pointer;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-item input:enabled + label:hover {\n",
|
|
" color: var(--xr-font-color0);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary {\n",
|
|
" grid-column: 1;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
" font-weight: 500;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary > span {\n",
|
|
" display: inline-block;\n",
|
|
" padding-left: 0.5em;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:disabled + label {\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in + label:before {\n",
|
|
" display: inline-block;\n",
|
|
" content: 'â–º';\n",
|
|
" font-size: 11px;\n",
|
|
" width: 15px;\n",
|
|
" text-align: center;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:disabled + label:before {\n",
|
|
" color: var(--xr-disabled-color);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:checked + label:before {\n",
|
|
" content: 'â–¼';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:checked + label > span {\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary,\n",
|
|
".xr-section-inline-details {\n",
|
|
" padding-top: 4px;\n",
|
|
" padding-bottom: 4px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-inline-details {\n",
|
|
" grid-column: 2 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-details {\n",
|
|
" display: none;\n",
|
|
" grid-column: 1 / -1;\n",
|
|
" margin-bottom: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:checked ~ .xr-section-details {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-wrap {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 20px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-wrap > label {\n",
|
|
" grid-column: 1;\n",
|
|
" vertical-align: top;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-preview {\n",
|
|
" color: var(--xr-font-color3);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-preview,\n",
|
|
".xr-array-data {\n",
|
|
" padding: 0 5px !important;\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-data,\n",
|
|
".xr-array-in:checked ~ .xr-array-preview {\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-in:checked ~ .xr-array-data,\n",
|
|
".xr-array-preview {\n",
|
|
" display: inline-block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list {\n",
|
|
" display: inline-block !important;\n",
|
|
" list-style: none;\n",
|
|
" padding: 0 !important;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li {\n",
|
|
" display: inline-block;\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:before {\n",
|
|
" content: '(';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:after {\n",
|
|
" content: ')';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li:not(:last-child):after {\n",
|
|
" content: ',';\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-has-index {\n",
|
|
" font-weight: bold;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list,\n",
|
|
".xr-var-item {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > div,\n",
|
|
".xr-var-item label,\n",
|
|
".xr-var-item > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-even);\n",
|
|
" margin-bottom: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > .xr-var-name:hover span {\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list > li:nth-child(odd) > div,\n",
|
|
".xr-var-list > li:nth-child(odd) > label,\n",
|
|
".xr-var-list > li:nth-child(odd) > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-odd);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name {\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dims {\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dtype {\n",
|
|
" grid-column: 3;\n",
|
|
" text-align: right;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-preview {\n",
|
|
" grid-column: 4;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-index-preview {\n",
|
|
" grid-column: 2 / 5;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name,\n",
|
|
".xr-var-dims,\n",
|
|
".xr-var-dtype,\n",
|
|
".xr-preview,\n",
|
|
".xr-attrs dt {\n",
|
|
" white-space: nowrap;\n",
|
|
" overflow: hidden;\n",
|
|
" text-overflow: ellipsis;\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name:hover,\n",
|
|
".xr-var-dims:hover,\n",
|
|
".xr-var-dtype:hover,\n",
|
|
".xr-attrs dt:hover {\n",
|
|
" overflow: visible;\n",
|
|
" width: auto;\n",
|
|
" z-index: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" display: none;\n",
|
|
" background-color: var(--xr-background-color) !important;\n",
|
|
" padding-bottom: 5px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
|
|
".xr-var-data-in:checked ~ .xr-var-data,\n",
|
|
".xr-index-data-in:checked ~ .xr-index-data {\n",
|
|
" display: block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-data > table {\n",
|
|
" float: right;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name span,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-name div,\n",
|
|
".xr-index-data,\n",
|
|
".xr-attrs {\n",
|
|
" padding-left: 25px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs,\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
"dl.xr-attrs {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 125px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt,\n",
|
|
".xr-attrs dd {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" float: left;\n",
|
|
" padding-right: 10px;\n",
|
|
" width: auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt {\n",
|
|
" font-weight: normal;\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt:hover span {\n",
|
|
" display: inline-block;\n",
|
|
" background: var(--xr-background-color);\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".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'><xarray.Dataset>\n",
|
|
"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Data variables:\n",
|
|
" atoms (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
|
" background (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
|
" dark (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
|
" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
|
"Attributes: (12/100)\n",
|
|
" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
|
" absorption_imaging_flag: True\n",
|
|
" backup_data: True\n",
|
|
" blink_off_time: nan\n",
|
|
" blink_on_time: nan\n",
|
|
" ... ...\n",
|
|
" z_offset: 0.195\n",
|
|
" z_offset_img: 0.195\n",
|
|
" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
|
" scanAxis: ['runs' 'truncation_value']\n",
|
|
" scanAxisLength: [55. 55.]</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-2e5715da-c2c9-486b-a04e-c5222fd3ecf6' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-2e5715da-c2c9-486b-a04e-c5222fd3ecf6' class='xr-section-summary' title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span class='xr-has-index'>runs</span>: 5</li><li><span class='xr-has-index'>truncation_value</span>: 11</li><li><span>y</span>: 1200</li><li><span>x</span>: 1920</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-91ed0f20-6e5a-4be2-948e-a5793660892a' class='xr-section-summary-in' type='checkbox' checked><label for='section-91ed0f20-6e5a-4be2-948e-a5793660892a' class='xr-section-summary' >Coordinates: <span>(2)</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'>runs</span></div><div class='xr-var-dims'>(runs)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 1.0 2.0 3.0 4.0</div><input id='attrs-7c59185d-53fb-4d7a-a66b-f8b5ca563122' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-7c59185d-53fb-4d7a-a66b-f8b5ca563122' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8e0ff7ad-b1cf-4e95-85be-71877ca9ec2e' class='xr-var-data-in' type='checkbox'><label for='data-8e0ff7ad-b1cf-4e95-85be-71877ca9ec2e' 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., 1., 2., 3., 4.])</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>truncation_value</span></div><div class='xr-var-dims'>(truncation_value)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.8 0.83 0.85 ... 0.97 0.99 1.0</div><input id='attrs-d42b164d-7709-4555-98aa-860af01b57ae' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-d42b164d-7709-4555-98aa-860af01b57ae' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-b6db2f37-43c8-4697-860e-d669c809f84b' class='xr-var-data-in' type='checkbox'><label for='data-b6db2f37-43c8-4697-860e-d669c809f84b' 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([0.8 , 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1. ])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-68736520-79d7-4731-a204-85da92405c8a' class='xr-section-summary-in' type='checkbox' checked><label for='section-68736520-79d7-4731-a204-85da92405c8a' 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>atoms</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray></div><input id='attrs-2191cc41-f7b8-4092-a6f5-ac97c0c2c66d' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-2191cc41-f7b8-4092-a6f5-ac97c0c2c66d' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-0e63d3f1-0685-4ec7-b3a6-089c858b6463' class='xr-var-data-in' type='checkbox'><label for='data-0e63d3f1-0685-4ec7-b3a6-089c858b6463' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
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" <tr>\n",
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" <td>\n",
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" <table style=\"border-collapse: collapse;\">\n",
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" <thead>\n",
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" <tr>\n",
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" <td> </td>\n",
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" <th> Array </th>\n",
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" <th> Chunk </th>\n",
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" </tr>\n",
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" </thead>\n",
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" <tbody>\n",
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" \n",
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" <tr>\n",
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" <th> Bytes </th>\n",
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" <td> 241.70 MiB </td>\n",
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" <td> 4.39 MiB </td>\n",
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" </tr>\n",
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" \n",
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" <tr>\n",
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" <th> Shape </th>\n",
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" <td> (5, 11, 1200, 1920) </td>\n",
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" <td> (1, 1, 1200, 1920) </td>\n",
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" </tr>\n",
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" <tr>\n",
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" <th> Dask graph </th>\n",
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" <td colspan=\"2\"> 55 chunks in 177 graph layers </td>\n",
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" </tr>\n",
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" <tr>\n",
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" <th> Data type </th>\n",
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" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
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" </tr>\n",
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"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>background</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray></div><input id='attrs-aa079dff-d7e1-4c80-99e8-a6fe69999434' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-aa079dff-d7e1-4c80-99e8-a6fe69999434' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-cca89f48-07da-42be-931a-73b8ae2f5ebd' class='xr-var-data-in' type='checkbox'><label for='data-cca89f48-07da-42be-931a-73b8ae2f5ebd' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
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" <tr>\n",
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" <td>\n",
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" <table style=\"border-collapse: collapse;\">\n",
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" <thead>\n",
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" <tr>\n",
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" <td> </td>\n",
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" <th> Array </th>\n",
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" <th> Chunk </th>\n",
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" </tr>\n",
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" </thead>\n",
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" <tbody>\n",
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" \n",
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" <tr>\n",
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" <th> Bytes </th>\n",
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" <td> 241.70 MiB </td>\n",
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" <td> 4.39 MiB </td>\n",
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" </tr>\n",
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" \n",
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" <tr>\n",
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" <th> Shape </th>\n",
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" <td> (5, 11, 1200, 1920) </td>\n",
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" <td> (1, 1, 1200, 1920) </td>\n",
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" </tr>\n",
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" <tr>\n",
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" <th> Dask graph </th>\n",
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" <td colspan=\"2\"> 55 chunks in 177 graph layers </td>\n",
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" </tr>\n",
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" <tr>\n",
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" <th> Data type </th>\n",
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" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
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" </tr>\n",
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" </tbody>\n",
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" </table>\n",
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" </td>\n",
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" <td>\n",
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"\n",
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" <!-- Text -->\n",
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" <text x=\"169.948598\" y=\"109.948598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1920</text>\n",
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" <text x=\"249.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,249.948598,52.448598)\">1200</text>\n",
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" <text x=\"92.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,92.474299,102.474299)\">11</text>\n",
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"</svg>\n",
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" </td>\n",
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" </tr>\n",
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"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>dark</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray></div><input id='attrs-d6f7e456-0783-4032-a6f1-7ca8f3978e35' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-d6f7e456-0783-4032-a6f1-7ca8f3978e35' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-d35c96cc-cd15-4181-b295-28440de0c66f' class='xr-var-data-in' type='checkbox'><label for='data-d35c96cc-cd15-4181-b295-28440de0c66f' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
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" <tr>\n",
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" <td>\n",
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" <table style=\"border-collapse: collapse;\">\n",
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" <thead>\n",
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" <tr>\n",
|
|
" <td> </td>\n",
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" <th> Array </th>\n",
|
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" <th> Chunk </th>\n",
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|
" </tr>\n",
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" </thead>\n",
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" <tbody>\n",
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" \n",
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" <tr>\n",
|
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" <th> Bytes </th>\n",
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" <td> 241.70 MiB </td>\n",
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" <td> 4.39 MiB </td>\n",
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" </tr>\n",
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|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11, 1200, 1920) </td>\n",
|
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" <td> (1, 1, 1200, 1920) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 55 chunks in 177 graph layers </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
" </tbody>\n",
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|
" </table>\n",
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|
" </td>\n",
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" <td>\n",
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"\n",
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" <text x=\"249.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,249.948598,52.448598)\">1200</text>\n",
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"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>shotNum</span></div><div class='xr-var-dims'>(runs, truncation_value)</div><div class='xr-var-dtype'><U2</div><div class='xr-var-preview xr-preview'>'00' '01' '02' ... '52' '53' '54'</div><input id='attrs-ae5a7d8c-80b4-4b98-b84d-59c741a51e1a' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-ae5a7d8c-80b4-4b98-b84d-59c741a51e1a' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-a319e736-df11-4c80-a15b-f612428dac7b' class='xr-var-data-in' type='checkbox'><label for='data-a319e736-df11-4c80-a15b-f612428dac7b' 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([['00', '01', '02', '03', '04', '05', '06', '07', '08', '09', '10'],\n",
|
|
" ['11', '12', '13', '14', '15', '16', '17', '18', '19', '20', '21'],\n",
|
|
" ['22', '23', '24', '25', '26', '27', '28', '29', '30', '31', '32'],\n",
|
|
" ['33', '34', '35', '36', '37', '38', '39', '40', '41', '42', '43'],\n",
|
|
" ['44', '45', '46', '47', '48', '49', '50', '51', '52', '53', '54']],\n",
|
|
" dtype='<U2')</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-636eed61-0442-4397-9185-f0ee81f9616f' class='xr-section-summary-in' type='checkbox' ><label for='section-636eed61-0442-4397-9185-f0ee81f9616f' class='xr-section-summary' >Indexes: <span>(2)</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>runs</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-6b0064c5-859b-4713-92a0-500f61525828' class='xr-index-data-in' type='checkbox'/><label for='index-6b0064c5-859b-4713-92a0-500f61525828' 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, 1.0, 2.0, 3.0, 4.0], dtype='float64', name='runs'))</pre></div></li><li class='xr-var-item'><div class='xr-index-name'><div>truncation_value</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-3dbfd26a-923d-4f22-9754-967fbde04d03' class='xr-index-data-in' type='checkbox'/><label for='index-3dbfd26a-923d-4f22-9754-967fbde04d03' 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([0.8, 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1.0], dtype='float64', name='truncation_value'))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-9f4b2906-b15f-4649-a95c-158efe65f704' class='xr-section-summary-in' type='checkbox' ><label for='section-9f4b2906-b15f-4649-a95c-158efe65f704' class='xr-section-summary' >Attributes: <span>(100)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>TOF_free :</span></dt><dd>0.02</dd><dt><span>abs_img_freq :</span></dt><dd>110.866</dd><dt><span>absorption_imaging_flag :</span></dt><dd>True</dd><dt><span>backup_data :</span></dt><dd>True</dd><dt><span>blink_off_time :</span></dt><dd>nan</dd><dt><span>blink_on_time :</span></dt><dd>nan</dd><dt><span>c_duration :</span></dt><dd>0.2</dd><dt><span>cmot_final_current :</span></dt><dd>0.65</dd><dt><span>cmot_hold :</span></dt><dd>0.06</dd><dt><span>cmot_initial_current :</span></dt><dd>0.18</dd><dt><span>compX_current :</span></dt><dd>0.005</dd><dt><span>compX_current_sg :</span></dt><dd>0</dd><dt><span>compX_final_current :</span></dt><dd>0.002</dd><dt><span>compX_initial_current :</span></dt><dd>0.005</dd><dt><span>compY_current :</span></dt><dd>0</dd><dt><span>compY_current_sg :</span></dt><dd>0</dd><dt><span>compY_final_current :</span></dt><dd>0</dd><dt><span>compY_initial_current :</span></dt><dd>0</dd><dt><span>compZ_current :</span></dt><dd>0</dd><dt><span>compZ_current_sg :</span></dt><dd>0.195</dd><dt><span>compZ_final_current :</span></dt><dd>0.287</dd><dt><span>compZ_initial_current :</span></dt><dd>0</dd><dt><span>default_camera :</span></dt><dd>0</dd><dt><span>evap_1_final_pow_1 :</span></dt><dd>4.8</dd><dt><span>evap_1_final_pow_2 :</span></dt><dd>2.2</dd><dt><span>evap_1_final_pow_3 :</span></dt><dd>1.2</dd><dt><span>evap_1_final_pow_4 :</span></dt><dd>0.526</dd><dt><span>evap_1_ramp_duration_1 :</span></dt><dd>0.15</dd><dt><span>evap_1_ramp_duration_2 :</span></dt><dd>0.3</dd><dt><span>evap_1_ramp_duration_3 :</span></dt><dd>0.2</dd><dt><span>evap_1_ramp_duration_4 :</span></dt><dd>0.5</dd><dt><span>evap_1_start_pow_1 :</span></dt><dd>7</dd><dt><span>evap_1_start_pow_2 :</span></dt><dd>4.8</dd><dt><span>evap_1_start_pow_3 :</span></dt><dd>2.2</dd><dt><span>evap_1_start_pow_4 :</span></dt><dd>1.2</dd><dt><span>evap_2_final_pow_1 :</span></dt><dd>0.35</dd><dt><span>evap_2_ramp_duration_1 :</span></dt><dd>0.5</dd><dt><span>evap_2_start_pow_1 :</span></dt><dd>0.526</dd><dt><span>evap_3_arm_1_final_pow :</span></dt><dd>0.037</dd><dt><span>evap_3_arm_1_start_pow :</span></dt><dd>0.35</dd><dt><span>evap_3_arm_2_final_pow :</span></dt><dd>0.09</dd><dt><span>evap_3_arm_2_start_pow :</span></dt><dd>5</dd><dt><span>evap_3_ramp_duration :</span></dt><dd>1</dd><dt><span>evap_3_rate_constant_1 :</span></dt><dd>0.37</dd><dt><span>evap_3_rate_constant_2 :</span></dt><dd>0.71</dd><dt><span>evap_4_arm_1_final_pow :</span></dt><dd>0.085</dd><dt><span>evap_4_arm_1_start_pow :</span></dt><dd>0.037</dd><dt><span>evap_ramp_4_duration :</span></dt><dd>0.1</dd><dt><span>final_amp :</span></dt><dd>0.00018</dd><dt><span>final_freq :</span></dt><dd>104</dd><dt><span>gradCoil_current :</span></dt><dd>0.18</dd><dt><span>gradCoil_current_sg :</span></dt><dd>0</dd><dt><span>imaging_method :</span></dt><dd>in_situ_absorption</dd><dt><span>imaging_pulse_duration :</span></dt><dd>2.5e-05</dd><dt><span>imaging_wavelength :</span></dt><dd>4.21291e-07</dd><dt><span>initial_amp :</span></dt><dd>0.62</dd><dt><span>initial_freq :</span></dt><dd>101.9</dd><dt><span>mod_depth_1_fin :</span></dt><dd>0.5</dd><dt><span>mod_depth_1_ini :</span></dt><dd>1</dd><dt><span>mod_depth_2_fin :</span></dt><dd>0.2</dd><dt><span>mod_depth_2_ini :</span></dt><dd>0.5</dd><dt><span>mod_depth_3_fin :</span></dt><dd>0.15</dd><dt><span>mod_depth_3_ini :</span></dt><dd>0.2</dd><dt><span>mod_depth_4_fin :</span></dt><dd>0</dd><dt><span>mod_depth_4_ini :</span></dt><dd>0.15</dd><dt><span>mod_depth_ini :</span></dt><dd>1</dd><dt><span>mod_depth_on_final :</span></dt><dd>0.35</dd><dt><span>mod_depth_on_initial :</span></dt><dd>0</dd><dt><span>mot_3d_amp :</span></dt><dd>0.62</dd><dt><span>mot_3d_camera_exposure_time :</span></dt><dd>0.002</dd><dt><span>mot_3d_camera_trigger_duration :</span></dt><dd>0.00025</dd><dt><span>mot_3d_freq :</span></dt><dd>101.9</dd><dt><span>mot_load_duration :</span></dt><dd>2</dd><dt><span>odt_axis_camera_trigger_duration :</span></dt><dd>0.002</dd><dt><span>odt_hold_time_1 :</span></dt><dd>0.01</dd><dt><span>odt_hold_time_2 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_3 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_4 :</span></dt><dd>1</dd><dt><span>pow_arm_1 :</span></dt><dd>7</dd><dt><span>pow_arm_2 :</span></dt><dd>0</dd><dt><span>pow_fin_arm_2 :</span></dt><dd>5</dd><dt><span>pow_ini_arm_2 :</span></dt><dd>0</dd><dt><span>pulse_delay :</span></dt><dd>8e-05</dd><dt><span>push_amp :</span></dt><dd>0.16</dd><dt><span>push_freq :</span></dt><dd>102.6</dd><dt><span>ramp_duration :</span></dt><dd>1</dd><dt><span>save_results :</span></dt><dd>False</dd><dt><span>stern_gerlach_duration :</span></dt><dd>0.001</dd><dt><span>wait_after_2dmot_off :</span></dt><dd>0</dd><dt><span>wait_time_between_images :</span></dt><dd>0.22</dd><dt><span>x_offset :</span></dt><dd>0</dd><dt><span>x_offset_img :</span></dt><dd>0</dd><dt><span>y_offset :</span></dt><dd>0</dd><dt><span>y_offset_img :</span></dt><dd>0</dd><dt><span>z_offset :</span></dt><dd>0.195</dd><dt><span>z_offset_img :</span></dt><dd>0.195</dd><dt><span>truncation_value :</span></dt><dd>[0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85\n",
|
|
" 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91\n",
|
|
" 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97\n",
|
|
" 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. ]</dd><dt><span>runs :</span></dt><dd>[0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 2. 2.\n",
|
|
" 2. 2. 2. 2. 2. 2. 2. 2. 2. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 4. 4. 4. 4.\n",
|
|
" 4. 4. 4. 4. 4. 4. 4.]</dd><dt><span>scanAxis :</span></dt><dd>['runs' 'truncation_value']</dd><dt><span>scanAxisLength :</span></dt><dd>[55. 55.]</dd></dl></div></li></ul></div></div>"
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],
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"text/plain": [
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"<xarray.Dataset>\n",
|
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"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
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"Coordinates:\n",
|
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" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
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" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
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"Dimensions without coordinates: y, x\n",
|
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"Data variables:\n",
|
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" atoms (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
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" background (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
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" dark (runs, truncation_value, y, x) uint16 dask.array<chunksize=(1, 1, 1200, 1920), meta=np.ndarray>\n",
|
|
" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
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"Attributes: (12/100)\n",
|
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" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
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" absorption_imaging_flag: True\n",
|
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" backup_data: True\n",
|
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" blink_off_time: nan\n",
|
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" blink_on_time: nan\n",
|
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" ... ...\n",
|
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" z_offset: 0.195\n",
|
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" z_offset_img: 0.195\n",
|
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" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
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" scanAxis: ['runs' 'truncation_value']\n",
|
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" scanAxisLength: [55. 55.]"
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]
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},
|
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"execution_count": 7,
|
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"metadata": {},
|
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"output_type": "execute_result"
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}
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],
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"source": [
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"dataSet"
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]
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},
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
|
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"source": [
|
|
"## Use .load() method to calculate once \n",
|
|
"\n",
|
|
"We can call the .load() method to let the computer calculate and load the data into RAM."
|
|
]
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},
|
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{
|
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"cell_type": "code",
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"execution_count": 8,
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"metadata": {},
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"outputs": [
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|
|
".xr-index-preview {\n",
|
|
" grid-column: 2 / 5;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name,\n",
|
|
".xr-var-dims,\n",
|
|
".xr-var-dtype,\n",
|
|
".xr-preview,\n",
|
|
".xr-attrs dt {\n",
|
|
" white-space: nowrap;\n",
|
|
" overflow: hidden;\n",
|
|
" text-overflow: ellipsis;\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name:hover,\n",
|
|
".xr-var-dims:hover,\n",
|
|
".xr-var-dtype:hover,\n",
|
|
".xr-attrs dt:hover {\n",
|
|
" overflow: visible;\n",
|
|
" width: auto;\n",
|
|
" z-index: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" display: none;\n",
|
|
" background-color: var(--xr-background-color) !important;\n",
|
|
" padding-bottom: 5px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
|
|
".xr-var-data-in:checked ~ .xr-var-data,\n",
|
|
".xr-index-data-in:checked ~ .xr-index-data {\n",
|
|
" display: block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-data > table {\n",
|
|
" float: right;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name span,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-name div,\n",
|
|
".xr-index-data,\n",
|
|
".xr-attrs {\n",
|
|
" padding-left: 25px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs,\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
"dl.xr-attrs {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 125px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt,\n",
|
|
".xr-attrs dd {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" float: left;\n",
|
|
" padding-right: 10px;\n",
|
|
" width: auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt {\n",
|
|
" font-weight: normal;\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt:hover span {\n",
|
|
" display: inline-block;\n",
|
|
" background: var(--xr-background-color);\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".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'><xarray.Dataset>\n",
|
|
"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Data variables:\n",
|
|
" atoms (runs, truncation_value, y, x) uint16 99 100 ... 126 129\n",
|
|
" background (runs, truncation_value, y, x) uint16 103 100 ... 122 124\n",
|
|
" dark (runs, truncation_value, y, x) uint16 51 52 52 ... 49 50\n",
|
|
" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
|
"Attributes: (12/100)\n",
|
|
" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
|
" absorption_imaging_flag: True\n",
|
|
" backup_data: True\n",
|
|
" blink_off_time: nan\n",
|
|
" blink_on_time: nan\n",
|
|
" ... ...\n",
|
|
" z_offset: 0.195\n",
|
|
" z_offset_img: 0.195\n",
|
|
" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
|
" scanAxis: ['runs' 'truncation_value']\n",
|
|
" scanAxisLength: [55. 55.]</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-2420be20-0e49-46e7-b6b7-9612c548591a' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-2420be20-0e49-46e7-b6b7-9612c548591a' class='xr-section-summary' title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span class='xr-has-index'>runs</span>: 5</li><li><span class='xr-has-index'>truncation_value</span>: 11</li><li><span>y</span>: 1200</li><li><span>x</span>: 1920</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-05667ea5-377d-4ca7-95ea-47f7f92ed4b4' class='xr-section-summary-in' type='checkbox' checked><label for='section-05667ea5-377d-4ca7-95ea-47f7f92ed4b4' class='xr-section-summary' >Coordinates: <span>(2)</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'>runs</span></div><div class='xr-var-dims'>(runs)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 1.0 2.0 3.0 4.0</div><input id='attrs-75429d10-4f16-4718-b257-a13fec7b41a7' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-75429d10-4f16-4718-b257-a13fec7b41a7' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-30fde803-edcf-4c08-8dcc-017e5bbf9d35' class='xr-var-data-in' type='checkbox'><label for='data-30fde803-edcf-4c08-8dcc-017e5bbf9d35' 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., 1., 2., 3., 4.])</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>truncation_value</span></div><div class='xr-var-dims'>(truncation_value)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.8 0.83 0.85 ... 0.97 0.99 1.0</div><input id='attrs-bc6e4dbb-2219-4f6d-b869-ebec49ed0657' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-bc6e4dbb-2219-4f6d-b869-ebec49ed0657' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-217f38f2-5046-4398-903a-a7ce8d65bb4c' class='xr-var-data-in' type='checkbox'><label for='data-217f38f2-5046-4398-903a-a7ce8d65bb4c' 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([0.8 , 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1. ])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-53e873ac-4631-44c4-ac39-54dfd0c39022' class='xr-section-summary-in' type='checkbox' checked><label for='section-53e873ac-4631-44c4-ac39-54dfd0c39022' 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>atoms</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>99 100 102 87 ... 130 125 126 129</div><input id='attrs-7b86fa01-ecc3-4bc8-8750-409e2ac4c314' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-7b86fa01-ecc3-4bc8-8750-409e2ac4c314' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e1bd222c-c782-4d9a-a79d-83c5930d889a' class='xr-var-data-in' type='checkbox'><label for='data-e1bd222c-c782-4d9a-a79d-83c5930d889a' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[ 99, 100, 102, ..., 163, 153, 147],\n",
|
|
" [100, 106, 99, ..., 149, 148, 146],\n",
|
|
" [ 94, 95, 96, ..., 139, 144, 148],\n",
|
|
" ...,\n",
|
|
" [ 98, 106, 105, ..., 133, 142, 142],\n",
|
|
" [112, 109, 102, ..., 128, 136, 131],\n",
|
|
" [112, 113, 111, ..., 121, 122, 131]],\n",
|
|
"\n",
|
|
" [[102, 103, 100, ..., 155, 154, 142],\n",
|
|
" [ 97, 100, 101, ..., 146, 146, 156],\n",
|
|
" [ 91, 93, 97, ..., 142, 136, 151],\n",
|
|
" ...,\n",
|
|
" [105, 103, 103, ..., 144, 134, 142],\n",
|
|
" [102, 104, 112, ..., 133, 134, 135],\n",
|
|
" [114, 115, 113, ..., 119, 126, 122]],\n",
|
|
"\n",
|
|
" [[101, 105, 103, ..., 148, 152, 146],\n",
|
|
" [101, 102, 98, ..., 143, 146, 149],\n",
|
|
" [ 97, 98, 98, ..., 139, 137, 146],\n",
|
|
" ...,\n",
|
|
"...\n",
|
|
" ...,\n",
|
|
" [100, 102, 109, ..., 135, 141, 140],\n",
|
|
" [106, 103, 105, ..., 128, 140, 132],\n",
|
|
" [114, 107, 108, ..., 121, 123, 126]],\n",
|
|
"\n",
|
|
" [[101, 102, 101, ..., 153, 153, 146],\n",
|
|
" [101, 103, 100, ..., 148, 143, 149],\n",
|
|
" [ 96, 95, 98, ..., 145, 138, 144],\n",
|
|
" ...,\n",
|
|
" [ 98, 107, 103, ..., 140, 142, 145],\n",
|
|
" [106, 100, 103, ..., 133, 133, 136],\n",
|
|
" [115, 103, 102, ..., 123, 125, 128]],\n",
|
|
"\n",
|
|
" [[103, 100, 102, ..., 154, 147, 153],\n",
|
|
" [ 96, 103, 97, ..., 150, 150, 152],\n",
|
|
" [ 96, 100, 96, ..., 141, 142, 144],\n",
|
|
" ...,\n",
|
|
" [101, 102, 101, ..., 139, 142, 140],\n",
|
|
" [105, 105, 98, ..., 132, 135, 131],\n",
|
|
" [109, 111, 107, ..., 125, 126, 129]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>background</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>103 100 101 92 ... 130 122 122 124</div><input id='attrs-823bca53-8d32-4dab-a39a-4a32b9f5d5ac' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-823bca53-8d32-4dab-a39a-4a32b9f5d5ac' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-1281a183-1342-49cc-9615-c826259e44ed' class='xr-var-data-in' type='checkbox'><label for='data-1281a183-1342-49cc-9615-c826259e44ed' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[103, 100, 101, ..., 161, 147, 146],\n",
|
|
" [101, 96, 97, ..., 146, 144, 146],\n",
|
|
" [ 92, 95, 96, ..., 143, 134, 149],\n",
|
|
" ...,\n",
|
|
" [104, 103, 107, ..., 139, 142, 137],\n",
|
|
" [104, 105, 109, ..., 128, 133, 130],\n",
|
|
" [111, 111, 107, ..., 118, 120, 123]],\n",
|
|
"\n",
|
|
" [[ 96, 100, 99, ..., 155, 149, 139],\n",
|
|
" [ 94, 101, 100, ..., 149, 143, 151],\n",
|
|
" [ 94, 90, 97, ..., 140, 143, 139],\n",
|
|
" ...,\n",
|
|
" [103, 105, 103, ..., 126, 139, 144],\n",
|
|
" [104, 111, 105, ..., 131, 136, 134],\n",
|
|
" [111, 112, 104, ..., 121, 126, 137]],\n",
|
|
"\n",
|
|
" [[101, 99, 107, ..., 154, 146, 151],\n",
|
|
" [ 97, 101, 100, ..., 148, 148, 145],\n",
|
|
" [ 87, 102, 100, ..., 145, 133, 140],\n",
|
|
" ...,\n",
|
|
"...\n",
|
|
" ...,\n",
|
|
" [105, 100, 99, ..., 132, 142, 137],\n",
|
|
" [ 96, 104, 102, ..., 133, 135, 133],\n",
|
|
" [110, 109, 103, ..., 123, 122, 119]],\n",
|
|
"\n",
|
|
" [[101, 102, 101, ..., 156, 154, 149],\n",
|
|
" [ 95, 99, 99, ..., 140, 146, 153],\n",
|
|
" [ 91, 103, 97, ..., 142, 140, 147],\n",
|
|
" ...,\n",
|
|
" [ 98, 106, 106, ..., 132, 139, 147],\n",
|
|
" [102, 110, 108, ..., 127, 130, 131],\n",
|
|
" [110, 109, 106, ..., 127, 125, 127]],\n",
|
|
"\n",
|
|
" [[103, 106, 105, ..., 146, 146, 147],\n",
|
|
" [ 99, 103, 102, ..., 152, 142, 152],\n",
|
|
" [ 97, 100, 92, ..., 143, 138, 156],\n",
|
|
" ...,\n",
|
|
" [104, 108, 105, ..., 142, 141, 139],\n",
|
|
" [107, 104, 104, ..., 131, 137, 128],\n",
|
|
" [110, 109, 107, ..., 122, 122, 124]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>dark</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>51 52 52 51 51 ... 52 50 53 49 50</div><input id='attrs-beba7537-defa-4f09-8991-4342d67faa72' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-beba7537-defa-4f09-8991-4342d67faa72' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-f236731b-d74c-4849-a692-8b3ac2266f63' class='xr-var-data-in' type='checkbox'><label for='data-f236731b-d74c-4849-a692-8b3ac2266f63' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[51, 52, 52, ..., 50, 51, 51],\n",
|
|
" [50, 50, 51, ..., 51, 51, 49],\n",
|
|
" [51, 51, 50, ..., 50, 50, 49],\n",
|
|
" ...,\n",
|
|
" [50, 51, 50, ..., 50, 50, 49],\n",
|
|
" [50, 50, 49, ..., 50, 50, 51],\n",
|
|
" [51, 50, 50, ..., 50, 50, 51]],\n",
|
|
"\n",
|
|
" [[50, 52, 51, ..., 50, 50, 49],\n",
|
|
" [51, 50, 50, ..., 50, 50, 50],\n",
|
|
" [50, 51, 49, ..., 50, 50, 51],\n",
|
|
" ...,\n",
|
|
" [51, 50, 50, ..., 52, 50, 51],\n",
|
|
" [51, 50, 51, ..., 50, 52, 51],\n",
|
|
" [51, 52, 51, ..., 51, 50, 50]],\n",
|
|
"\n",
|
|
" [[51, 51, 52, ..., 51, 51, 50],\n",
|
|
" [50, 50, 51, ..., 51, 51, 51],\n",
|
|
" [50, 50, 50, ..., 50, 50, 50],\n",
|
|
" ...,\n",
|
|
"...\n",
|
|
" ...,\n",
|
|
" [51, 50, 51, ..., 51, 51, 51],\n",
|
|
" [50, 49, 50, ..., 49, 51, 51],\n",
|
|
" [50, 51, 50, ..., 50, 49, 51]],\n",
|
|
"\n",
|
|
" [[50, 50, 50, ..., 51, 50, 51],\n",
|
|
" [51, 50, 51, ..., 51, 50, 49],\n",
|
|
" [52, 49, 50, ..., 52, 51, 51],\n",
|
|
" ...,\n",
|
|
" [50, 50, 50, ..., 49, 50, 49],\n",
|
|
" [50, 49, 51, ..., 51, 50, 51],\n",
|
|
" [52, 51, 52, ..., 50, 51, 51]],\n",
|
|
"\n",
|
|
" [[50, 51, 49, ..., 50, 51, 51],\n",
|
|
" [51, 52, 51, ..., 51, 51, 50],\n",
|
|
" [52, 51, 51, ..., 49, 51, 51],\n",
|
|
" ...,\n",
|
|
" [52, 50, 51, ..., 52, 50, 51],\n",
|
|
" [50, 51, 50, ..., 51, 50, 50],\n",
|
|
" [50, 51, 51, ..., 53, 49, 50]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>shotNum</span></div><div class='xr-var-dims'>(runs, truncation_value)</div><div class='xr-var-dtype'><U2</div><div class='xr-var-preview xr-preview'>'00' '01' '02' ... '52' '53' '54'</div><input id='attrs-a467cb54-569e-4ea8-aa0a-4387c2024054' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-a467cb54-569e-4ea8-aa0a-4387c2024054' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-d92eb643-4479-4ec1-a425-c19bed75ab07' class='xr-var-data-in' type='checkbox'><label for='data-d92eb643-4479-4ec1-a425-c19bed75ab07' 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([['00', '01', '02', '03', '04', '05', '06', '07', '08', '09', '10'],\n",
|
|
" ['11', '12', '13', '14', '15', '16', '17', '18', '19', '20', '21'],\n",
|
|
" ['22', '23', '24', '25', '26', '27', '28', '29', '30', '31', '32'],\n",
|
|
" ['33', '34', '35', '36', '37', '38', '39', '40', '41', '42', '43'],\n",
|
|
" ['44', '45', '46', '47', '48', '49', '50', '51', '52', '53', '54']],\n",
|
|
" dtype='<U2')</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-2f2854ad-0888-41be-a0f5-040d3db31856' class='xr-section-summary-in' type='checkbox' ><label for='section-2f2854ad-0888-41be-a0f5-040d3db31856' class='xr-section-summary' >Indexes: <span>(2)</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>runs</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-4f9e9c70-7721-4315-b917-7dffdff62326' class='xr-index-data-in' type='checkbox'/><label for='index-4f9e9c70-7721-4315-b917-7dffdff62326' 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, 1.0, 2.0, 3.0, 4.0], dtype='float64', name='runs'))</pre></div></li><li class='xr-var-item'><div class='xr-index-name'><div>truncation_value</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-4d3a272d-3034-4b1b-8cf6-5d6cf23a0175' class='xr-index-data-in' type='checkbox'/><label for='index-4d3a272d-3034-4b1b-8cf6-5d6cf23a0175' 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([0.8, 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1.0], dtype='float64', name='truncation_value'))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-9265e595-965f-4937-88c9-933d2b9d058b' class='xr-section-summary-in' type='checkbox' ><label for='section-9265e595-965f-4937-88c9-933d2b9d058b' class='xr-section-summary' >Attributes: <span>(100)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>TOF_free :</span></dt><dd>0.02</dd><dt><span>abs_img_freq :</span></dt><dd>110.866</dd><dt><span>absorption_imaging_flag :</span></dt><dd>True</dd><dt><span>backup_data :</span></dt><dd>True</dd><dt><span>blink_off_time :</span></dt><dd>nan</dd><dt><span>blink_on_time :</span></dt><dd>nan</dd><dt><span>c_duration :</span></dt><dd>0.2</dd><dt><span>cmot_final_current :</span></dt><dd>0.65</dd><dt><span>cmot_hold :</span></dt><dd>0.06</dd><dt><span>cmot_initial_current :</span></dt><dd>0.18</dd><dt><span>compX_current :</span></dt><dd>0.005</dd><dt><span>compX_current_sg :</span></dt><dd>0</dd><dt><span>compX_final_current :</span></dt><dd>0.002</dd><dt><span>compX_initial_current :</span></dt><dd>0.005</dd><dt><span>compY_current :</span></dt><dd>0</dd><dt><span>compY_current_sg :</span></dt><dd>0</dd><dt><span>compY_final_current :</span></dt><dd>0</dd><dt><span>compY_initial_current :</span></dt><dd>0</dd><dt><span>compZ_current :</span></dt><dd>0</dd><dt><span>compZ_current_sg :</span></dt><dd>0.195</dd><dt><span>compZ_final_current :</span></dt><dd>0.287</dd><dt><span>compZ_initial_current :</span></dt><dd>0</dd><dt><span>default_camera :</span></dt><dd>0</dd><dt><span>evap_1_final_pow_1 :</span></dt><dd>4.8</dd><dt><span>evap_1_final_pow_2 :</span></dt><dd>2.2</dd><dt><span>evap_1_final_pow_3 :</span></dt><dd>1.2</dd><dt><span>evap_1_final_pow_4 :</span></dt><dd>0.526</dd><dt><span>evap_1_ramp_duration_1 :</span></dt><dd>0.15</dd><dt><span>evap_1_ramp_duration_2 :</span></dt><dd>0.3</dd><dt><span>evap_1_ramp_duration_3 :</span></dt><dd>0.2</dd><dt><span>evap_1_ramp_duration_4 :</span></dt><dd>0.5</dd><dt><span>evap_1_start_pow_1 :</span></dt><dd>7</dd><dt><span>evap_1_start_pow_2 :</span></dt><dd>4.8</dd><dt><span>evap_1_start_pow_3 :</span></dt><dd>2.2</dd><dt><span>evap_1_start_pow_4 :</span></dt><dd>1.2</dd><dt><span>evap_2_final_pow_1 :</span></dt><dd>0.35</dd><dt><span>evap_2_ramp_duration_1 :</span></dt><dd>0.5</dd><dt><span>evap_2_start_pow_1 :</span></dt><dd>0.526</dd><dt><span>evap_3_arm_1_final_pow :</span></dt><dd>0.037</dd><dt><span>evap_3_arm_1_start_pow :</span></dt><dd>0.35</dd><dt><span>evap_3_arm_2_final_pow :</span></dt><dd>0.09</dd><dt><span>evap_3_arm_2_start_pow :</span></dt><dd>5</dd><dt><span>evap_3_ramp_duration :</span></dt><dd>1</dd><dt><span>evap_3_rate_constant_1 :</span></dt><dd>0.37</dd><dt><span>evap_3_rate_constant_2 :</span></dt><dd>0.71</dd><dt><span>evap_4_arm_1_final_pow :</span></dt><dd>0.085</dd><dt><span>evap_4_arm_1_start_pow :</span></dt><dd>0.037</dd><dt><span>evap_ramp_4_duration :</span></dt><dd>0.1</dd><dt><span>final_amp :</span></dt><dd>0.00018</dd><dt><span>final_freq :</span></dt><dd>104</dd><dt><span>gradCoil_current :</span></dt><dd>0.18</dd><dt><span>gradCoil_current_sg :</span></dt><dd>0</dd><dt><span>imaging_method :</span></dt><dd>in_situ_absorption</dd><dt><span>imaging_pulse_duration :</span></dt><dd>2.5e-05</dd><dt><span>imaging_wavelength :</span></dt><dd>4.21291e-07</dd><dt><span>initial_amp :</span></dt><dd>0.62</dd><dt><span>initial_freq :</span></dt><dd>101.9</dd><dt><span>mod_depth_1_fin :</span></dt><dd>0.5</dd><dt><span>mod_depth_1_ini :</span></dt><dd>1</dd><dt><span>mod_depth_2_fin :</span></dt><dd>0.2</dd><dt><span>mod_depth_2_ini :</span></dt><dd>0.5</dd><dt><span>mod_depth_3_fin :</span></dt><dd>0.15</dd><dt><span>mod_depth_3_ini :</span></dt><dd>0.2</dd><dt><span>mod_depth_4_fin :</span></dt><dd>0</dd><dt><span>mod_depth_4_ini :</span></dt><dd>0.15</dd><dt><span>mod_depth_ini :</span></dt><dd>1</dd><dt><span>mod_depth_on_final :</span></dt><dd>0.35</dd><dt><span>mod_depth_on_initial :</span></dt><dd>0</dd><dt><span>mot_3d_amp :</span></dt><dd>0.62</dd><dt><span>mot_3d_camera_exposure_time :</span></dt><dd>0.002</dd><dt><span>mot_3d_camera_trigger_duration :</span></dt><dd>0.00025</dd><dt><span>mot_3d_freq :</span></dt><dd>101.9</dd><dt><span>mot_load_duration :</span></dt><dd>2</dd><dt><span>odt_axis_camera_trigger_duration :</span></dt><dd>0.002</dd><dt><span>odt_hold_time_1 :</span></dt><dd>0.01</dd><dt><span>odt_hold_time_2 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_3 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_4 :</span></dt><dd>1</dd><dt><span>pow_arm_1 :</span></dt><dd>7</dd><dt><span>pow_arm_2 :</span></dt><dd>0</dd><dt><span>pow_fin_arm_2 :</span></dt><dd>5</dd><dt><span>pow_ini_arm_2 :</span></dt><dd>0</dd><dt><span>pulse_delay :</span></dt><dd>8e-05</dd><dt><span>push_amp :</span></dt><dd>0.16</dd><dt><span>push_freq :</span></dt><dd>102.6</dd><dt><span>ramp_duration :</span></dt><dd>1</dd><dt><span>save_results :</span></dt><dd>False</dd><dt><span>stern_gerlach_duration :</span></dt><dd>0.001</dd><dt><span>wait_after_2dmot_off :</span></dt><dd>0</dd><dt><span>wait_time_between_images :</span></dt><dd>0.22</dd><dt><span>x_offset :</span></dt><dd>0</dd><dt><span>x_offset_img :</span></dt><dd>0</dd><dt><span>y_offset :</span></dt><dd>0</dd><dt><span>y_offset_img :</span></dt><dd>0</dd><dt><span>z_offset :</span></dt><dd>0.195</dd><dt><span>z_offset_img :</span></dt><dd>0.195</dd><dt><span>truncation_value :</span></dt><dd>[0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85\n",
|
|
" 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91\n",
|
|
" 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97\n",
|
|
" 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. ]</dd><dt><span>runs :</span></dt><dd>[0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 2. 2.\n",
|
|
" 2. 2. 2. 2. 2. 2. 2. 2. 2. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 4. 4. 4. 4.\n",
|
|
" 4. 4. 4. 4. 4. 4. 4.]</dd><dt><span>scanAxis :</span></dt><dd>['runs' 'truncation_value']</dd><dt><span>scanAxisLength :</span></dt><dd>[55. 55.]</dd></dl></div></li></ul></div></div>"
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],
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"text/plain": [
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"<xarray.Dataset>\n",
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"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
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"Coordinates:\n",
|
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" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
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" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
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"Dimensions without coordinates: y, x\n",
|
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"Data variables:\n",
|
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" atoms (runs, truncation_value, y, x) uint16 99 100 ... 126 129\n",
|
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" background (runs, truncation_value, y, x) uint16 103 100 ... 122 124\n",
|
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" dark (runs, truncation_value, y, x) uint16 51 52 52 ... 49 50\n",
|
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" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
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"Attributes: (12/100)\n",
|
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" TOF_free: 0.02\n",
|
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" abs_img_freq: 110.866\n",
|
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" absorption_imaging_flag: True\n",
|
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" backup_data: True\n",
|
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" blink_off_time: nan\n",
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" blink_on_time: nan\n",
|
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" ... ...\n",
|
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" z_offset: 0.195\n",
|
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" z_offset_img: 0.195\n",
|
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" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
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" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
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" scanAxis: ['runs' 'truncation_value']\n",
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" scanAxisLength: [55. 55.]"
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]
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},
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"execution_count": 8,
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"metadata": {},
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"output_type": "execute_result"
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}
|
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],
|
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"source": [
|
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"dataSet.load()"
|
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]
|
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},
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{
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"attachments": {},
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"cell_type": "markdown",
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"metadata": {},
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"source": [
|
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"We now check what in dataSet again."
|
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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": 9,
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"metadata": {},
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"outputs": [
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".xr-section-details {\n",
|
|
" display: none;\n",
|
|
" grid-column: 1 / -1;\n",
|
|
" margin-bottom: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:checked ~ .xr-section-details {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-wrap {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 20px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-wrap > label {\n",
|
|
" grid-column: 1;\n",
|
|
" vertical-align: top;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-preview {\n",
|
|
" color: var(--xr-font-color3);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-preview,\n",
|
|
".xr-array-data {\n",
|
|
" padding: 0 5px !important;\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-data,\n",
|
|
".xr-array-in:checked ~ .xr-array-preview {\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-in:checked ~ .xr-array-data,\n",
|
|
".xr-array-preview {\n",
|
|
" display: inline-block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list {\n",
|
|
" display: inline-block !important;\n",
|
|
" list-style: none;\n",
|
|
" padding: 0 !important;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li {\n",
|
|
" display: inline-block;\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:before {\n",
|
|
" content: '(';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:after {\n",
|
|
" content: ')';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li:not(:last-child):after {\n",
|
|
" content: ',';\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-has-index {\n",
|
|
" font-weight: bold;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list,\n",
|
|
".xr-var-item {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > div,\n",
|
|
".xr-var-item label,\n",
|
|
".xr-var-item > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-even);\n",
|
|
" margin-bottom: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > .xr-var-name:hover span {\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list > li:nth-child(odd) > div,\n",
|
|
".xr-var-list > li:nth-child(odd) > label,\n",
|
|
".xr-var-list > li:nth-child(odd) > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-odd);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name {\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dims {\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dtype {\n",
|
|
" grid-column: 3;\n",
|
|
" text-align: right;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-preview {\n",
|
|
" grid-column: 4;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-index-preview {\n",
|
|
" grid-column: 2 / 5;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name,\n",
|
|
".xr-var-dims,\n",
|
|
".xr-var-dtype,\n",
|
|
".xr-preview,\n",
|
|
".xr-attrs dt {\n",
|
|
" white-space: nowrap;\n",
|
|
" overflow: hidden;\n",
|
|
" text-overflow: ellipsis;\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name:hover,\n",
|
|
".xr-var-dims:hover,\n",
|
|
".xr-var-dtype:hover,\n",
|
|
".xr-attrs dt:hover {\n",
|
|
" overflow: visible;\n",
|
|
" width: auto;\n",
|
|
" z-index: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" display: none;\n",
|
|
" background-color: var(--xr-background-color) !important;\n",
|
|
" padding-bottom: 5px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
|
|
".xr-var-data-in:checked ~ .xr-var-data,\n",
|
|
".xr-index-data-in:checked ~ .xr-index-data {\n",
|
|
" display: block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-data > table {\n",
|
|
" float: right;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name span,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-name div,\n",
|
|
".xr-index-data,\n",
|
|
".xr-attrs {\n",
|
|
" padding-left: 25px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs,\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
"dl.xr-attrs {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 125px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt,\n",
|
|
".xr-attrs dd {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" float: left;\n",
|
|
" padding-right: 10px;\n",
|
|
" width: auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt {\n",
|
|
" font-weight: normal;\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt:hover span {\n",
|
|
" display: inline-block;\n",
|
|
" background: var(--xr-background-color);\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".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'><xarray.Dataset>\n",
|
|
"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Data variables:\n",
|
|
" atoms (runs, truncation_value, y, x) uint16 99 100 ... 126 129\n",
|
|
" background (runs, truncation_value, y, x) uint16 103 100 ... 122 124\n",
|
|
" dark (runs, truncation_value, y, x) uint16 51 52 52 ... 49 50\n",
|
|
" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
|
"Attributes: (12/100)\n",
|
|
" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
|
" absorption_imaging_flag: True\n",
|
|
" backup_data: True\n",
|
|
" blink_off_time: nan\n",
|
|
" blink_on_time: nan\n",
|
|
" ... ...\n",
|
|
" z_offset: 0.195\n",
|
|
" z_offset_img: 0.195\n",
|
|
" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
|
" scanAxis: ['runs' 'truncation_value']\n",
|
|
" scanAxisLength: [55. 55.]</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-2441a1c6-5b0d-4902-97ad-faf7e509791d' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-2441a1c6-5b0d-4902-97ad-faf7e509791d' class='xr-section-summary' title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span class='xr-has-index'>runs</span>: 5</li><li><span class='xr-has-index'>truncation_value</span>: 11</li><li><span>y</span>: 1200</li><li><span>x</span>: 1920</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-3df639b1-2be4-4200-b264-45e4fa3fed44' class='xr-section-summary-in' type='checkbox' checked><label for='section-3df639b1-2be4-4200-b264-45e4fa3fed44' class='xr-section-summary' >Coordinates: <span>(2)</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'>runs</span></div><div class='xr-var-dims'>(runs)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 1.0 2.0 3.0 4.0</div><input id='attrs-649c70bb-91ed-45dc-9cd5-a44bfa43b261' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-649c70bb-91ed-45dc-9cd5-a44bfa43b261' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-602e179f-2fcf-4ad6-b1d1-826bc4ad06d8' class='xr-var-data-in' type='checkbox'><label for='data-602e179f-2fcf-4ad6-b1d1-826bc4ad06d8' 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., 1., 2., 3., 4.])</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>truncation_value</span></div><div class='xr-var-dims'>(truncation_value)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.8 0.83 0.85 ... 0.97 0.99 1.0</div><input id='attrs-76b3d9fd-2e0e-4fc5-906f-1e440c523894' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-76b3d9fd-2e0e-4fc5-906f-1e440c523894' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-027dbf1c-1d30-4926-8352-e23103020bce' class='xr-var-data-in' type='checkbox'><label for='data-027dbf1c-1d30-4926-8352-e23103020bce' 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([0.8 , 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1. ])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-f38f8f94-a576-4656-abe7-7f199b834f51' class='xr-section-summary-in' type='checkbox' checked><label for='section-f38f8f94-a576-4656-abe7-7f199b834f51' 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>atoms</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>99 100 102 87 ... 130 125 126 129</div><input id='attrs-e8c90fb2-66fc-4cdb-9b90-da929f70fc26' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e8c90fb2-66fc-4cdb-9b90-da929f70fc26' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ba64f770-c9e7-43e5-b231-b5b750332d74' class='xr-var-data-in' type='checkbox'><label for='data-ba64f770-c9e7-43e5-b231-b5b750332d74' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[ 99, 100, 102, ..., 163, 153, 147],\n",
|
|
" [100, 106, 99, ..., 149, 148, 146],\n",
|
|
" [ 94, 95, 96, ..., 139, 144, 148],\n",
|
|
" ...,\n",
|
|
" [ 98, 106, 105, ..., 133, 142, 142],\n",
|
|
" [112, 109, 102, ..., 128, 136, 131],\n",
|
|
" [112, 113, 111, ..., 121, 122, 131]],\n",
|
|
"\n",
|
|
" [[102, 103, 100, ..., 155, 154, 142],\n",
|
|
" [ 97, 100, 101, ..., 146, 146, 156],\n",
|
|
" [ 91, 93, 97, ..., 142, 136, 151],\n",
|
|
" ...,\n",
|
|
" [105, 103, 103, ..., 144, 134, 142],\n",
|
|
" [102, 104, 112, ..., 133, 134, 135],\n",
|
|
" [114, 115, 113, ..., 119, 126, 122]],\n",
|
|
"\n",
|
|
" [[101, 105, 103, ..., 148, 152, 146],\n",
|
|
" [101, 102, 98, ..., 143, 146, 149],\n",
|
|
" [ 97, 98, 98, ..., 139, 137, 146],\n",
|
|
" ...,\n",
|
|
"...\n",
|
|
" ...,\n",
|
|
" [100, 102, 109, ..., 135, 141, 140],\n",
|
|
" [106, 103, 105, ..., 128, 140, 132],\n",
|
|
" [114, 107, 108, ..., 121, 123, 126]],\n",
|
|
"\n",
|
|
" [[101, 102, 101, ..., 153, 153, 146],\n",
|
|
" [101, 103, 100, ..., 148, 143, 149],\n",
|
|
" [ 96, 95, 98, ..., 145, 138, 144],\n",
|
|
" ...,\n",
|
|
" [ 98, 107, 103, ..., 140, 142, 145],\n",
|
|
" [106, 100, 103, ..., 133, 133, 136],\n",
|
|
" [115, 103, 102, ..., 123, 125, 128]],\n",
|
|
"\n",
|
|
" [[103, 100, 102, ..., 154, 147, 153],\n",
|
|
" [ 96, 103, 97, ..., 150, 150, 152],\n",
|
|
" [ 96, 100, 96, ..., 141, 142, 144],\n",
|
|
" ...,\n",
|
|
" [101, 102, 101, ..., 139, 142, 140],\n",
|
|
" [105, 105, 98, ..., 132, 135, 131],\n",
|
|
" [109, 111, 107, ..., 125, 126, 129]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>background</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>103 100 101 92 ... 130 122 122 124</div><input id='attrs-c065c653-5fa9-48f8-a5e5-56ffaa400440' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-c065c653-5fa9-48f8-a5e5-56ffaa400440' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-baf8a142-fd79-4333-a4de-e3fe74d9cf45' class='xr-var-data-in' type='checkbox'><label for='data-baf8a142-fd79-4333-a4de-e3fe74d9cf45' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[103, 100, 101, ..., 161, 147, 146],\n",
|
|
" [101, 96, 97, ..., 146, 144, 146],\n",
|
|
" [ 92, 95, 96, ..., 143, 134, 149],\n",
|
|
" ...,\n",
|
|
" [104, 103, 107, ..., 139, 142, 137],\n",
|
|
" [104, 105, 109, ..., 128, 133, 130],\n",
|
|
" [111, 111, 107, ..., 118, 120, 123]],\n",
|
|
"\n",
|
|
" [[ 96, 100, 99, ..., 155, 149, 139],\n",
|
|
" [ 94, 101, 100, ..., 149, 143, 151],\n",
|
|
" [ 94, 90, 97, ..., 140, 143, 139],\n",
|
|
" ...,\n",
|
|
" [103, 105, 103, ..., 126, 139, 144],\n",
|
|
" [104, 111, 105, ..., 131, 136, 134],\n",
|
|
" [111, 112, 104, ..., 121, 126, 137]],\n",
|
|
"\n",
|
|
" [[101, 99, 107, ..., 154, 146, 151],\n",
|
|
" [ 97, 101, 100, ..., 148, 148, 145],\n",
|
|
" [ 87, 102, 100, ..., 145, 133, 140],\n",
|
|
" ...,\n",
|
|
"...\n",
|
|
" ...,\n",
|
|
" [105, 100, 99, ..., 132, 142, 137],\n",
|
|
" [ 96, 104, 102, ..., 133, 135, 133],\n",
|
|
" [110, 109, 103, ..., 123, 122, 119]],\n",
|
|
"\n",
|
|
" [[101, 102, 101, ..., 156, 154, 149],\n",
|
|
" [ 95, 99, 99, ..., 140, 146, 153],\n",
|
|
" [ 91, 103, 97, ..., 142, 140, 147],\n",
|
|
" ...,\n",
|
|
" [ 98, 106, 106, ..., 132, 139, 147],\n",
|
|
" [102, 110, 108, ..., 127, 130, 131],\n",
|
|
" [110, 109, 106, ..., 127, 125, 127]],\n",
|
|
"\n",
|
|
" [[103, 106, 105, ..., 146, 146, 147],\n",
|
|
" [ 99, 103, 102, ..., 152, 142, 152],\n",
|
|
" [ 97, 100, 92, ..., 143, 138, 156],\n",
|
|
" ...,\n",
|
|
" [104, 108, 105, ..., 142, 141, 139],\n",
|
|
" [107, 104, 104, ..., 131, 137, 128],\n",
|
|
" [110, 109, 107, ..., 122, 122, 124]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>dark</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>51 52 52 51 51 ... 52 50 53 49 50</div><input id='attrs-91871308-d55f-4b05-a3e6-5f8d6fd3acc0' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-91871308-d55f-4b05-a3e6-5f8d6fd3acc0' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-34b912bf-1086-44ca-890e-528dcef61d77' class='xr-var-data-in' type='checkbox'><label for='data-34b912bf-1086-44ca-890e-528dcef61d77' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><pre>array([[[[51, 52, 52, ..., 50, 51, 51],\n",
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" [50, 50, 51, ..., 51, 51, 49],\n",
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" [51, 51, 50, ..., 50, 50, 49],\n",
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" ...,\n",
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" [50, 51, 50, ..., 50, 50, 49],\n",
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" [50, 50, 49, ..., 50, 50, 51],\n",
|
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" [51, 50, 50, ..., 50, 50, 51]],\n",
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"\n",
|
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" [[50, 52, 51, ..., 50, 50, 49],\n",
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" [51, 50, 50, ..., 50, 50, 50],\n",
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" [50, 51, 49, ..., 50, 50, 51],\n",
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" ...,\n",
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" [51, 50, 50, ..., 52, 50, 51],\n",
|
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" [51, 50, 51, ..., 50, 52, 51],\n",
|
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" [51, 52, 51, ..., 51, 50, 50]],\n",
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"\n",
|
|
" [[51, 51, 52, ..., 51, 51, 50],\n",
|
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" [50, 50, 51, ..., 51, 51, 51],\n",
|
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" [50, 50, 50, ..., 50, 50, 50],\n",
|
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" ...,\n",
|
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"...\n",
|
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" ...,\n",
|
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" [51, 50, 51, ..., 51, 51, 51],\n",
|
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" [50, 49, 50, ..., 49, 51, 51],\n",
|
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" [50, 51, 50, ..., 50, 49, 51]],\n",
|
|
"\n",
|
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" [[50, 50, 50, ..., 51, 50, 51],\n",
|
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" [51, 50, 51, ..., 51, 50, 49],\n",
|
|
" [52, 49, 50, ..., 52, 51, 51],\n",
|
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" ...,\n",
|
|
" [50, 50, 50, ..., 49, 50, 49],\n",
|
|
" [50, 49, 51, ..., 51, 50, 51],\n",
|
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" [52, 51, 52, ..., 50, 51, 51]],\n",
|
|
"\n",
|
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" [[50, 51, 49, ..., 50, 51, 51],\n",
|
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" [51, 52, 51, ..., 51, 51, 50],\n",
|
|
" [52, 51, 51, ..., 49, 51, 51],\n",
|
|
" ...,\n",
|
|
" [52, 50, 51, ..., 52, 50, 51],\n",
|
|
" [50, 51, 50, ..., 51, 50, 50],\n",
|
|
" [50, 51, 51, ..., 53, 49, 50]]]], dtype=uint16)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span>shotNum</span></div><div class='xr-var-dims'>(runs, truncation_value)</div><div class='xr-var-dtype'><U2</div><div class='xr-var-preview xr-preview'>'00' '01' '02' ... '52' '53' '54'</div><input id='attrs-e45d1d16-6f05-4169-a7d9-2b1d7fad09c8' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-e45d1d16-6f05-4169-a7d9-2b1d7fad09c8' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e949eb9f-4c8c-4716-bac7-329d1bdf7ed5' class='xr-var-data-in' type='checkbox'><label for='data-e949eb9f-4c8c-4716-bac7-329d1bdf7ed5' 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([['00', '01', '02', '03', '04', '05', '06', '07', '08', '09', '10'],\n",
|
|
" ['11', '12', '13', '14', '15', '16', '17', '18', '19', '20', '21'],\n",
|
|
" ['22', '23', '24', '25', '26', '27', '28', '29', '30', '31', '32'],\n",
|
|
" ['33', '34', '35', '36', '37', '38', '39', '40', '41', '42', '43'],\n",
|
|
" ['44', '45', '46', '47', '48', '49', '50', '51', '52', '53', '54']],\n",
|
|
" dtype='<U2')</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-f30a3590-e3ed-4fd1-9be2-845fa7463330' class='xr-section-summary-in' type='checkbox' ><label for='section-f30a3590-e3ed-4fd1-9be2-845fa7463330' class='xr-section-summary' >Indexes: <span>(2)</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>runs</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-81d9deae-c6c3-4733-b1b1-3b1994c463a8' class='xr-index-data-in' type='checkbox'/><label for='index-81d9deae-c6c3-4733-b1b1-3b1994c463a8' 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, 1.0, 2.0, 3.0, 4.0], dtype='float64', name='runs'))</pre></div></li><li class='xr-var-item'><div class='xr-index-name'><div>truncation_value</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-7be40e56-beea-4834-9316-bda6690b9288' class='xr-index-data-in' type='checkbox'/><label for='index-7be40e56-beea-4834-9316-bda6690b9288' 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([0.8, 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1.0], dtype='float64', name='truncation_value'))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-c1d2e157-7c83-47c6-a28f-d41040820a57' class='xr-section-summary-in' type='checkbox' ><label for='section-c1d2e157-7c83-47c6-a28f-d41040820a57' class='xr-section-summary' >Attributes: <span>(100)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>TOF_free :</span></dt><dd>0.02</dd><dt><span>abs_img_freq :</span></dt><dd>110.866</dd><dt><span>absorption_imaging_flag :</span></dt><dd>True</dd><dt><span>backup_data :</span></dt><dd>True</dd><dt><span>blink_off_time :</span></dt><dd>nan</dd><dt><span>blink_on_time :</span></dt><dd>nan</dd><dt><span>c_duration :</span></dt><dd>0.2</dd><dt><span>cmot_final_current :</span></dt><dd>0.65</dd><dt><span>cmot_hold :</span></dt><dd>0.06</dd><dt><span>cmot_initial_current :</span></dt><dd>0.18</dd><dt><span>compX_current :</span></dt><dd>0.005</dd><dt><span>compX_current_sg :</span></dt><dd>0</dd><dt><span>compX_final_current :</span></dt><dd>0.002</dd><dt><span>compX_initial_current :</span></dt><dd>0.005</dd><dt><span>compY_current :</span></dt><dd>0</dd><dt><span>compY_current_sg :</span></dt><dd>0</dd><dt><span>compY_final_current :</span></dt><dd>0</dd><dt><span>compY_initial_current :</span></dt><dd>0</dd><dt><span>compZ_current :</span></dt><dd>0</dd><dt><span>compZ_current_sg :</span></dt><dd>0.195</dd><dt><span>compZ_final_current :</span></dt><dd>0.287</dd><dt><span>compZ_initial_current :</span></dt><dd>0</dd><dt><span>default_camera :</span></dt><dd>0</dd><dt><span>evap_1_final_pow_1 :</span></dt><dd>4.8</dd><dt><span>evap_1_final_pow_2 :</span></dt><dd>2.2</dd><dt><span>evap_1_final_pow_3 :</span></dt><dd>1.2</dd><dt><span>evap_1_final_pow_4 :</span></dt><dd>0.526</dd><dt><span>evap_1_ramp_duration_1 :</span></dt><dd>0.15</dd><dt><span>evap_1_ramp_duration_2 :</span></dt><dd>0.3</dd><dt><span>evap_1_ramp_duration_3 :</span></dt><dd>0.2</dd><dt><span>evap_1_ramp_duration_4 :</span></dt><dd>0.5</dd><dt><span>evap_1_start_pow_1 :</span></dt><dd>7</dd><dt><span>evap_1_start_pow_2 :</span></dt><dd>4.8</dd><dt><span>evap_1_start_pow_3 :</span></dt><dd>2.2</dd><dt><span>evap_1_start_pow_4 :</span></dt><dd>1.2</dd><dt><span>evap_2_final_pow_1 :</span></dt><dd>0.35</dd><dt><span>evap_2_ramp_duration_1 :</span></dt><dd>0.5</dd><dt><span>evap_2_start_pow_1 :</span></dt><dd>0.526</dd><dt><span>evap_3_arm_1_final_pow :</span></dt><dd>0.037</dd><dt><span>evap_3_arm_1_start_pow :</span></dt><dd>0.35</dd><dt><span>evap_3_arm_2_final_pow :</span></dt><dd>0.09</dd><dt><span>evap_3_arm_2_start_pow :</span></dt><dd>5</dd><dt><span>evap_3_ramp_duration :</span></dt><dd>1</dd><dt><span>evap_3_rate_constant_1 :</span></dt><dd>0.37</dd><dt><span>evap_3_rate_constant_2 :</span></dt><dd>0.71</dd><dt><span>evap_4_arm_1_final_pow :</span></dt><dd>0.085</dd><dt><span>evap_4_arm_1_start_pow :</span></dt><dd>0.037</dd><dt><span>evap_ramp_4_duration :</span></dt><dd>0.1</dd><dt><span>final_amp :</span></dt><dd>0.00018</dd><dt><span>final_freq :</span></dt><dd>104</dd><dt><span>gradCoil_current :</span></dt><dd>0.18</dd><dt><span>gradCoil_current_sg :</span></dt><dd>0</dd><dt><span>imaging_method :</span></dt><dd>in_situ_absorption</dd><dt><span>imaging_pulse_duration :</span></dt><dd>2.5e-05</dd><dt><span>imaging_wavelength :</span></dt><dd>4.21291e-07</dd><dt><span>initial_amp :</span></dt><dd>0.62</dd><dt><span>initial_freq :</span></dt><dd>101.9</dd><dt><span>mod_depth_1_fin :</span></dt><dd>0.5</dd><dt><span>mod_depth_1_ini :</span></dt><dd>1</dd><dt><span>mod_depth_2_fin :</span></dt><dd>0.2</dd><dt><span>mod_depth_2_ini :</span></dt><dd>0.5</dd><dt><span>mod_depth_3_fin :</span></dt><dd>0.15</dd><dt><span>mod_depth_3_ini :</span></dt><dd>0.2</dd><dt><span>mod_depth_4_fin :</span></dt><dd>0</dd><dt><span>mod_depth_4_ini :</span></dt><dd>0.15</dd><dt><span>mod_depth_ini :</span></dt><dd>1</dd><dt><span>mod_depth_on_final :</span></dt><dd>0.35</dd><dt><span>mod_depth_on_initial :</span></dt><dd>0</dd><dt><span>mot_3d_amp :</span></dt><dd>0.62</dd><dt><span>mot_3d_camera_exposure_time :</span></dt><dd>0.002</dd><dt><span>mot_3d_camera_trigger_duration :</span></dt><dd>0.00025</dd><dt><span>mot_3d_freq :</span></dt><dd>101.9</dd><dt><span>mot_load_duration :</span></dt><dd>2</dd><dt><span>odt_axis_camera_trigger_duration :</span></dt><dd>0.002</dd><dt><span>odt_hold_time_1 :</span></dt><dd>0.01</dd><dt><span>odt_hold_time_2 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_3 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_4 :</span></dt><dd>1</dd><dt><span>pow_arm_1 :</span></dt><dd>7</dd><dt><span>pow_arm_2 :</span></dt><dd>0</dd><dt><span>pow_fin_arm_2 :</span></dt><dd>5</dd><dt><span>pow_ini_arm_2 :</span></dt><dd>0</dd><dt><span>pulse_delay :</span></dt><dd>8e-05</dd><dt><span>push_amp :</span></dt><dd>0.16</dd><dt><span>push_freq :</span></dt><dd>102.6</dd><dt><span>ramp_duration :</span></dt><dd>1</dd><dt><span>save_results :</span></dt><dd>False</dd><dt><span>stern_gerlach_duration :</span></dt><dd>0.001</dd><dt><span>wait_after_2dmot_off :</span></dt><dd>0</dd><dt><span>wait_time_between_images :</span></dt><dd>0.22</dd><dt><span>x_offset :</span></dt><dd>0</dd><dt><span>x_offset_img :</span></dt><dd>0</dd><dt><span>y_offset :</span></dt><dd>0</dd><dt><span>y_offset_img :</span></dt><dd>0</dd><dt><span>z_offset :</span></dt><dd>0.195</dd><dt><span>z_offset_img :</span></dt><dd>0.195</dd><dt><span>truncation_value :</span></dt><dd>[0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85\n",
|
|
" 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91\n",
|
|
" 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97\n",
|
|
" 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. ]</dd><dt><span>runs :</span></dt><dd>[0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 2. 2.\n",
|
|
" 2. 2. 2. 2. 2. 2. 2. 2. 2. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 4. 4. 4. 4.\n",
|
|
" 4. 4. 4. 4. 4. 4. 4.]</dd><dt><span>scanAxis :</span></dt><dd>['runs' 'truncation_value']</dd><dt><span>scanAxisLength :</span></dt><dd>[55. 55.]</dd></dl></div></li></ul></div></div>"
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],
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"text/plain": [
|
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"<xarray.Dataset>\n",
|
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"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Data variables:\n",
|
|
" atoms (runs, truncation_value, y, x) uint16 99 100 ... 126 129\n",
|
|
" background (runs, truncation_value, y, x) uint16 103 100 ... 122 124\n",
|
|
" dark (runs, truncation_value, y, x) uint16 51 52 52 ... 49 50\n",
|
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" shotNum (runs, truncation_value) <U2 '00' '01' '02' ... '53' '54'\n",
|
|
"Attributes: (12/100)\n",
|
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" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
|
" absorption_imaging_flag: True\n",
|
|
" backup_data: True\n",
|
|
" blink_off_time: nan\n",
|
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" blink_on_time: nan\n",
|
|
" ... ...\n",
|
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" z_offset: 0.195\n",
|
|
" z_offset_img: 0.195\n",
|
|
" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
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" scanAxis: ['runs' 'truncation_value']\n",
|
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" scanAxisLength: [55. 55.]"
|
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]
|
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},
|
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"execution_count": 9,
|
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"metadata": {},
|
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"output_type": "execute_result"
|
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}
|
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],
|
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"source": [
|
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"dataSet"
|
|
]
|
|
},
|
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{
|
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"attachments": {},
|
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"cell_type": "markdown",
|
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"metadata": {},
|
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"source": [
|
|
"## Rechunk data to enable parallel computing"
|
|
]
|
|
},
|
|
{
|
|
"attachments": {},
|
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"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"As we discussed before, the parallel computing needs a map. One of the earliest way to produce a map is to divide the data into chunks. And later the calculation taks with different chunks will be sent to different threads and CPUs.\n",
|
|
"\n",
|
|
"Therefore, after we load the data into RAM by calling .laod() method, without any other operation, all the furture calculation will NOT be finished parallelly. Because, there is no chunk!\n",
|
|
"\n",
|
|
"In order to enable the parallel computing, we have to rechunk our data."
|
|
]
|
|
},
|
|
{
|
|
"attachments": {},
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"### Use dataArray.chunk() or dataset.chunk() method to rechunk the data"
|
|
]
|
|
},
|
|
{
|
|
"attachments": {},
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"The dataArray.chunk() method can coerce this array’s data into a dask arrays with the given chunks. For more deltail please have a look of following link\n",
|
|
"\n",
|
|
"https://docs.xarray.dev/en/stable/generated/xarray.DataArray.chunk.html\n",
|
|
"\n",
|
|
"https://docs.xarray.dev/en/stable/generated/xarray.Dataset.chunk.html\n",
|
|
"\n",
|
|
"Here we rechunk the values of atoms in dataSet into a shape of (5, 1, 1200, 1920)"
|
|
]
|
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},
|
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{
|
|
"cell_type": "code",
|
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"execution_count": 10,
|
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"metadata": {},
|
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"outputs": [
|
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{
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"data": {
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" */\n",
|
|
"\n",
|
|
":root {\n",
|
|
" --xr-font-color0: var(--jp-content-font-color0, rgba(0, 0, 0, 1));\n",
|
|
" --xr-font-color2: var(--jp-content-font-color2, rgba(0, 0, 0, 0.54));\n",
|
|
" --xr-font-color3: var(--jp-content-font-color3, rgba(0, 0, 0, 0.38));\n",
|
|
" --xr-border-color: var(--jp-border-color2, #e0e0e0);\n",
|
|
" --xr-disabled-color: var(--jp-layout-color3, #bdbdbd);\n",
|
|
" --xr-background-color: var(--jp-layout-color0, white);\n",
|
|
" --xr-background-color-row-even: var(--jp-layout-color1, white);\n",
|
|
" --xr-background-color-row-odd: var(--jp-layout-color2, #eeeeee);\n",
|
|
"}\n",
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"\n",
|
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"html[theme=dark],\n",
|
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"body[data-theme=dark],\n",
|
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"body.vscode-dark {\n",
|
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" --xr-font-color0: rgba(255, 255, 255, 1);\n",
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" --xr-font-color2: rgba(255, 255, 255, 0.54);\n",
|
|
" --xr-font-color3: rgba(255, 255, 255, 0.38);\n",
|
|
" --xr-border-color: #1F1F1F;\n",
|
|
" --xr-disabled-color: #515151;\n",
|
|
" --xr-background-color: #111111;\n",
|
|
" --xr-background-color-row-even: #111111;\n",
|
|
" --xr-background-color-row-odd: #313131;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-wrap {\n",
|
|
" display: block !important;\n",
|
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" min-width: 300px;\n",
|
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" max-width: 700px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-text-repr-fallback {\n",
|
|
" /* fallback to plain text repr when CSS is not injected (untrusted notebook) */\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-header {\n",
|
|
" padding-top: 6px;\n",
|
|
" padding-bottom: 6px;\n",
|
|
" margin-bottom: 4px;\n",
|
|
" border-bottom: solid 1px var(--xr-border-color);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-header > div,\n",
|
|
".xr-header > ul {\n",
|
|
" display: inline;\n",
|
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" margin-top: 0;\n",
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|
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"\n",
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".xr-obj-type,\n",
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".xr-array-name {\n",
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|
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|
|
"\n",
|
|
".xr-obj-type {\n",
|
|
" color: var(--xr-font-color2);\n",
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".xr-sections {\n",
|
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|
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|
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"\n",
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".xr-section-item {\n",
|
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|
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|
|
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|
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".xr-section-item input {\n",
|
|
" display: none;\n",
|
|
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|
|
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|
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".xr-section-item input + label {\n",
|
|
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|
|
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|
|
"\n",
|
|
".xr-section-item input:enabled + label {\n",
|
|
" cursor: pointer;\n",
|
|
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|
|
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|
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"\n",
|
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".xr-section-item input:enabled + label:hover {\n",
|
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|
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|
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|
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|
|
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|
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|
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|
|
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|
|
"\n",
|
|
".xr-section-summary > span {\n",
|
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|
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|
|
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|
|
"\n",
|
|
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|
|
" color: var(--xr-font-color2);\n",
|
|
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|
|
"\n",
|
|
".xr-section-summary-in + label:before {\n",
|
|
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|
|
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|
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|
|
" width: 15px;\n",
|
|
" text-align: center;\n",
|
|
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|
|
"\n",
|
|
".xr-section-summary-in:disabled + label:before {\n",
|
|
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|
|
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|
|
"\n",
|
|
".xr-section-summary-in:checked + label:before {\n",
|
|
" content: 'â–¼';\n",
|
|
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|
|
"\n",
|
|
".xr-section-summary-in:checked + label > span {\n",
|
|
" display: none;\n",
|
|
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|
|
"\n",
|
|
".xr-section-summary,\n",
|
|
".xr-section-inline-details {\n",
|
|
" padding-top: 4px;\n",
|
|
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|
|
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|
|
"\n",
|
|
".xr-section-inline-details {\n",
|
|
" grid-column: 2 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-details {\n",
|
|
" display: none;\n",
|
|
" grid-column: 1 / -1;\n",
|
|
" margin-bottom: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-section-summary-in:checked ~ .xr-section-details {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-wrap {\n",
|
|
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|
|
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|
|
" grid-template-columns: 20px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-wrap > label {\n",
|
|
" grid-column: 1;\n",
|
|
" vertical-align: top;\n",
|
|
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|
|
"\n",
|
|
".xr-preview {\n",
|
|
" color: var(--xr-font-color3);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-preview,\n",
|
|
".xr-array-data {\n",
|
|
" padding: 0 5px !important;\n",
|
|
" grid-column: 2;\n",
|
|
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|
|
"\n",
|
|
".xr-array-data,\n",
|
|
".xr-array-in:checked ~ .xr-array-preview {\n",
|
|
" display: none;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-array-in:checked ~ .xr-array-data,\n",
|
|
".xr-array-preview {\n",
|
|
" display: inline-block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list {\n",
|
|
" display: inline-block !important;\n",
|
|
" list-style: none;\n",
|
|
" padding: 0 !important;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li {\n",
|
|
" display: inline-block;\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
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|
|
"\n",
|
|
".xr-dim-list:before {\n",
|
|
" content: '(';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:after {\n",
|
|
" content: ')';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li:not(:last-child):after {\n",
|
|
" content: ',';\n",
|
|
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|
|
"}\n",
|
|
"\n",
|
|
".xr-has-index {\n",
|
|
" font-weight: bold;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list,\n",
|
|
".xr-var-item {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > div,\n",
|
|
".xr-var-item label,\n",
|
|
".xr-var-item > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-even);\n",
|
|
" margin-bottom: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > .xr-var-name:hover span {\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list > li:nth-child(odd) > div,\n",
|
|
".xr-var-list > li:nth-child(odd) > label,\n",
|
|
".xr-var-list > li:nth-child(odd) > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-odd);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name {\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dims {\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dtype {\n",
|
|
" grid-column: 3;\n",
|
|
" text-align: right;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-preview {\n",
|
|
" grid-column: 4;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-index-preview {\n",
|
|
" grid-column: 2 / 5;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name,\n",
|
|
".xr-var-dims,\n",
|
|
".xr-var-dtype,\n",
|
|
".xr-preview,\n",
|
|
".xr-attrs dt {\n",
|
|
" white-space: nowrap;\n",
|
|
" overflow: hidden;\n",
|
|
" text-overflow: ellipsis;\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name:hover,\n",
|
|
".xr-var-dims:hover,\n",
|
|
".xr-var-dtype:hover,\n",
|
|
".xr-attrs dt:hover {\n",
|
|
" overflow: visible;\n",
|
|
" width: auto;\n",
|
|
" z-index: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" display: none;\n",
|
|
" background-color: var(--xr-background-color) !important;\n",
|
|
" padding-bottom: 5px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
|
|
".xr-var-data-in:checked ~ .xr-var-data,\n",
|
|
".xr-index-data-in:checked ~ .xr-index-data {\n",
|
|
" display: block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-data > table {\n",
|
|
" float: right;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name span,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-name div,\n",
|
|
".xr-index-data,\n",
|
|
".xr-attrs {\n",
|
|
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|
|
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|
|
"\n",
|
|
".xr-attrs,\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
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|
|
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|
|
"\n",
|
|
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|
|
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|
|
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|
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|
|
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|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt,\n",
|
|
".xr-attrs dd {\n",
|
|
" padding: 0;\n",
|
|
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|
|
" float: left;\n",
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|
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|
|
" width: auto;\n",
|
|
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|
|
"\n",
|
|
".xr-attrs dt {\n",
|
|
" font-weight: normal;\n",
|
|
" grid-column: 1;\n",
|
|
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|
|
"\n",
|
|
".xr-attrs dt:hover span {\n",
|
|
" display: inline-block;\n",
|
|
" background: var(--xr-background-color);\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".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'><xarray.DataArray 'atoms' (runs: 5, truncation_value: 11, y: 1200, x: 1920)>\n",
|
|
"dask.array<xarray-<this-array>, shape=(5, 11, 1200, 1920), dtype=uint16, chunksize=(5, 1, 1200, 1920), chunktype=numpy.ndarray>\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Attributes:\n",
|
|
" IMAGE_SUBCLASS: IMAGE_GRAYSCALE\n",
|
|
" IMAGE_VERSION: 1.2\n",
|
|
" IMAGE_WHITE_IS_ZERO: 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'>'atoms'</div><ul class='xr-dim-list'><li><span class='xr-has-index'>runs</span>: 5</li><li><span class='xr-has-index'>truncation_value</span>: 11</li><li><span>y</span>: 1200</li><li><span>x</span>: 1920</li></ul></div><ul class='xr-sections'><li class='xr-section-item'><div class='xr-array-wrap'><input id='section-5151b7c3-ccb6-470f-aa8a-51a6cffb241c' class='xr-array-in' type='checkbox' checked><label for='section-5151b7c3-ccb6-470f-aa8a-51a6cffb241c' 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>dask.array<chunksize=(5, 1, 1200, 1920), meta=np.ndarray></span></div><div class='xr-array-data'><table>\n",
|
|
" <tr>\n",
|
|
" <td>\n",
|
|
" <table style=\"border-collapse: collapse;\">\n",
|
|
" <thead>\n",
|
|
" <tr>\n",
|
|
" <td> </td>\n",
|
|
" <th> Array </th>\n",
|
|
" <th> Chunk </th>\n",
|
|
" </tr>\n",
|
|
" </thead>\n",
|
|
" <tbody>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Bytes </th>\n",
|
|
" <td> 241.70 MiB </td>\n",
|
|
" <td> 21.97 MiB </td>\n",
|
|
" </tr>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11, 1200, 1920) </td>\n",
|
|
" <td> (5, 1, 1200, 1920) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 11 chunks in 1 graph layer </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
" </tbody>\n",
|
|
" </table>\n",
|
|
" </td>\n",
|
|
" <td>\n",
|
|
" <svg width=\"374\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
|
|
"\n",
|
|
" <!-- Horizontal lines -->\n",
|
|
" <line x1=\"0\" y1=\"0\" x2=\"25\" y2=\"0\" style=\"stroke-width:2\" />\n",
|
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" <line x1=\"0\" y1=\"25\" x2=\"25\" y2=\"25\" style=\"stroke-width:2\" />\n",
|
|
"\n",
|
|
" <!-- Vertical lines -->\n",
|
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" <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"25\" style=\"stroke-width:2\" />\n",
|
|
" <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"25\" style=\"stroke-width:2\" />\n",
|
|
"\n",
|
|
" <!-- Colored Rectangle -->\n",
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|
|
"\n",
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|
" <!-- Text -->\n",
|
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" <text x=\"12.706308\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >5</text>\n",
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" <text x=\"45.412617\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,45.412617,12.706308)\">1</text>\n",
|
|
"\n",
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"\n",
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" <!-- Horizontal lines -->\n",
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" <line x1=\"108\" y1=\"13\" x2=\"108\" y2=\"88\" />\n",
|
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" <line x1=\"109\" y1=\"14\" x2=\"109\" y2=\"89\" style=\"stroke-width:2\" />\n",
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"\n",
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" <!-- Colored Rectangle -->\n",
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" <polygon points=\"95.0,0.0 109.9485979497544,14.948597949754403 109.9485979497544,89.9485979497544 95.0,75.0\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
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|
"\n",
|
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" <!-- Horizontal lines -->\n",
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" <line x1=\"95\" y1=\"0\" x2=\"215\" y2=\"0\" style=\"stroke-width:2\" />\n",
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" <line x1=\"109\" y1=\"14\" x2=\"229\" y2=\"14\" style=\"stroke-width:2\" />\n",
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"\n",
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|
"\n",
|
|
" <!-- Horizontal lines -->\n",
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" <line x1=\"109\" y1=\"14\" x2=\"229\" y2=\"14\" style=\"stroke-width:2\" />\n",
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" <line x1=\"109\" y1=\"89\" x2=\"229\" y2=\"89\" style=\"stroke-width:2\" />\n",
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"\n",
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" <!-- Vertical lines -->\n",
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" <line x1=\"109\" y1=\"14\" x2=\"109\" y2=\"89\" style=\"stroke-width:2\" />\n",
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"\n",
|
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" <!-- Text -->\n",
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|
" <text x=\"169.948598\" y=\"109.948598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1920</text>\n",
|
|
" <text x=\"249.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,249.948598,52.448598)\">1200</text>\n",
|
|
" <text x=\"92.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,92.474299,102.474299)\">11</text>\n",
|
|
"</svg>\n",
|
|
" </td>\n",
|
|
" </tr>\n",
|
|
"</table></div></div></li><li class='xr-section-item'><input id='section-751cdac4-711b-4557-b047-30eff958ddba' class='xr-section-summary-in' type='checkbox' checked><label for='section-751cdac4-711b-4557-b047-30eff958ddba' class='xr-section-summary' >Coordinates: <span>(2)</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'>runs</span></div><div class='xr-var-dims'>(runs)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 1.0 2.0 3.0 4.0</div><input id='attrs-818853ce-a4dc-42d6-a362-e51553eb533b' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-818853ce-a4dc-42d6-a362-e51553eb533b' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-876fa2d9-0b59-42b5-8cf9-4d5c9db8e0aa' class='xr-var-data-in' type='checkbox'><label for='data-876fa2d9-0b59-42b5-8cf9-4d5c9db8e0aa' 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., 1., 2., 3., 4.])</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>truncation_value</span></div><div class='xr-var-dims'>(truncation_value)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.8 0.83 0.85 ... 0.97 0.99 1.0</div><input id='attrs-bc341a4d-151e-4073-8a08-71c71664f744' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-bc341a4d-151e-4073-8a08-71c71664f744' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-76be006f-fb0f-4cbb-8349-f706d8592d49' class='xr-var-data-in' type='checkbox'><label for='data-76be006f-fb0f-4cbb-8349-f706d8592d49' 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([0.8 , 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1. ])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-b262c212-8de0-4ab6-84b2-8d5c5372e816' class='xr-section-summary-in' type='checkbox' ><label for='section-b262c212-8de0-4ab6-84b2-8d5c5372e816' class='xr-section-summary' >Indexes: <span>(2)</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>runs</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-84e0084c-58f2-4318-8961-f984e403cead' class='xr-index-data-in' type='checkbox'/><label for='index-84e0084c-58f2-4318-8961-f984e403cead' 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, 1.0, 2.0, 3.0, 4.0], dtype='float64', name='runs'))</pre></div></li><li class='xr-var-item'><div class='xr-index-name'><div>truncation_value</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-e3b1aa80-bf22-46e0-8283-29e6b134578c' class='xr-index-data-in' type='checkbox'/><label for='index-e3b1aa80-bf22-46e0-8283-29e6b134578c' 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([0.8, 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1.0], dtype='float64', name='truncation_value'))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-ba55e8ca-a4e6-4da6-85a6-a7330a820424' class='xr-section-summary-in' type='checkbox' checked><label for='section-ba55e8ca-a4e6-4da6-85a6-a7330a820424' class='xr-section-summary' >Attributes: <span>(3)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div></li></ul></div></div>"
|
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],
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"text/plain": [
|
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"<xarray.DataArray 'atoms' (runs: 5, truncation_value: 11, y: 1200, x: 1920)>\n",
|
|
"dask.array<xarray-<this-array>, shape=(5, 11, 1200, 1920), dtype=uint16, chunksize=(5, 1, 1200, 1920), chunktype=numpy.ndarray>\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Attributes:\n",
|
|
" IMAGE_SUBCLASS: IMAGE_GRAYSCALE\n",
|
|
" IMAGE_VERSION: 1.2\n",
|
|
" IMAGE_WHITE_IS_ZERO: 0"
|
|
]
|
|
},
|
|
"execution_count": 10,
|
|
"metadata": {},
|
|
"output_type": "execute_result"
|
|
}
|
|
],
|
|
"source": [
|
|
"dataSet.atoms.chunk((5,1,1200,1920))"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"### Use our home-made auto_rechunk function"
|
|
]
|
|
},
|
|
{
|
|
"cell_type": "markdown",
|
|
"metadata": {},
|
|
"source": [
|
|
"We wrote a auto rechunk function to auto rechunk a xarrry DataSet. It works in the most time, but please check."
|
|
]
|
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},
|
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{
|
|
"cell_type": "code",
|
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"execution_count": 11,
|
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"metadata": {},
|
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"outputs": [
|
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{
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"data": {
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"</symbol>\n",
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"</defs>\n",
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"</svg>\n",
|
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"<style>/* CSS stylesheet for displaying xarray objects in jupyterlab.\n",
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" *\n",
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" */\n",
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"\n",
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":root {\n",
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" --xr-font-color0: var(--jp-content-font-color0, rgba(0, 0, 0, 1));\n",
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" --xr-font-color2: var(--jp-content-font-color2, rgba(0, 0, 0, 0.54));\n",
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" --xr-font-color3: var(--jp-content-font-color3, rgba(0, 0, 0, 0.38));\n",
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" --xr-border-color: var(--jp-border-color2, #e0e0e0);\n",
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" --xr-disabled-color: var(--jp-layout-color3, #bdbdbd);\n",
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" --xr-background-color: var(--jp-layout-color0, white);\n",
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" --xr-background-color-row-even: var(--jp-layout-color1, white);\n",
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" --xr-background-color-row-odd: var(--jp-layout-color2, #eeeeee);\n",
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"}\n",
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"\n",
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"html[theme=dark],\n",
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"body[data-theme=dark],\n",
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"body.vscode-dark {\n",
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" --xr-font-color0: rgba(255, 255, 255, 1);\n",
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" --xr-font-color2: rgba(255, 255, 255, 0.54);\n",
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" --xr-font-color3: rgba(255, 255, 255, 0.38);\n",
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" --xr-border-color: #1F1F1F;\n",
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" --xr-disabled-color: #515151;\n",
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" --xr-background-color: #111111;\n",
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" --xr-background-color-row-even: #111111;\n",
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" --xr-background-color-row-odd: #313131;\n",
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"}\n",
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"\n",
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".xr-wrap {\n",
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" display: block !important;\n",
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" min-width: 300px;\n",
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" max-width: 700px;\n",
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"}\n",
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"\n",
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".xr-text-repr-fallback {\n",
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" /* fallback to plain text repr when CSS is not injected (untrusted notebook) */\n",
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" display: none;\n",
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"}\n",
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"\n",
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".xr-header {\n",
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" padding-top: 6px;\n",
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" padding-bottom: 6px;\n",
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" margin-bottom: 4px;\n",
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" border-bottom: solid 1px var(--xr-border-color);\n",
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"}\n",
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"\n",
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".xr-header > div,\n",
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".xr-header > ul {\n",
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" display: inline;\n",
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" margin-top: 0;\n",
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" margin-bottom: 0;\n",
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"}\n",
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"\n",
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".xr-obj-type,\n",
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".xr-array-name {\n",
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" margin-left: 2px;\n",
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" margin-right: 10px;\n",
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"}\n",
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"\n",
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".xr-obj-type {\n",
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" color: var(--xr-font-color2);\n",
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"}\n",
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"\n",
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".xr-sections {\n",
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" padding-left: 0 !important;\n",
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" display: grid;\n",
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" grid-template-columns: 150px auto auto 1fr 20px 20px;\n",
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"}\n",
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"\n",
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".xr-section-item {\n",
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" display: contents;\n",
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"}\n",
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"\n",
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".xr-section-item input {\n",
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" display: none;\n",
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"}\n",
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"\n",
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".xr-section-item input + label {\n",
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" color: var(--xr-disabled-color);\n",
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"}\n",
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"\n",
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".xr-section-item input:enabled + label {\n",
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" cursor: pointer;\n",
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" color: var(--xr-font-color2);\n",
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"}\n",
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"\n",
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".xr-section-item input:enabled + label:hover {\n",
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" color: var(--xr-font-color0);\n",
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"}\n",
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"\n",
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".xr-section-summary {\n",
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" grid-column: 1;\n",
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" color: var(--xr-font-color2);\n",
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" font-weight: 500;\n",
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"}\n",
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"\n",
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".xr-section-summary > span {\n",
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" display: inline-block;\n",
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" padding-left: 0.5em;\n",
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"}\n",
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"\n",
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".xr-section-summary-in:disabled + label {\n",
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" color: var(--xr-font-color2);\n",
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"}\n",
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"\n",
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".xr-section-summary-in + label:before {\n",
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" display: inline-block;\n",
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" content: 'â–º';\n",
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" font-size: 11px;\n",
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" width: 15px;\n",
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" text-align: center;\n",
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"}\n",
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"\n",
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".xr-section-summary-in:disabled + label:before {\n",
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" color: var(--xr-disabled-color);\n",
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"}\n",
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"\n",
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".xr-section-summary-in:checked + label:before {\n",
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" content: 'â–¼';\n",
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"}\n",
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"\n",
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".xr-section-summary-in:checked + label > span {\n",
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" display: none;\n",
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"}\n",
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"\n",
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".xr-section-summary,\n",
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".xr-section-inline-details {\n",
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" padding-top: 4px;\n",
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" padding-bottom: 4px;\n",
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"}\n",
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"\n",
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".xr-section-inline-details {\n",
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" grid-column: 2 / -1;\n",
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"}\n",
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"\n",
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".xr-section-details {\n",
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" display: none;\n",
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" grid-column: 1 / -1;\n",
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" margin-bottom: 5px;\n",
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"}\n",
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"\n",
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".xr-section-summary-in:checked ~ .xr-section-details {\n",
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" display: contents;\n",
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"}\n",
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"\n",
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".xr-array-wrap {\n",
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" grid-column: 1 / -1;\n",
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" display: grid;\n",
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" grid-template-columns: 20px auto;\n",
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"}\n",
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"\n",
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".xr-array-wrap > label {\n",
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" grid-column: 1;\n",
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" vertical-align: top;\n",
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"}\n",
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"\n",
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".xr-preview {\n",
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" color: var(--xr-font-color3);\n",
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"}\n",
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"\n",
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".xr-array-preview,\n",
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".xr-array-data {\n",
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" padding: 0 5px !important;\n",
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" grid-column: 2;\n",
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"}\n",
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"\n",
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".xr-array-data,\n",
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".xr-array-in:checked ~ .xr-array-preview {\n",
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" display: none;\n",
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"}\n",
|
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"\n",
|
|
".xr-array-in:checked ~ .xr-array-data,\n",
|
|
".xr-array-preview {\n",
|
|
" display: inline-block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list {\n",
|
|
" display: inline-block !important;\n",
|
|
" list-style: none;\n",
|
|
" padding: 0 !important;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li {\n",
|
|
" display: inline-block;\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:before {\n",
|
|
" content: '(';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list:after {\n",
|
|
" content: ')';\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-dim-list li:not(:last-child):after {\n",
|
|
" content: ',';\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-has-index {\n",
|
|
" font-weight: bold;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list,\n",
|
|
".xr-var-item {\n",
|
|
" display: contents;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > div,\n",
|
|
".xr-var-item label,\n",
|
|
".xr-var-item > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-even);\n",
|
|
" margin-bottom: 0;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-item > .xr-var-name:hover span {\n",
|
|
" padding-right: 5px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-list > li:nth-child(odd) > div,\n",
|
|
".xr-var-list > li:nth-child(odd) > label,\n",
|
|
".xr-var-list > li:nth-child(odd) > .xr-var-name span {\n",
|
|
" background-color: var(--xr-background-color-row-odd);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name {\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dims {\n",
|
|
" grid-column: 2;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-dtype {\n",
|
|
" grid-column: 3;\n",
|
|
" text-align: right;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-preview {\n",
|
|
" grid-column: 4;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-index-preview {\n",
|
|
" grid-column: 2 / 5;\n",
|
|
" color: var(--xr-font-color2);\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name,\n",
|
|
".xr-var-dims,\n",
|
|
".xr-var-dtype,\n",
|
|
".xr-preview,\n",
|
|
".xr-attrs dt {\n",
|
|
" white-space: nowrap;\n",
|
|
" overflow: hidden;\n",
|
|
" text-overflow: ellipsis;\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name:hover,\n",
|
|
".xr-var-dims:hover,\n",
|
|
".xr-var-dtype:hover,\n",
|
|
".xr-attrs dt:hover {\n",
|
|
" overflow: visible;\n",
|
|
" width: auto;\n",
|
|
" z-index: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" display: none;\n",
|
|
" background-color: var(--xr-background-color) !important;\n",
|
|
" padding-bottom: 5px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
|
|
".xr-var-data-in:checked ~ .xr-var-data,\n",
|
|
".xr-index-data-in:checked ~ .xr-index-data {\n",
|
|
" display: block;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-data > table {\n",
|
|
" float: right;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-var-name span,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-name div,\n",
|
|
".xr-index-data,\n",
|
|
".xr-attrs {\n",
|
|
" padding-left: 25px !important;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs,\n",
|
|
".xr-var-attrs,\n",
|
|
".xr-var-data,\n",
|
|
".xr-index-data {\n",
|
|
" grid-column: 1 / -1;\n",
|
|
"}\n",
|
|
"\n",
|
|
"dl.xr-attrs {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" display: grid;\n",
|
|
" grid-template-columns: 125px auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt,\n",
|
|
".xr-attrs dd {\n",
|
|
" padding: 0;\n",
|
|
" margin: 0;\n",
|
|
" float: left;\n",
|
|
" padding-right: 10px;\n",
|
|
" width: auto;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt {\n",
|
|
" font-weight: normal;\n",
|
|
" grid-column: 1;\n",
|
|
"}\n",
|
|
"\n",
|
|
".xr-attrs dt:hover span {\n",
|
|
" display: inline-block;\n",
|
|
" background: var(--xr-background-color);\n",
|
|
" padding-right: 10px;\n",
|
|
"}\n",
|
|
"\n",
|
|
".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'><xarray.Dataset>\n",
|
|
"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
|
|
"Coordinates:\n",
|
|
" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
|
|
" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
|
|
"Dimensions without coordinates: y, x\n",
|
|
"Data variables:\n",
|
|
" atoms (runs, truncation_value, y, x) uint16 dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray>\n",
|
|
" background (runs, truncation_value, y, x) uint16 dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray>\n",
|
|
" dark (runs, truncation_value, y, x) uint16 dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray>\n",
|
|
" shotNum (runs, truncation_value) <U2 dask.array<chunksize=(5, 11), meta=np.ndarray>\n",
|
|
"Attributes: (12/100)\n",
|
|
" TOF_free: 0.02\n",
|
|
" abs_img_freq: 110.866\n",
|
|
" absorption_imaging_flag: True\n",
|
|
" backup_data: True\n",
|
|
" blink_off_time: nan\n",
|
|
" blink_on_time: nan\n",
|
|
" ... ...\n",
|
|
" z_offset: 0.195\n",
|
|
" z_offset_img: 0.195\n",
|
|
" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
|
|
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
|
|
" scanAxis: ['runs' 'truncation_value']\n",
|
|
" scanAxisLength: [55. 55.]</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-0dd83f68-af5b-419d-b3f8-a5cbc993a7f9' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-0dd83f68-af5b-419d-b3f8-a5cbc993a7f9' class='xr-section-summary' title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span class='xr-has-index'>runs</span>: 5</li><li><span class='xr-has-index'>truncation_value</span>: 11</li><li><span>y</span>: 1200</li><li><span>x</span>: 1920</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-580a2ca0-bdc1-4ffc-acd9-81155b0a9dfc' class='xr-section-summary-in' type='checkbox' checked><label for='section-580a2ca0-bdc1-4ffc-acd9-81155b0a9dfc' class='xr-section-summary' >Coordinates: <span>(2)</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'>runs</span></div><div class='xr-var-dims'>(runs)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.0 1.0 2.0 3.0 4.0</div><input id='attrs-f365cbc7-c36f-4f3f-904c-c2bd418b81b9' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-f365cbc7-c36f-4f3f-904c-c2bd418b81b9' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-4dad7991-f189-4b0a-bf7a-d1bff5466c06' class='xr-var-data-in' type='checkbox'><label for='data-4dad7991-f189-4b0a-bf7a-d1bff5466c06' 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., 1., 2., 3., 4.])</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>truncation_value</span></div><div class='xr-var-dims'>(truncation_value)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.8 0.83 0.85 ... 0.97 0.99 1.0</div><input id='attrs-72d4ec1b-5b21-4b63-87bd-4e1715ca431b' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-72d4ec1b-5b21-4b63-87bd-4e1715ca431b' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-18be8e32-160d-41dd-b63b-e53250dd7517' class='xr-var-data-in' type='checkbox'><label for='data-18be8e32-160d-41dd-b63b-e53250dd7517' 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([0.8 , 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1. ])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-f0c73af3-5ff3-4e07-aa1b-e320b3f5774d' class='xr-section-summary-in' type='checkbox' checked><label for='section-f0c73af3-5ff3-4e07-aa1b-e320b3f5774d' 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>atoms</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray></div><input id='attrs-131d3ea2-5190-4fd2-a64a-cd2802a078a5' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-131d3ea2-5190-4fd2-a64a-cd2802a078a5' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-7a21e7cf-48a7-4fc4-a9d5-c54d1187b908' class='xr-var-data-in' type='checkbox'><label for='data-7a21e7cf-48a7-4fc4-a9d5-c54d1187b908' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
|
|
" <tr>\n",
|
|
" <td>\n",
|
|
" <table style=\"border-collapse: collapse;\">\n",
|
|
" <thead>\n",
|
|
" <tr>\n",
|
|
" <td> </td>\n",
|
|
" <th> Array </th>\n",
|
|
" <th> Chunk </th>\n",
|
|
" </tr>\n",
|
|
" </thead>\n",
|
|
" <tbody>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Bytes </th>\n",
|
|
" <td> 241.70 MiB </td>\n",
|
|
" <td> 127.86 MiB </td>\n",
|
|
" </tr>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11, 1200, 1920) </td>\n",
|
|
" <td> (5, 11, 1104, 1104) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 4 chunks in 1 graph layer </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
" </tbody>\n",
|
|
" </table>\n",
|
|
" </td>\n",
|
|
" <td>\n",
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" <svg width=\"374\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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"\n",
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" <!-- Horizontal lines -->\n",
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"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>background</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray></div><input id='attrs-60f9e257-2689-4705-a7e9-0bbfafceba8f' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-60f9e257-2689-4705-a7e9-0bbfafceba8f' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-2ce618f8-3601-4951-8b1f-691e4e96d982' class='xr-var-data-in' type='checkbox'><label for='data-2ce618f8-3601-4951-8b1f-691e4e96d982' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
|
|
" <tr>\n",
|
|
" <td>\n",
|
|
" <table style=\"border-collapse: collapse;\">\n",
|
|
" <thead>\n",
|
|
" <tr>\n",
|
|
" <td> </td>\n",
|
|
" <th> Array </th>\n",
|
|
" <th> Chunk </th>\n",
|
|
" </tr>\n",
|
|
" </thead>\n",
|
|
" <tbody>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Bytes </th>\n",
|
|
" <td> 241.70 MiB </td>\n",
|
|
" <td> 127.86 MiB </td>\n",
|
|
" </tr>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11, 1200, 1920) </td>\n",
|
|
" <td> (5, 11, 1104, 1104) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 4 chunks in 1 graph layer </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
" </tbody>\n",
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|
" </table>\n",
|
|
" </td>\n",
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|
" <td>\n",
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" <text x=\"249.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,249.948598,52.448598)\">1200</text>\n",
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"</svg>\n",
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|
" </td>\n",
|
|
" </tr>\n",
|
|
"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>dark</span></div><div class='xr-var-dims'>(runs, truncation_value, y, x)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray></div><input id='attrs-e39bcd9b-6d1f-4ac1-bbd6-f3a21d3c3ff3' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e39bcd9b-6d1f-4ac1-bbd6-f3a21d3c3ff3' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-b68b7ff2-15f2-4496-9349-d449223b87a7' class='xr-var-data-in' type='checkbox'><label for='data-b68b7ff2-15f2-4496-9349-d449223b87a7' 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>IMAGE_SUBCLASS :</span></dt><dd>IMAGE_GRAYSCALE</dd><dt><span>IMAGE_VERSION :</span></dt><dd>1.2</dd><dt><span>IMAGE_WHITE_IS_ZERO :</span></dt><dd>0</dd></dl></div><div class='xr-var-data'><table>\n",
|
|
" <tr>\n",
|
|
" <td>\n",
|
|
" <table style=\"border-collapse: collapse;\">\n",
|
|
" <thead>\n",
|
|
" <tr>\n",
|
|
" <td> </td>\n",
|
|
" <th> Array </th>\n",
|
|
" <th> Chunk </th>\n",
|
|
" </tr>\n",
|
|
" </thead>\n",
|
|
" <tbody>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Bytes </th>\n",
|
|
" <td> 241.70 MiB </td>\n",
|
|
" <td> 127.86 MiB </td>\n",
|
|
" </tr>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11, 1200, 1920) </td>\n",
|
|
" <td> (5, 11, 1104, 1104) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 4 chunks in 1 graph layer </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> uint16 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
" </tbody>\n",
|
|
" </table>\n",
|
|
" </td>\n",
|
|
" <td>\n",
|
|
" <svg width=\"374\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
|
|
"\n",
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" <!-- Horizontal lines -->\n",
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|
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" <line x1=\"229\" y1=\"14\" x2=\"229\" y2=\"89\" style=\"stroke-width:2\" />\n",
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|
|
"\n",
|
|
" <!-- Text -->\n",
|
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" <text x=\"169.948598\" y=\"109.948598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1920</text>\n",
|
|
" <text x=\"249.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,249.948598,52.448598)\">1200</text>\n",
|
|
" <text x=\"92.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,92.474299,102.474299)\">11</text>\n",
|
|
"</svg>\n",
|
|
" </td>\n",
|
|
" </tr>\n",
|
|
"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>shotNum</span></div><div class='xr-var-dims'>(runs, truncation_value)</div><div class='xr-var-dtype'><U2</div><div class='xr-var-preview xr-preview'>dask.array<chunksize=(5, 11), meta=np.ndarray></div><input id='attrs-de5bb1e1-b5bd-4b78-a5d0-9aaddb9d7bcf' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-de5bb1e1-b5bd-4b78-a5d0-9aaddb9d7bcf' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-bc6164f5-526f-45c5-9b6d-2b449b725793' class='xr-var-data-in' type='checkbox'><label for='data-bc6164f5-526f-45c5-9b6d-2b449b725793' 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'><table>\n",
|
|
" <tr>\n",
|
|
" <td>\n",
|
|
" <table style=\"border-collapse: collapse;\">\n",
|
|
" <thead>\n",
|
|
" <tr>\n",
|
|
" <td> </td>\n",
|
|
" <th> Array </th>\n",
|
|
" <th> Chunk </th>\n",
|
|
" </tr>\n",
|
|
" </thead>\n",
|
|
" <tbody>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Bytes </th>\n",
|
|
" <td> 440 B </td>\n",
|
|
" <td> 440 B </td>\n",
|
|
" </tr>\n",
|
|
" \n",
|
|
" <tr>\n",
|
|
" <th> Shape </th>\n",
|
|
" <td> (5, 11) </td>\n",
|
|
" <td> (5, 11) </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Dask graph </th>\n",
|
|
" <td colspan=\"2\"> 1 chunks in 1 graph layer </td>\n",
|
|
" </tr>\n",
|
|
" <tr>\n",
|
|
" <th> Data type </th>\n",
|
|
" <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
|
|
" </tr>\n",
|
|
" </tbody>\n",
|
|
" </table>\n",
|
|
" </td>\n",
|
|
" <td>\n",
|
|
" <svg width=\"170\" height=\"104\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
|
|
"\n",
|
|
" <!-- Horizontal lines -->\n",
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" <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
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|
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"\n",
|
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" <!-- Vertical lines -->\n",
|
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" <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"54\" style=\"stroke-width:2\" />\n",
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|
|
"\n",
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|
|
"\n",
|
|
" <!-- Text -->\n",
|
|
" <text x=\"60.000000\" y=\"74.545455\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >11</text>\n",
|
|
" <text x=\"140.000000\" y=\"27.272727\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,27.272727)\">5</text>\n",
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"</svg>\n",
|
|
" </td>\n",
|
|
" </tr>\n",
|
|
"</table></div></li></ul></div></li><li class='xr-section-item'><input id='section-e88c9e4a-beec-47a1-b450-03a1b427593e' class='xr-section-summary-in' type='checkbox' ><label for='section-e88c9e4a-beec-47a1-b450-03a1b427593e' class='xr-section-summary' >Indexes: <span>(2)</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>runs</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-d565c5e6-44c5-41d3-84da-98bd8a0e9d07' class='xr-index-data-in' type='checkbox'/><label for='index-d565c5e6-44c5-41d3-84da-98bd8a0e9d07' 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, 1.0, 2.0, 3.0, 4.0], dtype='float64', name='runs'))</pre></div></li><li class='xr-var-item'><div class='xr-index-name'><div>truncation_value</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-fbee104d-3344-4353-86bc-6f68f70e69cc' class='xr-index-data-in' type='checkbox'/><label for='index-fbee104d-3344-4353-86bc-6f68f70e69cc' 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([0.8, 0.83, 0.85, 0.87, 0.89, 0.91, 0.93, 0.95, 0.97, 0.99, 1.0], dtype='float64', name='truncation_value'))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-69b9b259-7c9d-46b0-b4b8-00d79b630734' class='xr-section-summary-in' type='checkbox' ><label for='section-69b9b259-7c9d-46b0-b4b8-00d79b630734' class='xr-section-summary' >Attributes: <span>(100)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>TOF_free :</span></dt><dd>0.02</dd><dt><span>abs_img_freq :</span></dt><dd>110.866</dd><dt><span>absorption_imaging_flag :</span></dt><dd>True</dd><dt><span>backup_data :</span></dt><dd>True</dd><dt><span>blink_off_time :</span></dt><dd>nan</dd><dt><span>blink_on_time :</span></dt><dd>nan</dd><dt><span>c_duration :</span></dt><dd>0.2</dd><dt><span>cmot_final_current :</span></dt><dd>0.65</dd><dt><span>cmot_hold :</span></dt><dd>0.06</dd><dt><span>cmot_initial_current :</span></dt><dd>0.18</dd><dt><span>compX_current :</span></dt><dd>0.005</dd><dt><span>compX_current_sg :</span></dt><dd>0</dd><dt><span>compX_final_current :</span></dt><dd>0.002</dd><dt><span>compX_initial_current :</span></dt><dd>0.005</dd><dt><span>compY_current :</span></dt><dd>0</dd><dt><span>compY_current_sg :</span></dt><dd>0</dd><dt><span>compY_final_current :</span></dt><dd>0</dd><dt><span>compY_initial_current :</span></dt><dd>0</dd><dt><span>compZ_current :</span></dt><dd>0</dd><dt><span>compZ_current_sg :</span></dt><dd>0.195</dd><dt><span>compZ_final_current :</span></dt><dd>0.287</dd><dt><span>compZ_initial_current :</span></dt><dd>0</dd><dt><span>default_camera :</span></dt><dd>0</dd><dt><span>evap_1_final_pow_1 :</span></dt><dd>4.8</dd><dt><span>evap_1_final_pow_2 :</span></dt><dd>2.2</dd><dt><span>evap_1_final_pow_3 :</span></dt><dd>1.2</dd><dt><span>evap_1_final_pow_4 :</span></dt><dd>0.526</dd><dt><span>evap_1_ramp_duration_1 :</span></dt><dd>0.15</dd><dt><span>evap_1_ramp_duration_2 :</span></dt><dd>0.3</dd><dt><span>evap_1_ramp_duration_3 :</span></dt><dd>0.2</dd><dt><span>evap_1_ramp_duration_4 :</span></dt><dd>0.5</dd><dt><span>evap_1_start_pow_1 :</span></dt><dd>7</dd><dt><span>evap_1_start_pow_2 :</span></dt><dd>4.8</dd><dt><span>evap_1_start_pow_3 :</span></dt><dd>2.2</dd><dt><span>evap_1_start_pow_4 :</span></dt><dd>1.2</dd><dt><span>evap_2_final_pow_1 :</span></dt><dd>0.35</dd><dt><span>evap_2_ramp_duration_1 :</span></dt><dd>0.5</dd><dt><span>evap_2_start_pow_1 :</span></dt><dd>0.526</dd><dt><span>evap_3_arm_1_final_pow :</span></dt><dd>0.037</dd><dt><span>evap_3_arm_1_start_pow :</span></dt><dd>0.35</dd><dt><span>evap_3_arm_2_final_pow :</span></dt><dd>0.09</dd><dt><span>evap_3_arm_2_start_pow :</span></dt><dd>5</dd><dt><span>evap_3_ramp_duration :</span></dt><dd>1</dd><dt><span>evap_3_rate_constant_1 :</span></dt><dd>0.37</dd><dt><span>evap_3_rate_constant_2 :</span></dt><dd>0.71</dd><dt><span>evap_4_arm_1_final_pow :</span></dt><dd>0.085</dd><dt><span>evap_4_arm_1_start_pow :</span></dt><dd>0.037</dd><dt><span>evap_ramp_4_duration :</span></dt><dd>0.1</dd><dt><span>final_amp :</span></dt><dd>0.00018</dd><dt><span>final_freq :</span></dt><dd>104</dd><dt><span>gradCoil_current :</span></dt><dd>0.18</dd><dt><span>gradCoil_current_sg :</span></dt><dd>0</dd><dt><span>imaging_method :</span></dt><dd>in_situ_absorption</dd><dt><span>imaging_pulse_duration :</span></dt><dd>2.5e-05</dd><dt><span>imaging_wavelength :</span></dt><dd>4.21291e-07</dd><dt><span>initial_amp :</span></dt><dd>0.62</dd><dt><span>initial_freq :</span></dt><dd>101.9</dd><dt><span>mod_depth_1_fin :</span></dt><dd>0.5</dd><dt><span>mod_depth_1_ini :</span></dt><dd>1</dd><dt><span>mod_depth_2_fin :</span></dt><dd>0.2</dd><dt><span>mod_depth_2_ini :</span></dt><dd>0.5</dd><dt><span>mod_depth_3_fin :</span></dt><dd>0.15</dd><dt><span>mod_depth_3_ini :</span></dt><dd>0.2</dd><dt><span>mod_depth_4_fin :</span></dt><dd>0</dd><dt><span>mod_depth_4_ini :</span></dt><dd>0.15</dd><dt><span>mod_depth_ini :</span></dt><dd>1</dd><dt><span>mod_depth_on_final :</span></dt><dd>0.35</dd><dt><span>mod_depth_on_initial :</span></dt><dd>0</dd><dt><span>mot_3d_amp :</span></dt><dd>0.62</dd><dt><span>mot_3d_camera_exposure_time :</span></dt><dd>0.002</dd><dt><span>mot_3d_camera_trigger_duration :</span></dt><dd>0.00025</dd><dt><span>mot_3d_freq :</span></dt><dd>101.9</dd><dt><span>mot_load_duration :</span></dt><dd>2</dd><dt><span>odt_axis_camera_trigger_duration :</span></dt><dd>0.002</dd><dt><span>odt_hold_time_1 :</span></dt><dd>0.01</dd><dt><span>odt_hold_time_2 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_3 :</span></dt><dd>0.1</dd><dt><span>odt_hold_time_4 :</span></dt><dd>1</dd><dt><span>pow_arm_1 :</span></dt><dd>7</dd><dt><span>pow_arm_2 :</span></dt><dd>0</dd><dt><span>pow_fin_arm_2 :</span></dt><dd>5</dd><dt><span>pow_ini_arm_2 :</span></dt><dd>0</dd><dt><span>pulse_delay :</span></dt><dd>8e-05</dd><dt><span>push_amp :</span></dt><dd>0.16</dd><dt><span>push_freq :</span></dt><dd>102.6</dd><dt><span>ramp_duration :</span></dt><dd>1</dd><dt><span>save_results :</span></dt><dd>False</dd><dt><span>stern_gerlach_duration :</span></dt><dd>0.001</dd><dt><span>wait_after_2dmot_off :</span></dt><dd>0</dd><dt><span>wait_time_between_images :</span></dt><dd>0.22</dd><dt><span>x_offset :</span></dt><dd>0</dd><dt><span>x_offset_img :</span></dt><dd>0</dd><dt><span>y_offset :</span></dt><dd>0</dd><dt><span>y_offset_img :</span></dt><dd>0</dd><dt><span>z_offset :</span></dt><dd>0.195</dd><dt><span>z_offset_img :</span></dt><dd>0.195</dd><dt><span>truncation_value :</span></dt><dd>[0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85\n",
|
|
" 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91\n",
|
|
" 0.93 0.95 0.97 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97\n",
|
|
" 0.99 1. 0.8 0.83 0.85 0.87 0.89 0.91 0.93 0.95 0.97 0.99 1. ]</dd><dt><span>runs :</span></dt><dd>[0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 2. 2.\n",
|
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" 2. 2. 2. 2. 2. 2. 2. 2. 2. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 3. 4. 4. 4. 4.\n",
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" 4. 4. 4. 4. 4. 4. 4.]</dd><dt><span>scanAxis :</span></dt><dd>['runs' 'truncation_value']</dd><dt><span>scanAxisLength :</span></dt><dd>[55. 55.]</dd></dl></div></li></ul></div></div>"
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],
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"text/plain": [
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"<xarray.Dataset>\n",
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"Dimensions: (runs: 5, truncation_value: 11, y: 1200, x: 1920)\n",
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"Coordinates:\n",
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" * runs (runs) float64 0.0 1.0 2.0 3.0 4.0\n",
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" * truncation_value (truncation_value) float64 0.8 0.83 0.85 ... 0.97 0.99 1.0\n",
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"Dimensions without coordinates: y, x\n",
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"Data variables:\n",
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" atoms (runs, truncation_value, y, x) uint16 dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray>\n",
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" background (runs, truncation_value, y, x) uint16 dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray>\n",
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" dark (runs, truncation_value, y, x) uint16 dask.array<chunksize=(5, 11, 1104, 1104), meta=np.ndarray>\n",
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" shotNum (runs, truncation_value) <U2 dask.array<chunksize=(5, 11), meta=np.ndarray>\n",
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"Attributes: (12/100)\n",
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" TOF_free: 0.02\n",
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" abs_img_freq: 110.866\n",
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" absorption_imaging_flag: True\n",
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" backup_data: True\n",
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" blink_off_time: nan\n",
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" blink_on_time: nan\n",
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" ... ...\n",
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" z_offset: 0.195\n",
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" z_offset_img: 0.195\n",
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" truncation_value: [0.8 0.83 0.85 0.87 0.89 0.91 0.93 0....\n",
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" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1...\n",
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" scanAxis: ['runs' 'truncation_value']\n",
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" scanAxisLength: [55. 55.]"
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]
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},
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"execution_count": 11,
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"metadata": {},
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"output_type": "execute_result"
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}
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],
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"source": [
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"dataSet = auto_rechunk(dataSet)\n",
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"dataSet"
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]
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}
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],
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"metadata": {
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"kernelspec": {
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"display_name": "env",
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"language": "python",
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"name": "python3"
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},
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"language_info": {
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"codemirror_mode": {
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"name": "ipython",
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"version": 3
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},
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"file_extension": ".py",
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"mimetype": "text/x-python",
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"name": "python",
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"nbconvert_exporter": "python",
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"pygments_lexer": "ipython3",
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"version": "3.9.12"
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},
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"vscode": {
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"interpreter": {
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"hash": "c05913ad4f24fdc6b2418069394dc5835b1981849b107c9ba6df693aafd66650"
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}
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}
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},
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"nbformat": 4,
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"nbformat_minor": 2
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}
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