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finish reading from hdf5
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{
"cells": [
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{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"# Import supporting package"
]
},
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{
"cell_type": "code",
"execution_count": 1,
"metadata": {},
"outputs": [],
"source": [
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"import xarray as xr\n",
"import numpy as np\n",
"\n",
"import matplotlib.pyplot as plt\n",
"\n",
"from DataContainer.ReadData import read_hdf5_file\n",
"from Analyser.ImagingAnalyser import ImageAnalyser\n",
"from Analyser.FitAnalyser import FitAnalyser\n",
"\n",
"imageAnalyser = ImageAnalyser()"
]
},
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"## Start a client for parallel computing"
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]
},
{
"cell_type": "code",
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"execution_count": 2,
"metadata": {},
"outputs": [
{
"data": {
"text/html": [
"<div>\n",
" <div style=\"width: 24px; height: 24px; background-color: #e1e1e1; border: 3px solid #9D9D9D; border-radius: 5px; position: absolute;\"> </div>\n",
" <div style=\"margin-left: 48px;\">\n",
" <h3 style=\"margin-bottom: 0px;\">Client</h3>\n",
" <p style=\"color: #9D9D9D; margin-bottom: 0px;\">Client-eaab97f7-e905-11ed-b318-9c7bef43b4fb</p>\n",
" <table style=\"width: 100%; text-align: left;\">\n",
"\n",
" <tr>\n",
" \n",
" <td style=\"text-align: left;\"><strong>Connection method:</strong> Cluster object</td>\n",
" <td style=\"text-align: left;\"><strong>Cluster type:</strong> distributed.LocalCluster</td>\n",
" \n",
" </tr>\n",
"\n",
" \n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Dashboard: </strong> <a href=\"http://127.0.0.1:8787/status\" target=\"_blank\">http://127.0.0.1:8787/status</a>\n",
" </td>\n",
" <td style=\"text-align: left;\"></td>\n",
" </tr>\n",
" \n",
"\n",
" </table>\n",
"\n",
" \n",
"\n",
" \n",
" <details>\n",
" <summary style=\"margin-bottom: 20px;\"><h3 style=\"display: inline;\">Cluster Info</h3></summary>\n",
" <div class=\"jp-RenderedHTMLCommon jp-RenderedHTML jp-mod-trusted jp-OutputArea-output\">\n",
" <div style=\"width: 24px; height: 24px; background-color: #e1e1e1; border: 3px solid #9D9D9D; border-radius: 5px; position: absolute;\">\n",
" </div>\n",
" <div style=\"margin-left: 48px;\">\n",
" <h3 style=\"margin-bottom: 0px; margin-top: 0px;\">LocalCluster</h3>\n",
" <p style=\"color: #9D9D9D; margin-bottom: 0px;\">d4aeddff</p>\n",
" <table style=\"width: 100%; text-align: left;\">\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Dashboard:</strong> <a href=\"http://127.0.0.1:8787/status\" target=\"_blank\">http://127.0.0.1:8787/status</a>\n",
" </td>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Workers:</strong> 6\n",
" </td>\n",
" </tr>\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Total threads:</strong> 60\n",
" </td>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Total memory:</strong> 55.88 GiB\n",
" </td>\n",
" </tr>\n",
" \n",
" <tr>\n",
" <td style=\"text-align: left;\"><strong>Status:</strong> running</td>\n",
" <td style=\"text-align: left;\"><strong>Using processes:</strong> True</td>\n",
"</tr>\n",
"\n",
" \n",
" </table>\n",
"\n",
" <details>\n",
" <summary style=\"margin-bottom: 20px;\">\n",
" <h3 style=\"display: inline;\">Scheduler Info</h3>\n",
" </summary>\n",
"\n",
" <div style=\"\">\n",
" <div>\n",
" <div style=\"width: 24px; height: 24px; background-color: #FFF7E5; border: 3px solid #FF6132; border-radius: 5px; position: absolute;\"> </div>\n",
" <div style=\"margin-left: 48px;\">\n",
" <h3 style=\"margin-bottom: 0px;\">Scheduler</h3>\n",
" <p style=\"color: #9D9D9D; margin-bottom: 0px;\">Scheduler-99210554-0c4e-4072-ad2d-4d72899b1ed8</p>\n",
" <table style=\"width: 100%; text-align: left;\">\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Comm:</strong> tcp://127.0.0.1:49232\n",
" </td>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Workers:</strong> 6\n",
" </td>\n",
" </tr>\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Dashboard:</strong> <a href=\"http://127.0.0.1:8787/status\" target=\"_blank\">http://127.0.0.1:8787/status</a>\n",
" </td>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Total threads:</strong> 60\n",
" </td>\n",
" </tr>\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Started:</strong> Just now\n",
" </td>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Total memory:</strong> 55.88 GiB\n",
" </td>\n",
" </tr>\n",
" </table>\n",
" </div>\n",
" </div>\n",
"\n",
" <details style=\"margin-left: 48px;\">\n",
" <summary style=\"margin-bottom: 20px;\">\n",
" <h3 style=\"display: inline;\">Workers</h3>\n",
" </summary>\n",
"\n",
" \n",
" <div style=\"margin-bottom: 20px;\">\n",
" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
" <div style=\"margin-left: 48px;\">\n",
" <details>\n",
" <summary>\n",
" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 0</h4>\n",
" </summary>\n",
" <table style=\"width: 100%; text-align: left;\">\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Comm: </strong> tcp://127.0.0.1:49259\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://127.0.0.1:49265/status\" target=\"_blank\">http://127.0.0.1:49265/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://127.0.0.1:49235\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\\JIANSH~1\\AppData\\Local\\Temp\\dask-worker-space\\worker-ww2ggttu\n",
" </td>\n",
" </tr>\n",
"\n",
" \n",
"\n",
" \n",
"\n",
" </table>\n",
" </details>\n",
" </div>\n",
" </div>\n",
" \n",
" <div style=\"margin-bottom: 20px;\">\n",
" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
" <div style=\"margin-left: 48px;\">\n",
" <details>\n",
" <summary>\n",
" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 1</h4>\n",
" </summary>\n",
" <table style=\"width: 100%; text-align: left;\">\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Comm: </strong> tcp://127.0.0.1:49262\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://127.0.0.1:49271/status\" target=\"_blank\">http://127.0.0.1:49271/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://127.0.0.1:49236\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\\JIANSH~1\\AppData\\Local\\Temp\\dask-worker-space\\worker-5p0p884i\n",
" </td>\n",
" </tr>\n",
"\n",
" \n",
"\n",
" \n",
"\n",
" </table>\n",
" </details>\n",
" </div>\n",
" </div>\n",
" \n",
" <div style=\"margin-bottom: 20px;\">\n",
" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
" <div style=\"margin-left: 48px;\">\n",
" <details>\n",
" <summary>\n",
" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 2</h4>\n",
" </summary>\n",
" <table style=\"width: 100%; text-align: left;\">\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Comm: </strong> tcp://127.0.0.1:49260\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://127.0.0.1:49269/status\" target=\"_blank\">http://127.0.0.1:49269/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://127.0.0.1:49237\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\\JIANSH~1\\AppData\\Local\\Temp\\dask-worker-space\\worker-za3qby07\n",
" </td>\n",
" </tr>\n",
"\n",
" \n",
"\n",
" \n",
"\n",
" </table>\n",
" </details>\n",
" </div>\n",
" </div>\n",
" \n",
" <div style=\"margin-bottom: 20px;\">\n",
" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
" <div style=\"margin-left: 48px;\">\n",
" <details>\n",
" <summary>\n",
" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 3</h4>\n",
" </summary>\n",
" <table style=\"width: 100%; text-align: left;\">\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Comm: </strong> tcp://127.0.0.1:49261\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://127.0.0.1:49267/status\" target=\"_blank\">http://127.0.0.1:49267/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://127.0.0.1:49238\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\\JIANSH~1\\AppData\\Local\\Temp\\dask-worker-space\\worker-qkb264de\n",
" </td>\n",
" </tr>\n",
"\n",
" \n",
"\n",
" \n",
"\n",
" </table>\n",
" </details>\n",
" </div>\n",
" </div>\n",
" \n",
" <div style=\"margin-bottom: 20px;\">\n",
" <div style=\"width: 24px; height: 24px; background-color: #DBF5FF; border: 3px solid #4CC9FF; border-radius: 5px; position: absolute;\"> </div>\n",
" <div style=\"margin-left: 48px;\">\n",
" <details>\n",
" <summary>\n",
" <h4 style=\"margin-bottom: 0px; display: inline;\">Worker: 4</h4>\n",
" </summary>\n",
" <table style=\"width: 100%; text-align: left;\">\n",
" <tr>\n",
" <td style=\"text-align: left;\">\n",
" <strong>Comm: </strong> tcp://127.0.0.1:49264\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://127.0.0.1:49273/status\" target=\"_blank\">http://127.0.0.1:49273/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://127.0.0.1:49239\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\\JIANSH~1\\AppData\\Local\\Temp\\dask-worker-space\\worker-schn83iz\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://127.0.0.1:49263\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://127.0.0.1:49274/status\" target=\"_blank\">http://127.0.0.1:49274/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://127.0.0.1:49240\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\\JIANSH~1\\AppData\\Local\\Temp\\dask-worker-space\\worker-mvo1ci40\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://127.0.0.1:49232' 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": [
"# Read data"
]
},
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"## Set file path"
]
},
{
"cell_type": "code",
"execution_count": 3,
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"metadata": {},
"outputs": [],
"source": [
"# filepath = \"//DyLabNAS/Data/Evaporative_Cooling/2023/04/18/0003/*.h5\"\n",
"# filepath = \"//DyLabNAS/Data/Evaporative_Cooling/2023/04/18/0003/2023-04-18_0003_Evaporative_Cooling_000.h5\"\n",
"\n",
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"# filepath = \"//DyLabNAS/Data/Repetition_scan/2023/04/21/0002/*.h5\"\n",
"\n",
"# filepath = r\"./testData/0003/*.h5\"\n",
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"\n",
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"filepath = \"//DyLabNAS/Data/Evaporative_Cooling/2023/04/18/0003/*.h5\""
]
},
{
"cell_type": "code",
"execution_count": 4,
"metadata": {},
"outputs": [],
"source": [
finish reading from hdf5
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"groupList = [\n",
" \"images/MOT_3D_Camera/in_situ_absorption\",\n",
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" # \"images/ODT_1_Axis_Camera/in_situ_absorption\",\n",
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"]\n",
"\n",
"dskey = {\n",
" \"images/MOT_3D_Camera/in_situ_absorption\": \"camera_1\",\n",
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" # \"images/ODT_1_Axis_Camera/in_situ_absorption\": \"camera_2\",\n",
finish reading from hdf5
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"}\n",
"\n",
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"datasetDict = {\n",
finish reading from hdf5
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" dskey[groupList[i]]: read_hdf5_file(filepath, groupList[i])\n",
" for i in range(len(groupList))\n",
"}"
]
},
finish of fitting
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{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"## Rechunk the data for parallel computing"
]
},
finish reading from hdf5
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{
"cell_type": "code",
finish of fitting
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"execution_count": 5,
"metadata": {},
"outputs": [],
"source": [
"dataset = datasetDict[\"camera_1\"]\n",
"\n",
"scanAxis = dataset.scanAxis\n",
"\n",
"dataset = dataset.chunk(\n",
" {\n",
" \"compZ_current_sg\": \"auto\",\n",
" \"runs\": 2,\n",
" \"x\": \"auto\",\n",
" \"y\": \"auto\",\n",
" }\n",
")"
]
},
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"# Calculate absorption imaging"
]
},
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"## get OD images"
]
},
{
"cell_type": "code",
"execution_count": 6,
finish reading from hdf5
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"metadata": {},
"outputs": [
{
"data": {
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"</style><pre class='xr-text-repr-fallback'>&lt;xarray.Dataset&gt;\n",
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"Dimensions: (compZ_current_sg: 300, runs: 2, x: 1200, y: 1920)\n",
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"Coordinates:\n",
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" * compZ_current_sg (compZ_current_sg) float64 0.175 0.176 ... 0.473 0.474\n",
" * runs (runs) float64 0.0 1.0\n",
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"Dimensions without coordinates: x, y\n",
"Data variables:\n",
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" atoms (compZ_current_sg, runs, x, y) uint16 dask.array&lt;chunksize=(14, 2, 1200, 1920), meta=np.ndarray&gt;\n",
" background (compZ_current_sg, runs, x, y) uint16 dask.array&lt;chunksize=(14, 2, 1200, 1920), meta=np.ndarray&gt;\n",
" dark (compZ_current_sg, runs, x, y) uint16 dask.array&lt;chunksize=(14, 2, 1200, 1920), meta=np.ndarray&gt;\n",
" shotNum (compZ_current_sg, runs) &lt;U3 dask.array&lt;chunksize=(300, 2), meta=np.ndarray&gt;\n",
" OD (compZ_current_sg, runs, x, y) float64 dask.array&lt;chunksize=(14, 2, 1200, 1920), meta=np.ndarray&gt;\n",
"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",
" backup_data: True\n",
" blink_off_time: nan\n",
" blink_on_time: nan\n",
" ... ...\n",
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" z_offset: compZ_current_sg\n",
" z_offset_img: compZ_current_sg\n",
" compZ_current_sg: [0.175 0.176 0.177 0.178 0.179 0.18 0...\n",
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0...\n",
" scanAxis: [&#x27;compZ_current_sg&#x27;, &#x27;runs&#x27;]\n",
" scanAxisLength: [600. 600.]</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-ee374266-6256-442f-8811-c9f32f92835e' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-ee374266-6256-442f-8811-c9f32f92835e' 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'>compZ_current_sg</span>: 300</li><li><span class='xr-has-index'>runs</span>: 2</li><li><span>x</span>: 1200</li><li><span>y</span>: 1920</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-37c5ddc4-44ca-4a03-8260-30b174898eaf' class='xr-section-summary-in' type='checkbox' checked><label for='section-37c5ddc4-44ca-4a03-8260-30b174898eaf' 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'>compZ_current_sg</span></div><div class='xr-var-dims'>(compZ_current_sg)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>0.175 0.176 0.177 ... 0.473 0.474</div><input id='attrs-050c9ec6-745b-41c3-8a08-66981ce37ebb' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-050c9ec6-745b-41c3-8a08-66981ce37ebb' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-5e972803-729a-4288-aaf1-3d81c711d312' class='xr-var-data-in' type='checkbox'><label for='data-5e972803-729a-4288-aaf1-3d81c711d312' 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([0.175, 0.176, 0.177, ..., 0.472, 0.473, 0.474])</pre></div></li><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</div><input id='attrs-8dd34359-cae3-409c-98a1-c3b4c09b6880' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-8dd34359-cae3-409c-98a1-c3b4c09b6880' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-f2f1ca85-e02c-448f-ac9b-d1fc0049f3aa' class='xr-var-data-in' type='checkbox'><label for='data-f2f1ca85-e02c-448f-ac9b-d1fc0049f3aa' 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.])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-15d1c07e-b833-47fa-a097-911e106e286a' class='xr-section-summary-in' type='checkbox' checked><label for='section-15d1c07e-b833-47fa-a097-911e106e286a' class='xr-section-summary' >Data variables: <span>(5)</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'>(compZ_current_sg, runs, x, y)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(14, 2, 1200, 1920), meta=np.ndarray&gt;</div><input id='attrs-bb5b80b8-ab0a-4567-8d97-6eb3029fd9a2' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-bb5b80b8-ab0a-4567-8d97-6eb3029fd9a2' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-4e215839-57b4-4dbe-8e29-a2e9dfd65758' class='xr-var-data-in' type='checkbox'><label for='data-4e215839-57b4-4dbe-8e29-a2e9dfd65758' title='Show/Hi
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" <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",
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" <td> 2.57 GiB </td>\n",
" <td> 123.05 MiB </td>\n",
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" </tr>\n",
" \n",
" <tr>\n",
" <th> Shape </th>\n",
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" <td> (300, 2, 1200, 1920) </td>\n",
" <td> (14, 2, 1200, 1920) </td>\n",
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" </tr>\n",
" <tr>\n",
" <th> Dask graph </th>\n",
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" <td colspan=\"2\"> 22 chunks in 1804 graph layers </td>\n",
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" </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=\"404\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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"\n",
" <!-- Horizontal lines -->\n",
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" <line x1=\"0\" y1=\"0\" x2=\"40\" y2=\"0\" style=\"stroke-width:2\" />\n",
" <line x1=\"0\" y1=\"25\" x2=\"40\" y2=\"25\" style=\"stroke-width:2\" />\n",
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"\n",
" <!-- Vertical lines -->\n",
" <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"25\" style=\"stroke-width:2\" />\n",
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" <line x1=\"1\" y1=\"0\" x2=\"1\" y2=\"25\" />\n",
" <line x1=\"3\" y1=\"0\" x2=\"3\" y2=\"25\" />\n",
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" <line x1=\"5\" y1=\"0\" x2=\"5\" y2=\"25\" />\n",
" <line x1=\"7\" y1=\"0\" x2=\"7\" y2=\"25\" />\n",
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" <line x1=\"9\" y1=\"0\" x2=\"9\" y2=\"25\" />\n",
" <line x1=\"11\" y1=\"0\" x2=\"11\" y2=\"25\" />\n",
" <line x1=\"13\" y1=\"0\" x2=\"13\" y2=\"25\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <line x1=\"15\" y1=\"0\" x2=\"15\" y2=\"25\" />\n",
" <line x1=\"17\" y1=\"0\" x2=\"17\" y2=\"25\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"19\" y1=\"0\" x2=\"19\" y2=\"25\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <line x1=\"20\" y1=\"0\" x2=\"20\" y2=\"25\" />\n",
" <line x1=\"22\" y1=\"0\" x2=\"22\" y2=\"25\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"24\" y1=\"0\" x2=\"24\" y2=\"25\" />\n",
" <line x1=\"26\" y1=\"0\" x2=\"26\" y2=\"25\" />\n",
" <line x1=\"28\" y1=\"0\" x2=\"28\" y2=\"25\" />\n",
" <line x1=\"30\" y1=\"0\" x2=\"30\" y2=\"25\" />\n",
" <line x1=\"32\" y1=\"0\" x2=\"32\" y2=\"25\" />\n",
" <line x1=\"34\" y1=\"0\" x2=\"34\" y2=\"25\" />\n",
" <line x1=\"36\" y1=\"0\" x2=\"36\" y2=\"25\" />\n",
" <line x1=\"38\" y1=\"0\" x2=\"38\" y2=\"25\" />\n",
" <line x1=\"40\" y1=\"0\" x2=\"40\" y2=\"25\" />\n",
" <line x1=\"40\" y1=\"0\" x2=\"40\" y2=\"25\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"0.0,0.0 40.90179082482365,0.0 40.90179082482365,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Text -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <text x=\"20.450895\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >300</text>\n",
" <text x=\"60.901791\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,60.901791,12.706308)\">1</text>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"124\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"110\" y1=\"75\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"110\" y2=\"75\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"14\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"110.0,0.0 124.9485979497544,14.948597949754403 124.9485979497544,89.9485979497544 110.0,75.0\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"230\" y2=\"0\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"14\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"124\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"230\" y1=\"0\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"110.0,0.0 230.0,0.0 244.9485979497544,14.948597949754403 124.9485979497544,14.948597949754403\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"124\" y1=\"14\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"89\" x2=\"244\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"124\" y1=\"14\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
" <line x1=\"244\" y1=\"14\" x2=\"244\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"124.9485979497544,14.948597949754403 244.9485979497544,14.948597949754403 244.9485979497544,89.9485979497544 124.9485979497544,89.9485979497544\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Text -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <text x=\"184.948598\" y=\"109.948598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1920</text>\n",
" <text x=\"264.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,264.948598,52.448598)\">1200</text>\n",
" <text x=\"107.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,107.474299,102.474299)\">2</text>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"</svg>\n",
" </td>\n",
" </tr>\n",
finish of fitting
2023-05-04 13:47:33 +02:00
"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>background</span></div><div class='xr-var-dims'>(compZ_current_sg, runs, x, y)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(14, 2, 1200, 1920), meta=np.ndarray&gt;</div><input id='attrs-269f0afe-dd66-4697-9150-feebe15ebdd2' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-269f0afe-dd66-4697-9150-feebe15ebdd2' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-69e3c61a-3e67-4263-a8aa-6a96498033e6' class='xr-var-data-in' type='checkbox'><label for='data-69e3c61a-3e67-4263-a8aa-6a96498033e6' 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",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <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",
finish of fitting
2023-05-04 13:47:33 +02:00
" <td> 2.57 GiB </td>\n",
" <td> 123.05 MiB </td>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" </tr>\n",
" \n",
" <tr>\n",
" <th> Shape </th>\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <td> (300, 2, 1200, 1920) </td>\n",
" <td> (14, 2, 1200, 1920) </td>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" </tr>\n",
" <tr>\n",
" <th> Dask graph </th>\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <td colspan=\"2\"> 22 chunks in 1804 graph layers </td>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" </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",
finish of fitting
2023-05-04 13:47:33 +02:00
" <svg width=\"404\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"0\" y1=\"0\" x2=\"40\" y2=\"0\" style=\"stroke-width:2\" />\n",
" <line x1=\"0\" y1=\"25\" x2=\"40\" y2=\"25\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
" <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"25\" style=\"stroke-width:2\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"1\" y1=\"0\" x2=\"1\" y2=\"25\" />\n",
" <line x1=\"3\" y1=\"0\" x2=\"3\" y2=\"25\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <line x1=\"5\" y1=\"0\" x2=\"5\" y2=\"25\" />\n",
" <line x1=\"7\" y1=\"0\" x2=\"7\" y2=\"25\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"9\" y1=\"0\" x2=\"9\" y2=\"25\" />\n",
" <line x1=\"11\" y1=\"0\" x2=\"11\" y2=\"25\" />\n",
" <line x1=\"13\" y1=\"0\" x2=\"13\" y2=\"25\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <line x1=\"15\" y1=\"0\" x2=\"15\" y2=\"25\" />\n",
" <line x1=\"17\" y1=\"0\" x2=\"17\" y2=\"25\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"19\" y1=\"0\" x2=\"19\" y2=\"25\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <line x1=\"20\" y1=\"0\" x2=\"20\" y2=\"25\" />\n",
" <line x1=\"22\" y1=\"0\" x2=\"22\" y2=\"25\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"24\" y1=\"0\" x2=\"24\" y2=\"25\" />\n",
" <line x1=\"26\" y1=\"0\" x2=\"26\" y2=\"25\" />\n",
" <line x1=\"28\" y1=\"0\" x2=\"28\" y2=\"25\" />\n",
" <line x1=\"30\" y1=\"0\" x2=\"30\" y2=\"25\" />\n",
" <line x1=\"32\" y1=\"0\" x2=\"32\" y2=\"25\" />\n",
" <line x1=\"34\" y1=\"0\" x2=\"34\" y2=\"25\" />\n",
" <line x1=\"36\" y1=\"0\" x2=\"36\" y2=\"25\" />\n",
" <line x1=\"38\" y1=\"0\" x2=\"38\" y2=\"25\" />\n",
" <line x1=\"40\" y1=\"0\" x2=\"40\" y2=\"25\" />\n",
" <line x1=\"40\" y1=\"0\" x2=\"40\" y2=\"25\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"0.0,0.0 40.90179082482365,0.0 40.90179082482365,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Text -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <text x=\"20.450895\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >300</text>\n",
" <text x=\"60.901791\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,60.901791,12.706308)\">1</text>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"124\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"110\" y1=\"75\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"110\" y2=\"75\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"14\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"110.0,0.0 124.9485979497544,14.948597949754403 124.9485979497544,89.9485979497544 110.0,75.0\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"230\" y2=\"0\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"14\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"124\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"230\" y1=\"0\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"110.0,0.0 230.0,0.0 244.9485979497544,14.948597949754403 124.9485979497544,14.948597949754403\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"124\" y1=\"14\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"89\" x2=\"244\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"124\" y1=\"14\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
" <line x1=\"244\" y1=\"14\" x2=\"244\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"124.9485979497544,14.948597949754403 244.9485979497544,14.948597949754403 244.9485979497544,89.9485979497544 124.9485979497544,89.9485979497544\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Text -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <text x=\"184.948598\" y=\"109.948598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1920</text>\n",
" <text x=\"264.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,264.948598,52.448598)\">1200</text>\n",
" <text x=\"107.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,107.474299,102.474299)\">2</text>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"</svg>\n",
" </td>\n",
" </tr>\n",
finish of fitting
2023-05-04 13:47:33 +02:00
"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>dark</span></div><div class='xr-var-dims'>(compZ_current_sg, runs, x, y)</div><div class='xr-var-dtype'>uint16</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(14, 2, 1200, 1920), meta=np.ndarray&gt;</div><input id='attrs-6bf62c54-9c5b-4c5d-8ce1-cb4cca5a8b20' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-6bf62c54-9c5b-4c5d-8ce1-cb4cca5a8b20' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-6e43a2c8-5197-41b7-b53b-2e60e250c707' class='xr-var-data-in' type='checkbox'><label for='data-6e43a2c8-5197-41b7-b53b-2e60e250c707' 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",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <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",
finish of fitting
2023-05-04 13:47:33 +02:00
" <td> 2.57 GiB </td>\n",
" <td> 123.05 MiB </td>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" </tr>\n",
" \n",
" <tr>\n",
" <th> Shape </th>\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <td> (300, 2, 1200, 1920) </td>\n",
" <td> (14, 2, 1200, 1920) </td>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" </tr>\n",
" <tr>\n",
" <th> Dask graph </th>\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <td colspan=\"2\"> 22 chunks in 1804 graph layers </td>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" </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",
finish of fitting
2023-05-04 13:47:33 +02:00
" <svg width=\"404\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
"\n",
" <!-- Horizontal lines -->\n",
" <line x1=\"0\" y1=\"0\" x2=\"40\" y2=\"0\" style=\"stroke-width:2\" />\n",
" <line x1=\"0\" y1=\"25\" x2=\"40\" y2=\"25\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Vertical lines -->\n",
" <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"25\" style=\"stroke-width:2\" />\n",
" <line x1=\"1\" y1=\"0\" x2=\"1\" y2=\"25\" />\n",
" <line x1=\"3\" y1=\"0\" x2=\"3\" y2=\"25\" />\n",
" <line x1=\"5\" y1=\"0\" x2=\"5\" y2=\"25\" />\n",
" <line x1=\"7\" y1=\"0\" x2=\"7\" y2=\"25\" />\n",
" <line x1=\"9\" y1=\"0\" x2=\"9\" y2=\"25\" />\n",
" <line x1=\"11\" y1=\"0\" x2=\"11\" y2=\"25\" />\n",
" <line x1=\"13\" y1=\"0\" x2=\"13\" y2=\"25\" />\n",
" <line x1=\"15\" y1=\"0\" x2=\"15\" y2=\"25\" />\n",
" <line x1=\"17\" y1=\"0\" x2=\"17\" y2=\"25\" />\n",
" <line x1=\"19\" y1=\"0\" x2=\"19\" y2=\"25\" />\n",
" <line x1=\"20\" y1=\"0\" x2=\"20\" y2=\"25\" />\n",
" <line x1=\"22\" y1=\"0\" x2=\"22\" y2=\"25\" />\n",
" <line x1=\"24\" y1=\"0\" x2=\"24\" y2=\"25\" />\n",
" <line x1=\"26\" y1=\"0\" x2=\"26\" y2=\"25\" />\n",
" <line x1=\"28\" y1=\"0\" x2=\"28\" y2=\"25\" />\n",
" <line x1=\"30\" y1=\"0\" x2=\"30\" y2=\"25\" />\n",
" <line x1=\"32\" y1=\"0\" x2=\"32\" y2=\"25\" />\n",
" <line x1=\"34\" y1=\"0\" x2=\"34\" y2=\"25\" />\n",
" <line x1=\"36\" y1=\"0\" x2=\"36\" y2=\"25\" />\n",
" <line x1=\"38\" y1=\"0\" x2=\"38\" y2=\"25\" />\n",
" <line x1=\"40\" y1=\"0\" x2=\"40\" y2=\"25\" />\n",
" <line x1=\"40\" y1=\"0\" x2=\"40\" y2=\"25\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Colored Rectangle -->\n",
" <polygon points=\"0.0,0.0 40.90179082482365,0.0 40.90179082482365,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
"\n",
" <!-- Text -->\n",
" <text x=\"20.450895\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >300</text>\n",
" <text x=\"60.901791\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,60.901791,12.706308)\">1</text>\n",
"\n",
"\n",
" <!-- Horizontal lines -->\n",
" <line x1=\"110\" y1=\"0\" x2=\"124\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"110\" y1=\"75\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Vertical lines -->\n",
" <line x1=\"110\" y1=\"0\" x2=\"110\" y2=\"75\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"14\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Colored Rectangle -->\n",
" <polygon points=\"110.0,0.0 124.9485979497544,14.948597949754403 124.9485979497544,89.9485979497544 110.0,75.0\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
"\n",
" <!-- Horizontal lines -->\n",
" <line x1=\"110\" y1=\"0\" x2=\"230\" y2=\"0\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"14\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Vertical lines -->\n",
" <line x1=\"110\" y1=\"0\" x2=\"124\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"230\" y1=\"0\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Colored Rectangle -->\n",
" <polygon points=\"110.0,0.0 230.0,0.0 244.9485979497544,14.948597949754403 124.9485979497544,14.948597949754403\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
"\n",
" <!-- Horizontal lines -->\n",
" <line x1=\"124\" y1=\"14\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"89\" x2=\"244\" y2=\"89\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Vertical lines -->\n",
" <line x1=\"124\" y1=\"14\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
" <line x1=\"244\" y1=\"14\" x2=\"244\" y2=\"89\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Colored Rectangle -->\n",
" <polygon points=\"124.9485979497544,14.948597949754403 244.9485979497544,14.948597949754403 244.9485979497544,89.9485979497544 124.9485979497544,89.9485979497544\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
"\n",
" <!-- Text -->\n",
" <text x=\"184.948598\" y=\"109.948598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1920</text>\n",
" <text x=\"264.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,264.948598,52.448598)\">1200</text>\n",
" <text x=\"107.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,107.474299,102.474299)\">2</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'>(compZ_current_sg, runs)</div><div class='xr-var-dtype'>&lt;U3</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(300, 2), meta=np.ndarray&gt;</div><input id='attrs-3d584d73-d6d7-489a-bd51-b1a4ff77ff68' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-3d584d73-d6d7-489a-bd51-b1a4ff77ff68' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-470cc4a3-5088-4447-8b36-969e3dc82dab' class='xr-var-data-in' type='checkbox'><label for='data-470cc4a3-5088-4447-8b36-969e3dc82dab' 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> 7.03 kiB </td>\n",
" <td> 7.03 kiB </td>\n",
" </tr>\n",
" \n",
" <tr>\n",
" <th> Shape </th>\n",
" <td> (300, 2) </td>\n",
" <td> (300, 2) </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\"> <U3 numpy.ndarray </td>\n",
" </tr>\n",
" </tbody>\n",
" </table>\n",
" </td>\n",
" <td>\n",
" <svg width=\"75\" height=\"170\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Horizontal lines -->\n",
" <line x1=\"0\" y1=\"0\" x2=\"25\" y2=\"0\" style=\"stroke-width:2\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"0\" y1=\"120\" x2=\"25\" y2=\"120\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Vertical lines -->\n",
" <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"120\" style=\"stroke-width:2\" />\n",
" <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"120\" style=\"stroke-width:2\" />\n",
"\n",
" <!-- Colored Rectangle -->\n",
" <polygon points=\"0.0,0.0 25.412616514582485,0.0 25.412616514582485,120.0 0.0,120.0\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
"\n",
" <!-- Text -->\n",
" <text x=\"12.706308\" y=\"140.000000\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >2</text>\n",
" <text x=\"45.412617\" y=\"60.000000\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,45.412617,60.000000)\">300</text>\n",
"</svg>\n",
" </td>\n",
" </tr>\n",
"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>OD</span></div><div class='xr-var-dims'>(compZ_current_sg, runs, x, y)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(14, 2, 1200, 1920), meta=np.ndarray&gt;</div><input id='attrs-fcf5da1f-5026-4433-97fc-ff7868abe070' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-fcf5da1f-5026-4433-97fc-ff7868abe070' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-efa6b255-ffde-4831-8d1b-1758ddb230cc' class='xr-var-data-in' type='checkbox'><label for='data-efa6b255-ffde-4831-8d1b-1758ddb230cc' 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> 10.30 GiB </td>\n",
" <td> 492.19 MiB </td>\n",
" </tr>\n",
" \n",
" <tr>\n",
" <th> Shape </th>\n",
" <td> (300, 2, 1200, 1920) </td>\n",
" <td> (14, 2, 1200, 1920) </td>\n",
" </tr>\n",
" <tr>\n",
" <th> Dask graph </th>\n",
" <td colspan=\"2\"> 22 chunks in 5422 graph layers </td>\n",
" </tr>\n",
" <tr>\n",
" <th> Data type </th>\n",
" <td colspan=\"2\"> float64 numpy.ndarray </td>\n",
" </tr>\n",
" </tbody>\n",
" </table>\n",
" </td>\n",
" <td>\n",
" <svg width=\"404\" height=\"139\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
"\n",
" <!-- Horizontal lines -->\n",
" <line x1=\"0\" y1=\"0\" x2=\"40\" y2=\"0\" style=\"stroke-width:2\" />\n",
" <line x1=\"0\" y1=\"25\" x2=\"40\" y2=\"25\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
" <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"25\" style=\"stroke-width:2\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"1\" y1=\"0\" x2=\"1\" y2=\"25\" />\n",
" <line x1=\"3\" y1=\"0\" x2=\"3\" y2=\"25\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <line x1=\"5\" y1=\"0\" x2=\"5\" y2=\"25\" />\n",
" <line x1=\"7\" y1=\"0\" x2=\"7\" y2=\"25\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"9\" y1=\"0\" x2=\"9\" y2=\"25\" />\n",
" <line x1=\"11\" y1=\"0\" x2=\"11\" y2=\"25\" />\n",
" <line x1=\"13\" y1=\"0\" x2=\"13\" y2=\"25\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <line x1=\"15\" y1=\"0\" x2=\"15\" y2=\"25\" />\n",
" <line x1=\"17\" y1=\"0\" x2=\"17\" y2=\"25\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"19\" y1=\"0\" x2=\"19\" y2=\"25\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
" <line x1=\"20\" y1=\"0\" x2=\"20\" y2=\"25\" />\n",
" <line x1=\"22\" y1=\"0\" x2=\"22\" y2=\"25\" />\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"24\" y1=\"0\" x2=\"24\" y2=\"25\" />\n",
" <line x1=\"26\" y1=\"0\" x2=\"26\" y2=\"25\" />\n",
" <line x1=\"28\" y1=\"0\" x2=\"28\" y2=\"25\" />\n",
" <line x1=\"30\" y1=\"0\" x2=\"30\" y2=\"25\" />\n",
" <line x1=\"32\" y1=\"0\" x2=\"32\" y2=\"25\" />\n",
" <line x1=\"34\" y1=\"0\" x2=\"34\" y2=\"25\" />\n",
" <line x1=\"36\" y1=\"0\" x2=\"36\" y2=\"25\" />\n",
" <line x1=\"38\" y1=\"0\" x2=\"38\" y2=\"25\" />\n",
" <line x1=\"40\" y1=\"0\" x2=\"40\" y2=\"25\" />\n",
" <line x1=\"40\" y1=\"0\" x2=\"40\" y2=\"25\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"0.0,0.0 40.90179082482365,0.0 40.90179082482365,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Text -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <text x=\"20.450895\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >300</text>\n",
" <text x=\"60.901791\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,60.901791,12.706308)\">1</text>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"124\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"110\" y1=\"75\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"110\" y2=\"75\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"14\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"110.0,0.0 124.9485979497544,14.948597949754403 124.9485979497544,89.9485979497544 110.0,75.0\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"230\" y2=\"0\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"14\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"110\" y1=\"0\" x2=\"124\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"230\" y1=\"0\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"110.0,0.0 230.0,0.0 244.9485979497544,14.948597949754403 124.9485979497544,14.948597949754403\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Horizontal lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"124\" y1=\"14\" x2=\"244\" y2=\"14\" style=\"stroke-width:2\" />\n",
" <line x1=\"124\" y1=\"89\" x2=\"244\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Vertical lines -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <line x1=\"124\" y1=\"14\" x2=\"124\" y2=\"89\" style=\"stroke-width:2\" />\n",
" <line x1=\"244\" y1=\"14\" x2=\"244\" y2=\"89\" style=\"stroke-width:2\" />\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Colored Rectangle -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <polygon points=\"124.9485979497544,14.948597949754403 244.9485979497544,14.948597949754403 244.9485979497544,89.9485979497544 124.9485979497544,89.9485979497544\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
" <!-- Text -->\n",
finish of fitting
2023-05-04 13:47:33 +02:00
" <text x=\"184.948598\" y=\"109.948598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1920</text>\n",
" <text x=\"264.948598\" y=\"52.448598\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,264.948598,52.448598)\">1200</text>\n",
" <text x=\"107.474299\" y=\"102.474299\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(45,107.474299,102.474299)\">2</text>\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"</svg>\n",
" </td>\n",
" </tr>\n",
finish of fitting
2023-05-04 13:47:33 +02:00
"</table></div></li></ul></div></li><li class='xr-section-item'><input id='section-445d4cf1-ba85-463f-8e41-58b1d015498e' class='xr-section-summary-in' type='checkbox' ><label for='section-445d4cf1-ba85-463f-8e41-58b1d015498e' 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>compZ_current_sg</div></div><div class='xr-index-preview'>PandasIndex</div><div></div><input id='index-e02b6d8e-5e4a-4c22-82f4-1269725ca7d8' class='xr-index-data-in' type='checkbox'/><label for='index-e02b6d8e-5e4a-4c22-82f4-1269725ca7d8' 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([ 0.175, 0.176, 0.177,\n",
" 0.178, 0.179, 0.18,\n",
" 0.181, 0.182, 0.183,\n",
" 0.184,\n",
" ...\n",
" 0.46500000000000025, 0.46600000000000025, 0.46700000000000025,\n",
" 0.46800000000000025, 0.46900000000000025, 0.47000000000000025,\n",
" 0.47100000000000025, 0.47200000000000025, 0.47300000000000025,\n",
" 0.47400000000000025],\n",
" dtype=&#x27;float64&#x27;, name=&#x27;compZ_current_sg&#x27;, length=300))</pre></div></li><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-6cdddac2-04ae-40a6-b5ec-fc93ffd2006c' class='xr-index-data-in' type='checkbox'/><label for='index-6cdddac2-04ae-40a6-b5ec-fc93ffd2006c' 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], dtype=&#x27;float64&#x27;, name=&#x27;runs&#x27;))</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-dd5124d7-280a-42f6-b0e4-b3ea99e0b59f' class='xr-section-summary-in' type='checkbox' ><label for='section-dd5124d7-280a-42f6-b0e4-b3ea99e0b59f' 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_final_current :</span></dt><dd>0.286</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>1.0</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>101.8</dd><dt><span>mod_depth_1_fin :</span
" 0.187 0.188 0.189 0.19 0.191 0.192 0.193 0.194 0.195 0.196 0.197 0.198\n",
" 0.199 0.2 0.201 0.202 0.203 0.204 0.205 0.206 0.207 0.208 0.209 0.21\n",
" 0.211 0.212 0.213 0.214 0.215 0.216 0.217 0.218 0.219 0.22 0.221 0.222\n",
" 0.223 0.224 0.225 0.226 0.227 0.228 0.229 0.23 0.231 0.232 0.233 0.234\n",
" 0.235 0.236 0.237 0.238 0.239 0.24 0.241 0.242 0.243 0.244 0.245 0.246\n",
" 0.247 0.248 0.249 0.25 0.251 0.252 0.253 0.254 0.255 0.256 0.257 0.258\n",
" 0.259 0.26 0.261 0.262 0.263 0.264 0.265 0.266 0.267 0.268 0.269 0.27\n",
" 0.271 0.272 0.273 0.274 0.275 0.276 0.277 0.278 0.279 0.28 0.281 0.282\n",
" 0.283 0.284 0.285 0.286 0.287 0.288 0.289 0.29 0.291 0.292 0.293 0.294\n",
" 0.295 0.296 0.297 0.298 0.299 0.3 0.301 0.302 0.303 0.304 0.305 0.306\n",
" 0.307 0.308 0.309 0.31 0.311 0.312 0.313 0.314 0.315 0.316 0.317 0.318\n",
" 0.319 0.32 0.321 0.322 0.323 0.324 0.325 0.326 0.327 0.328 0.329 0.33\n",
" 0.331 0.332 0.333 0.334 0.335 0.336 0.337 0.338 0.339 0.34 0.341 0.342\n",
" 0.343 0.344 0.345 0.346 0.347 0.348 0.349 0.35 0.351 0.352 0.353 0.354\n",
" 0.355 0.356 0.357 0.358 0.359 0.36 0.361 0.362 0.363 0.364 0.365 0.366\n",
" 0.367 0.368 0.369 0.37 0.371 0.372 0.373 0.374 0.375 0.376 0.377 0.378\n",
" 0.379 0.38 0.381 0.382 0.383 0.384 0.385 0.386 0.387 0.388 0.389 0.39\n",
" 0.391 0.392 0.393 0.394 0.395 0.396 0.397 0.398 0.399 0.4 0.401 0.402\n",
" 0.403 0.404 0.405 0.406 0.407 0.408 0.409 0.41 0.411 0.412 0.413 0.414\n",
" 0.415 0.416 0.417 0.418 0.419 0.42 0.421 0.422 0.423 0.424 0.425 0.426\n",
" 0.427 0.428 0.429 0.43 0.431 0.432 0.433 0.434 0.435 0.436 0.437 0.438\n",
" 0.439 0.44 0.441 0.442 0.443 0.444 0.445 0.446 0.447 0.448 0.449 0.45\n",
" 0.451 0.452 0.453 0.454 0.455 0.456 0.457 0.458 0.459 0.46 0.461 0.462\n",
" 0.463 0.464 0.465 0.466 0.467 0.468 0.469 0.47 0.471 0.472 0.473 0.474\n",
" 0.175 0.176 0.177 0.178 0.179 0.18 0.181 0.182 0.183 0.184 0.185 0.186\n",
" 0.187 0.188 0.189 0.19 0.191 0.192 0.193 0.194 0.195 0.196 0.197 0.198\n",
" 0.199 0.2 0.201 0.202 0.203 0.204 0.205 0.206 0.207 0.208 0.209 0.21\n",
" 0.211 0.212 0.213 0.214 0.215 0.216 0.217 0.218 0.219 0.22 0.221 0.222\n",
" 0.223 0.224 0.225 0.226 0.227 0.228 0.229 0.23 0.231 0.232 0.233 0.234\n",
" 0.235 0.236 0.237 0.238 0.239 0.24 0.241 0.242 0.243 0.244 0.245 0.246\n",
" 0.247 0.248 0.249 0.25 0.251 0.252 0.253 0.254 0.255 0.256 0.257 0.258\n",
" 0.259 0.26 0.261 0.262 0.263 0.264 0.265 0.266 0.267 0.268 0.269 0.27\n",
" 0.271 0.272 0.273 0.274 0.275 0.276 0.277 0.278 0.279 0.28 0.281 0.282\n",
" 0.283 0.284 0.285 0.286 0.287 0.288 0.289 0.29 0.291 0.292 0.293 0.294\n",
" 0.295 0.296 0.297 0.298 0.299 0.3 0.301 0.302 0.303 0.304 0.305 0.306\n",
" 0.307 0.308 0.309 0.31 0.311 0.312 0.313 0.314 0.315 0.316 0.317 0.318\n",
" 0.319 0.32 0.321 0.322 0.323 0.324 0.325 0.326 0.327 0.328 0.329 0.33\n",
" 0.331 0.332 0.333 0.334 0.335 0.336 0.337 0.338 0.339 0.34 0.341 0.342\n",
" 0.343 0.344 0.345 0.346 0.347 0.348 0.349 0.35 0.351 0.352 0.353 0.354\n",
" 0.355 0.356 0.357 0.358 0.359 0.36 0.361 0.362 0.363 0.364 0.365 0.366\n",
" 0.367 0.368 0.369 0.37 0.371 0.372 0.373 0.374 0.375 0.376 0.377 0.378\n",
" 0.379 0.38 0.381 0.382 0.383 0.384 0.385 0.386 0.387 0.388 0.389 0.39\n",
" 0.391 0.392 0.393 0.394 0.395 0.396 0.397 0.398 0.399 0.4 0.401 0.402\n",
" 0.403 0.404 0.405 0.406 0.407 0.408 0.409 0.41 0.411 0.412 0.413 0.414\n",
" 0.415 0.416 0.417 0.418 0.419 0.42 0.421 0.422 0.423 0.424 0.425 0.426\n",
" 0.427 0.428 0.429 0.43 0.431 0.432 0.433 0.434 0.435 0.436 0.437 0.438\n",
" 0.439 0.44 0.441 0.442 0.443 0.444 0.445 0.446 0.447 0.448 0.449 0.45\n",
" 0.451 0.452 0.453 0.454 0.455 0.456 0.457 0.458 0.459 0.46 0.461 0.462\n",
" 0.463 0.464 0.465 0.466 0.467 0.468 0.469 0.47 0.471 0.472 0.473 0.474]</dd><dt><span>runs :</span></dt><dd>[0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n",
" 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.\n",
" 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1. 1.]</dd><dt><span>scanAxis :</span></dt><dd>[&#x27;compZ_current_sg&#x27;, &#x27;runs&#x27;]</dd><dt><span>scanAxisLength :</span></dt><dd>[600. 600.]</dd></dl></div></li></ul></div></div>"
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],
"text/plain": [
"<xarray.Dataset>\n",
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"Dimensions: (compZ_current_sg: 300, runs: 2, x: 1200, y: 1920)\n",
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"Coordinates:\n",
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" * compZ_current_sg (compZ_current_sg) float64 0.175 0.176 ... 0.473 0.474\n",
" * runs (runs) float64 0.0 1.0\n",
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"Dimensions without coordinates: x, y\n",
"Data variables:\n",
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" atoms (compZ_current_sg, runs, x, y) uint16 dask.array<chunksize=(14, 2, 1200, 1920), meta=np.ndarray>\n",
" background (compZ_current_sg, runs, x, y) uint16 dask.array<chunksize=(14, 2, 1200, 1920), meta=np.ndarray>\n",
" dark (compZ_current_sg, runs, x, y) uint16 dask.array<chunksize=(14, 2, 1200, 1920), meta=np.ndarray>\n",
" shotNum (compZ_current_sg, runs) <U3 dask.array<chunksize=(300, 2), meta=np.ndarray>\n",
" OD (compZ_current_sg, runs, x, y) float64 dask.array<chunksize=(14, 2, 1200, 1920), meta=np.ndarray>\n",
"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",
" backup_data: True\n",
" blink_off_time: nan\n",
" blink_on_time: nan\n",
" ... ...\n",
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" z_offset: compZ_current_sg\n",
" z_offset_img: compZ_current_sg\n",
" compZ_current_sg: [0.175 0.176 0.177 0.178 0.179 0.18 0...\n",
" runs: [0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0...\n",
" scanAxis: ['compZ_current_sg', 'runs']\n",
" scanAxisLength: [600. 600.]"
]
},
"execution_count": 6,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"dataset = imageAnalyser.get_absorption_images(dataset)\n",
"\n",
"dataset"
]
},
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"## Select region of interests"
]
},
{
"cell_type": "code",
"execution_count": 7,
"metadata": {},
"outputs": [],
"source": [
"imageAnalyser.center = (880, 960)\n",
"imageAnalyser.span = (100,100)\n",
"imageAnalyser.fraction = (0.1, 0.1)\n",
"\n",
"# imageAnalyser.center = (890, 1150)\n",
"# imageAnalyser.span = (600,600)\n",
"# imageAnalyser.fraction = (0.1, 0.1)\n",
"\n",
"# imageAnalyser.center = (890, 950)\n",
"# imageAnalyser.span = (100,100)\n",
"# imageAnalyser.fraction = (0.1, 0.1)\n",
"\n",
"dataset_crop = imageAnalyser.crop_image(dataset)"
]
},
{
"cell_type": "code",
"execution_count": 8,
"metadata": {},
"outputs": [
{
"data": {
"text/plain": [
"<xarray.plot.facetgrid.FacetGrid at 0x29de9b6b160>"
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]
},
"execution_count": 8,
"metadata": {},
"output_type": "execute_result"
finish of fitting
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},
{
"data": {
"image/png": "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
"text/plain": [
"<Figure size 504x432 with 5 Axes>"
]
},
"metadata": {
"needs_background": "light"
},
"output_type": "display_data"
finish reading from hdf5
2023-04-24 13:03:23 +02:00
}
],
"source": [
finish of fitting
2023-05-04 13:47:33 +02:00
"dataset_crop.OD.isel(**{scanAxis[0]:np.arange(2), 'runs':range(dataset_crop.OD['runs'].size)}).plot.pcolormesh(cmap='jet', vmin=0, col=scanAxis[0], row=scanAxis[1])"
]
},
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"## Remove the background"
finish reading from hdf5
2023-04-24 13:03:23 +02:00
]
},
{
"cell_type": "code",
finish of fitting
2023-05-04 13:47:33 +02:00
"execution_count": 9,
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"metadata": {},
"outputs": [],
"source": [
finish of fitting
2023-05-04 13:47:33 +02:00
"dataset_crop['OD'] = dataset_crop['OD'] + 500"
]
},
{
"cell_type": "code",
"execution_count": 10,
"metadata": {},
"outputs": [],
"source": [
"dataset_crop['OD'] = imageAnalyser.substract_offset(dataset_crop['OD'])"
]
},
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"# Test Fit"
]
},
{
"cell_type": "code",
"execution_count": 11,
"metadata": {},
"outputs": [],
"source": [
"fitAnalyser = FitAnalyser(\"Gaussian-2D\", fitDim=2)\n",
finish reading from hdf5
2023-04-24 13:03:23 +02:00
"\n",
finish of fitting
2023-05-04 13:47:33 +02:00
"params = fitAnalyser.guess(dataset_crop.OD, dask=\"parallelized\")"
]
},
{
"cell_type": "code",
"execution_count": 12,
"metadata": {},
"outputs": [],
"source": [
"fitResult = fitAnalyser.fit(dataset_crop.OD, params, dask=\"parallelized\")"
]
},
{
"cell_type": "code",
"execution_count": 13,
"metadata": {},
"outputs": [],
"source": [
"fitCurve = fitAnalyser.eval(fitResult, x=np.arange(100), y=np.arange(100))"
]
},
{
"cell_type": "code",
"execution_count": 14,
"metadata": {},
"outputs": [
{
"data": {
"text/plain": [
"<xarray.plot.facetgrid.FacetGrid at 0x29df5f34a00>"
]
},
"execution_count": 14,
"metadata": {},
"output_type": "execute_result"
},
{
"data": {
"image/png": "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
"text/plain": [
"<Figure size 504x432 with 5 Axes>"
]
},
"metadata": {
"needs_background": "light"
},
"output_type": "display_data"
}
],
"source": [
"fitCurve.isel(**{scanAxis[0]:np.arange(2), 'runs':range(dataset_crop.OD['runs'].size)}).plot.pcolormesh(cmap='jet', vmin=0, col=scanAxis[0], row=scanAxis[1])"
]
},
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"# Get the Ncount"
]
},
{
"cell_type": "code",
"execution_count": 15,
"metadata": {},
"outputs": [],
"source": [
"Ncount = dataset_crop.OD.sum(dim=(scanAxis[1], 'x', 'y'))"
]
},
{
"cell_type": "code",
"execution_count": 24,
"metadata": {},
"outputs": [
{
"ename": "AttributeError",
"evalue": "'Line2D' object has no property 'fig'",
"output_type": "error",
"traceback": [
"\u001b[1;31m---------------------------------------------------------------------------\u001b[0m",
"\u001b[1;31mAttributeError\u001b[0m Traceback (most recent call last)",
"\u001b[1;32md:\\Jianshun Gao\\Simulations\\analyseScripts\\test.ipynb Cell 27\u001b[0m in \u001b[0;36m<cell line: 2>\u001b[1;34m()\u001b[0m\n\u001b[0;32m <a href='vscode-notebook-cell:/d%3A/Jianshun%20Gao/Simulations/analyseScripts/test.ipynb#X36sZmlsZQ%3D%3D?line=0'>1</a>\u001b[0m fig \u001b[39m=\u001b[39m plt\u001b[39m.\u001b[39mfigure()\n\u001b[1;32m----> <a href='vscode-notebook-cell:/d%3A/Jianshun%20Gao/Simulations/analyseScripts/test.ipynb#X36sZmlsZQ%3D%3D?line=1'>2</a>\u001b[0m Ncount\u001b[39m.\u001b[39;49mplot(fig\u001b[39m=\u001b[39;49mfig)\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\xarray\\plot\\accessor.py:46\u001b[0m, in \u001b[0;36mDataArrayPlotAccessor.__call__\u001b[1;34m(self, **kwargs)\u001b[0m\n\u001b[0;32m 44\u001b[0m \u001b[39m@functools\u001b[39m\u001b[39m.\u001b[39mwraps(dataarray_plot\u001b[39m.\u001b[39mplot, assigned\u001b[39m=\u001b[39m(\u001b[39m\"\u001b[39m\u001b[39m__doc__\u001b[39m\u001b[39m\"\u001b[39m, \u001b[39m\"\u001b[39m\u001b[39m__annotations__\u001b[39m\u001b[39m\"\u001b[39m))\n\u001b[0;32m 45\u001b[0m \u001b[39mdef\u001b[39;00m \u001b[39m__call__\u001b[39m(\u001b[39mself\u001b[39m, \u001b[39m*\u001b[39m\u001b[39m*\u001b[39mkwargs) \u001b[39m-\u001b[39m\u001b[39m>\u001b[39m Any:\n\u001b[1;32m---> 46\u001b[0m \u001b[39mreturn\u001b[39;00m dataarray_plot\u001b[39m.\u001b[39;49mplot(\u001b[39mself\u001b[39;49m\u001b[39m.\u001b[39;49m_da, \u001b[39m*\u001b[39;49m\u001b[39m*\u001b[39;49mkwargs)\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\xarray\\plot\\dataarray_plot.py:312\u001b[0m, in \u001b[0;36mplot\u001b[1;34m(darray, row, col, col_wrap, ax, hue, subplot_kws, **kwargs)\u001b[0m\n\u001b[0;32m 308\u001b[0m plotfunc \u001b[39m=\u001b[39m hist\n\u001b[0;32m 310\u001b[0m kwargs[\u001b[39m\"\u001b[39m\u001b[39max\u001b[39m\u001b[39m\"\u001b[39m] \u001b[39m=\u001b[39m ax\n\u001b[1;32m--> 312\u001b[0m \u001b[39mreturn\u001b[39;00m plotfunc(darray, \u001b[39m*\u001b[39;49m\u001b[39m*\u001b[39;49mkwargs)\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\xarray\\plot\\dataarray_plot.py:517\u001b[0m, in \u001b[0;36mline\u001b[1;34m(darray, row, col, figsize, aspect, size, ax, hue, x, y, xincrease, yincrease, xscale, yscale, xticks, yticks, xlim, ylim, add_legend, _labels, *args, **kwargs)\u001b[0m\n\u001b[0;32m 513\u001b[0m ylabel \u001b[39m=\u001b[39m label_from_attrs(yplt, extra\u001b[39m=\u001b[39my_suffix)\n\u001b[0;32m 515\u001b[0m _ensure_plottable(xplt_val, yplt_val)\n\u001b[1;32m--> 517\u001b[0m primitive \u001b[39m=\u001b[39m ax\u001b[39m.\u001b[39;49mplot(xplt_val, yplt_val, \u001b[39m*\u001b[39;49margs, \u001b[39m*\u001b[39;49m\u001b[39m*\u001b[39;49mkwargs)\n\u001b[0;32m 519\u001b[0m \u001b[39mif\u001b[39;00m _labels:\n\u001b[0;32m 520\u001b[0m \u001b[39mif\u001b[39;00m xlabel \u001b[39mis\u001b[39;00m \u001b[39mnot\u001b[39;00m \u001b[39mNone\u001b[39;00m:\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\matplotlib\\axes\\_axes.py:1632\u001b[0m, in \u001b[0;36mAxes.plot\u001b[1;34m(self, scalex, scaley, data, *args, **kwargs)\u001b[0m\n\u001b[0;32m 1390\u001b[0m \u001b[39m\"\"\"\u001b[39;00m\n\u001b[0;32m 1391\u001b[0m \u001b[39mPlot y versus x as lines and/or markers.\u001b[39;00m\n\u001b[0;32m 1392\u001b[0m \n\u001b[1;32m (...)\u001b[0m\n\u001b[0;32m 1629\u001b[0m \u001b[39m(``'green'``) or hex strings (``'#008000'``).\u001b[39;00m\n\u001b[0;32m 1630\u001b[0m \u001b[39m\"\"\"\u001b[39;00m\n\u001b[0;32m 1631\u001b[0m kwargs \u001b[39m=\u001b[39m cbook\u001b[39m.\u001b[39mnormalize_kwargs(kwargs, mlines\u001b[39m.\u001b[39mLine2D)\n\u001b[1;32m-> 1632\u001b[0m lines \u001b[39m=\u001b[39m [\u001b[39m*\u001b[39m\u001b[39mself\u001b[39m\u001b[39m.\u001b[39m_get_lines(\u001b[39m*\u001b[39margs, data\u001b[39m=\u001b[39mdata, \u001b[39m*\u001b[39m\u001b[39m*\u001b[39mkwargs)]\n\u001b[0;32m 1633\u001b[0m \u001b[39mfor\u001b[39;00m line \u001b[39min\u001b[39;00m lines:\n\u001b[0;32m 1634\u001b[0m \u001b[39mself\u001b[39m\u001b[39m.\u001b[39madd_line(line)\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\matplotlib\\axes\\_base.py:312\u001b[0m, in \u001b[0;36m_process_plot_var_args.__call__\u001b[1;34m(self, data, *args, **kwargs)\u001b[0m\n\u001b[0;32m 310\u001b[0m this \u001b[39m+\u001b[39m\u001b[39m=\u001b[39m args[\u001b[39m0\u001b[39m],\n\u001b[0;32m 311\u001b[0m args \u001b[39m=\u001b[39m args[\u001b[39m1\u001b[39m:]\n\u001b[1;32m--> 312\u001b[0m \u001b[39myield from\u001b[39;00m \u001b[39mself\u001b[39;49m\u001b[39m.\u001b[39;49m_plot_args(this, kwargs)\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\matplotlib\\axes\\_base.py:538\u001b[0m, in \u001b[0;36m_process_plot_var_args._plot_args\u001b[1;34m(self, tup, kwargs, return_kwargs)\u001b[0m\n\u001b[0;32m 536\u001b[0m \u001b[39mreturn\u001b[39;00m \u001b[39mlist\u001b[39m(result)\n\u001b[0;32m 537\u001b[0m \u001b[39melse\u001b[39;00m:\n\u001b[1;32m--> 538\u001b[0m \u001b[39mreturn\u001b[39;00m [l[\u001b[39m0\u001b[39m] \u001b[39mfor\u001b[39;00m l \u001b[39min\u001b[39;00m result]\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\matplotlib\\axes\\_base.py:538\u001b[0m, in \u001b[0;36m<listcomp>\u001b[1;34m(.0)\u001b[0m\n\u001b[0;32m 536\u001b[0m \u001b[39mreturn\u001b[39;00m \u001b[39mlist\u001b[39m(result)\n\u001b[0;32m 537\u001b[0m \u001b[39melse\u001b[39;00m:\n\u001b[1;32m--> 538\u001b[0m \u001b[39mreturn\u001b[39;00m [l[\u001b[39m0\u001b[39m] \u001b[39mfor\u001b[39;00m l \u001b[39min\u001b[39;00m result]\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\matplotlib\\axes\\_base.py:531\u001b[0m, in \u001b[0;36m<genexpr>\u001b[1;34m(.0)\u001b[0m\n\u001b[0;32m 528\u001b[0m \u001b[39melse\u001b[39;00m:\n\u001b[0;32m 529\u001b[0m labels \u001b[39m=\u001b[39m [label] \u001b[39m*\u001b[39m n_datasets\n\u001b[1;32m--> 531\u001b[0m result \u001b[39m=\u001b[39m (make_artist(x[:, j \u001b[39m%\u001b[39;49m ncx], y[:, j \u001b[39m%\u001b[39;49m ncy], kw,\n\u001b[0;32m 532\u001b[0m {\u001b[39m*\u001b[39;49m\u001b[39m*\u001b[39;49mkwargs, \u001b[39m'\u001b[39;49m\u001b[39mlabel\u001b[39;49m\u001b[39m'\u001b[39;49m: label})\n\u001b[0;32m 533\u001b[0m \u001b[39mfor\u001b[39;00m j, label \u001b[39min\u001b[39;00m \u001b[39menumerate\u001b[39m(labels))\n\u001b[0;32m 535\u001b[0m \u001b[39mif\u001b[39;00m return_kwargs:\n\u001b[0;32m 536\u001b[0m \u001b[39mreturn\u001b[39;00m \u001b[39mlist\u001b[39m(result)\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\matplotlib\\axes\\_base.py:351\u001b[0m, in \u001b[0;36m_process_plot_var_args._makeline\u001b[1;34m(self, x, y, kw, kwargs)\u001b[0m\n\u001b[0;32m 349\u001b[0m default_dict \u001b[39m=\u001b[39m \u001b[39mself\u001b[39m\u001b[39m.\u001b[39m_getdefaults(\u001b[39mset\u001b[39m(), kw)\n\u001b[0;32m 350\u001b[0m \u001b[39mself\u001b[39m\u001b[39m.\u001b[39m_setdefaults(default_dict, kw)\n\u001b[1;32m--> 351\u001b[0m seg \u001b[39m=\u001b[39m mlines\u001b[39m.\u001b[39;49mLine2D(x, y, \u001b[39m*\u001b[39;49m\u001b[39m*\u001b[39;49mkw)\n\u001b[0;32m 352\u001b[0m \u001b[39mreturn\u001b[39;00m seg, kw\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\matplotlib\\lines.py:393\u001b[0m, in \u001b[0;36mLine2D.__init__\u001b[1;34m(self, xdata, ydata, linewidth, linestyle, color, marker, markersize, markeredgewidth, markeredgecolor, markerfacecolor, markerfacecoloralt, fillstyle, antialiased, dash_capstyle, solid_capstyle, dash_joinstyle, solid_joinstyle, pickradius, drawstyle, markevery, **kwargs)\u001b[0m\n\u001b[0;32m 389\u001b[0m \u001b[39mself\u001b[39m\u001b[39m.\u001b[39mset_markeredgewidth(markeredgewidth)\n\u001b[0;32m 391\u001b[0m \u001b[39m# update kwargs before updating data to give the caller a\u001b[39;00m\n\u001b[0;32m 392\u001b[0m \u001b[39m# chance to init axes (and hence unit support)\u001b[39;00m\n\u001b[1;32m--> 393\u001b[0m \u001b[39mself\u001b[39;49m\u001b[39m.\u001b[39;49mupdate(kwargs)\n\u001b[0;32m 394\u001b[0m \u001b[39mself\u001b[39m\u001b[39m.\u001b[39mpickradius \u001b[39m=\u001b[39m pickradius\n\u001b[0;32m 395\u001b[0m \u001b[39mself\u001b[39m\u001b[39m.\u001b[39mind_offset \u001b[39m=\u001b[39m \u001b[39m0\u001b[39m\n",
"File \u001b[1;32mD:\\Program Files\\Python\\Python38\\Lib\\site-packages\\matplotlib\\artist.py:1064\u001b[0m, in \u001b[0;36mArtist.update\u001b[1;34m(self, props)\u001b[0m\n\u001b[0;32m 1062\u001b[0m func \u001b[39m=\u001b[39m \u001b[39mgetattr\u001b[39m(\u001b[39mself\u001b[39m, \u001b[39mf\u001b[39m\u001b[39m\"\u001b[39m\u001b[39mset_\u001b[39m\u001b[39m{\u001b[39;00mk\u001b[39m}\u001b[39;00m\u001b[39m\"\u001b[39m, \u001b[39mNone\u001b[39;00m)\n\u001b[0;32m 1063\u001b[0m \u001b[39mif\u001b[39;00m \u001b[39mnot\u001b[39;00m callable(func):\n\u001b[1;32m-> 1064\u001b[0m \u001b[39mraise\u001b[39;00m \u001b[39mAttributeError\u001b[39;00m(\u001b[39mf\u001b[39m\u001b[39m\"\u001b[39m\u001b[39m{\u001b[39;00m\u001b[39mtype\u001b[39m(\u001b[39mself\u001b[39m)\u001b[39m.\u001b[39m\u001b[39m__name__\u001b[39m\u001b[39m!r}\u001b[39;00m\u001b[39m object \u001b[39m\u001b[39m\"\u001b[39m\n\u001b[0;32m 1065\u001b[0m \u001b[39mf\u001b[39m\u001b[39m\"\u001b[39m\u001b[39mhas no property \u001b[39m\u001b[39m{\u001b[39;00mk\u001b[39m!r}\u001b[39;00m\u001b[39m\"\u001b[39m)\n\u001b[0;32m 1066\u001b[0m ret\u001b[39m.\u001b[39mappend(func(v))\n\u001b[0;32m 1067\u001b[0m \u001b[39mif\u001b[39;00m ret:\n",
"\u001b[1;31mAttributeError\u001b[0m: 'Line2D' object has no property 'fig'"
]
},
{
"data": {
"image/png": "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
"text/plain": [
"<Figure size 432x288 with 1 Axes>"
]
},
"metadata": {
"needs_background": "light"
},
"output_type": "display_data"
}
],
"source": [
"# fig = plt.figure()\n",
"# Ncount.plot(fig=fig)"
]
},
{
"cell_type": "code",
"execution_count": 23,
"metadata": {},
"outputs": [
{
"ename": "AttributeError",
"evalue": "'Line2D' object has no attribute 'ylim'",
"output_type": "error",
"traceback": [
"\u001b[1;31m---------------------------------------------------------------------------\u001b[0m",
"\u001b[1;31mAttributeError\u001b[0m Traceback (most recent call last)",
"\u001b[1;32md:\\Jianshun Gao\\Simulations\\analyseScripts\\test.ipynb Cell 28\u001b[0m in \u001b[0;36m<cell line: 1>\u001b[1;34m()\u001b[0m\n\u001b[1;32m----> <a href='vscode-notebook-cell:/d%3A/Jianshun%20Gao/Simulations/analyseScripts/test.ipynb#X40sZmlsZQ%3D%3D?line=0'>1</a>\u001b[0m ax[\u001b[39m0\u001b[39;49m]\u001b[39m.\u001b[39;49mylim([\u001b[39m0\u001b[39m, \u001b[39m2000\u001b[39m])\n\u001b[0;32m <a href='vscode-notebook-cell:/d%3A/Jianshun%20Gao/Simulations/analyseScripts/test.ipynb#X40sZmlsZQ%3D%3D?line=1'>2</a>\u001b[0m plt\u001b[39m.\u001b[39mshow()\n",
"\u001b[1;31mAttributeError\u001b[0m: 'Line2D' object has no attribute 'ylim'"
]
}
],
"source": [
"fig"
finish reading from hdf5
2023-04-24 13:03:23 +02:00
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
}
],
"metadata": {
"kernelspec": {
finish of fitting
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"display_name": "env",
finish reading from hdf5
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"language": "python",
"name": "python3"
},
"language_info": {
"codemirror_mode": {
"name": "ipython",
"version": 3
},
"file_extension": ".py",
"mimetype": "text/x-python",
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.10"
},
finish of fitting
2023-05-04 13:47:33 +02:00
"orig_nbformat": 4,
"vscode": {
"interpreter": {
"hash": "c05913ad4f24fdc6b2418069394dc5835b1981849b107c9ba6df693aafd66650"
}
}
finish reading from hdf5
2023-04-24 13:03:23 +02:00
},
"nbformat": 4,
"nbformat_minor": 2
}
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