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GeoTiles - connect.ipynb
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"<a href=\"https://colab.research.google.com/gist/fwrite/c8e146dc4ed26cd108744279a860a80d/geotiles-connect.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
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"id": "pulMT6lbNbrE"
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"source": [
"# GeoTiles\n",
"\n",
"How to connect to the data cube using Google Colab.\n",
"This example will install the required packages and connect to the data cube."
]
},
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"# This will install the necessary packages.\n",
"# If you are running the script locally,\n",
"# you may want to do this via your package manager.\n",
"!pip install --upgrade zarr xarray fsspec aiohttp"
],
"execution_count": 1,
"outputs": [
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"text": [
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"\r\u001b[K |██▍ | 10kB 9.2MB/s eta 0:00:01\r\u001b[K |████▊ | 20kB 13.1MB/s eta 0:00:01\r\u001b[K |███████ | 30kB 16.8MB/s eta 0:00:01\r\u001b[K |█████████▍ | 40kB 18.7MB/s eta 0:00:01\r\u001b[K |███████████▊ | 51kB 20.8MB/s eta 0:00:01\r\u001b[K |██████████████ | 61kB 22.0MB/s eta 0:00:01\r\u001b[K |████████████████▍ | 71kB 23.2MB/s eta 0:00:01\r\u001b[K |██████████████████▊ | 81kB 23.1MB/s eta 0:00:01\r\u001b[K |█████████████████████ | 92kB 23.8MB/s eta 0:00:01\r\u001b[K |███████████████████████▍ | 102kB 24.1MB/s eta 0:00:01\r\u001b[K |█████████████████████████▊ | 112kB 24.1MB/s eta 0:00:01\r\u001b[K |████████████████████████████ | 122kB 24.1MB/s eta 0:00:01\r\u001b[K |██████████████████████████████▍ | 133kB 24.1MB/s eta 0:00:01\r\u001b[K |████████████████████████████████| 143kB 24.1MB/s \n",
"\u001b[?25hRequirement already up-to-date: xarray in /usr/local/lib/python3.7/dist-packages (0.18.2)\n",
"Collecting fsspec\n",
"\u001b[?25l Downloading https://files.pythonhosted.org/packages/0e/3a/666e63625a19883ae8e1674099e631f9737bd5478c4790e5ad49c5ac5261/fsspec-2021.6.1-py3-none-any.whl (115kB)\n",
"\u001b[K |████████████████████████████████| 122kB 31.9MB/s \n",
"\u001b[?25hCollecting aiohttp\n",
"\u001b[?25l Downloading https://files.pythonhosted.org/packages/88/c0/5890b4c8b04a79b7360e8fe4490feb0bb3ab179743f199f0e6220cebd568/aiohttp-3.7.4.post0-cp37-cp37m-manylinux2014_x86_64.whl (1.3MB)\n",
"\u001b[K |████████████████████████████████| 1.3MB 36.2MB/s \n",
"\u001b[?25hCollecting asciitree\n",
" Downloading https://files.pythonhosted.org/packages/2d/6a/885bc91484e1aa8f618f6f0228d76d0e67000b0fdd6090673b777e311913/asciitree-0.3.3.tar.gz\n",
"Requirement already satisfied, skipping upgrade: numpy>=1.7 in /usr/local/lib/python3.7/dist-packages (from zarr) (1.19.5)\n",
"Collecting fasteners\n",
" Downloading https://files.pythonhosted.org/packages/31/91/6630ebd169ca170634ca8a10dfcc5f5c11b0621672d4c2c9e40381c6d81a/fasteners-0.16.3-py2.py3-none-any.whl\n",
"Collecting numcodecs>=0.6.4\n",
"\u001b[?25l Downloading https://files.pythonhosted.org/packages/bc/b0/2de736cfc3e28b2e1bdddafa4204933f560a1871aec95f7ceff2e626bba7/numcodecs-0.8.0-cp37-cp37m-manylinux2010_x86_64.whl (6.1MB)\n",
"\u001b[K |████████████████████████████████| 6.1MB 24.3MB/s \n",
"\u001b[?25hRequirement already satisfied, skipping upgrade: pandas>=1.0 in /usr/local/lib/python3.7/dist-packages (from xarray) (1.1.5)\n",
"Requirement already satisfied, skipping upgrade: setuptools>=40.4 in /usr/local/lib/python3.7/dist-packages (from xarray) (57.0.0)\n",
"Collecting multidict<7.0,>=4.5\n",
"\u001b[?25l Downloading https://files.pythonhosted.org/packages/7c/a6/4123b8165acbe773d1a8dc8e3f0d1edea16d29f7de018eda769abb56bd30/multidict-5.1.0-cp37-cp37m-manylinux2014_x86_64.whl (142kB)\n",
"\u001b[K |████████████████████████████████| 143kB 50.7MB/s \n",
"\u001b[?25hRequirement already satisfied, skipping upgrade: typing-extensions>=3.6.5 in /usr/local/lib/python3.7/dist-packages (from aiohttp) (3.7.4.3)\n",
"Requirement already satisfied, skipping upgrade: chardet<5.0,>=2.0 in /usr/local/lib/python3.7/dist-packages (from aiohttp) (3.0.4)\n",
"Requirement already satisfied, skipping upgrade: attrs>=17.3.0 in /usr/local/lib/python3.7/dist-packages (from aiohttp) (21.2.0)\n",
"Collecting async-timeout<4.0,>=3.0\n",
" Downloading https://files.pythonhosted.org/packages/e1/1e/5a4441be21b0726c4464f3f23c8b19628372f606755a9d2e46c187e65ec4/async_timeout-3.0.1-py3-none-any.whl\n",
"Collecting yarl<2.0,>=1.0\n",
"\u001b[?25l Downloading https://files.pythonhosted.org/packages/f1/62/046834c5fc998c88ab2ef722f5d42122230a632212c8afa76418324f53ff/yarl-1.6.3-cp37-cp37m-manylinux2014_x86_64.whl (294kB)\n",
"\u001b[K |████████████████████████████████| 296kB 37.1MB/s \n",
"\u001b[?25hRequirement already satisfied, skipping upgrade: six in /usr/local/lib/python3.7/dist-packages (from fasteners->zarr) (1.15.0)\n",
"Requirement already satisfied, skipping upgrade: pytz>=2017.2 in /usr/local/lib/python3.7/dist-packages (from pandas>=1.0->xarray) (2018.9)\n",
"Requirement already satisfied, skipping upgrade: python-dateutil>=2.7.3 in /usr/local/lib/python3.7/dist-packages (from pandas>=1.0->xarray) (2.8.1)\n",
"Requirement already satisfied, skipping upgrade: idna>=2.0 in /usr/local/lib/python3.7/dist-packages (from yarl<2.0,>=1.0->aiohttp) (2.10)\n",
"Building wheels for collected packages: asciitree\n",
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" Stored in directory: /root/.cache/pip/wheels/1d/d9/58/9808b306744df0208fccc640d3d9952a5bc7468502d42897d5\n",
"Successfully built asciitree\n",
"Installing collected packages: asciitree, fasteners, numcodecs, zarr, fsspec, multidict, async-timeout, yarl, aiohttp\n",
"Successfully installed aiohttp-3.7.4.post0 asciitree-0.3.3 async-timeout-3.0.1 fasteners-0.16.3 fsspec-2021.6.1 multidict-5.1.0 numcodecs-0.8.0 yarl-1.6.3 zarr-2.8.3\n"
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"execution_count": 1,
"outputs": []
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"cell_type": "code",
"metadata": {
"id": "F62q37RhNazv"
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"source": [
"cube = xr.open_zarr('simplecache::https://geotiles.nl/cube.zarr',\n",
" group='/S2/R051', consolidated=True)"
],
"execution_count": 2,
"outputs": []
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"}\n",
"</style><pre class='xr-text-repr-fallback'>&lt;xarray.Dataset&gt;\n",
"Dimensions: (time: 354, x: 30000, y: 34375)\n",
"Coordinates:\n",
" * time (time) datetime64[D] 2015-07-06 2015-07-16 ... 2021-06-29\n",
" * x (x) float64 -5e+03 -4.99e+03 -4.98e+03 ... 2.95e+05 2.95e+05\n",
" * y (y) float64 6.312e+05 6.312e+05 6.312e+05 ... 2.875e+05 2.875e+05\n",
"Data variables: (12/20)\n",
" AOT (time, y, x) float32 dask.array&lt;chunksize=(10, 1500, 1875), meta=np.ndarray&gt;\n",
" B01 (time, y, x) float32 dask.array&lt;chunksize=(5, 500, 625), meta=np.ndarray&gt;\n",
" B02 (time, y, x) float32 dask.array&lt;chunksize=(5, 500, 625), meta=np.ndarray&gt;\n",
" B03 (time, y, x) float32 dask.array&lt;chunksize=(5, 500, 625), meta=np.ndarray&gt;\n",
" B04 (time, y, x) float32 dask.array&lt;chunksize=(5, 500, 625), meta=np.ndarray&gt;\n",
" B05 (time, y, x) float32 dask.array&lt;chunksize=(5, 500, 625), meta=np.ndarray&gt;\n",
" ... ...\n",
" SCL (time, y, x) float32 dask.array&lt;chunksize=(10, 1000, 1250), meta=np.ndarray&gt;\n",
" SNW (time, y, x) float32 dask.array&lt;chunksize=(10, 1500, 1875), meta=np.ndarray&gt;\n",
" WVP (time, y, x) float32 dask.array&lt;chunksize=(5, 1000, 1250), meta=np.ndarray&gt;\n",
" images (time) object dask.array&lt;chunksize=(13,), meta=np.ndarray&gt;\n",
" lat (y, x) float32 dask.array&lt;chunksize=(3438, 3750), meta=np.ndarray&gt;\n",
" lon (y, x) float32 dask.array&lt;chunksize=(3438, 3750), meta=np.ndarray&gt;</pre><div class='xr-wrap' hidden><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-cf1fd952-5ba3-46a9-9032-497634fd4a13' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-cf1fd952-5ba3-46a9-9032-497634fd4a13' 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'>time</span>: 354</li><li><span class='xr-has-index'>x</span>: 30000</li><li><span class='xr-has-index'>y</span>: 34375</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-f9211452-8401-4fa5-9a36-803970ca0f6d' class='xr-section-summary-in' type='checkbox' checked><label for='section-f9211452-8401-4fa5-9a36-803970ca0f6d' class='xr-section-summary' >Coordinates: <span>(3)</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'>time</span></div><div class='xr-var-dims'>(time)</div><div class='xr-var-dtype'>datetime64[D]</div><div class='xr-var-preview xr-preview'>2015-07-06 ... 2021-06-29</div><input id='attrs-aeef5e03-1f1a-40a5-ab68-45382dbd6b31' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-aeef5e03-1f1a-40a5-ab68-45382dbd6b31' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8479a221-c9c1-4bfa-8726-5ad81df30319' class='xr-var-data-in' type='checkbox'><label for='data-8479a221-c9c1-4bfa-8726-5ad81df30319' 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>long_name :</span></dt><dd>time</dd><dt><span>standard_name :</span></dt><dd>time</dd></dl></div><div class='xr-var-data'><pre>array([&#x27;2015-07-06&#x27;, &#x27;2015-07-16&#x27;, &#x27;2015-07-26&#x27;, ..., &#x27;2021-06-19&#x27;,\n",
" &#x27;2021-06-24&#x27;, &#x27;2021-06-29&#x27;], dtype=&#x27;datetime64[D]&#x27;)</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>x</span></div><div class='xr-var-dims'>(x)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>-5e+03 -4.99e+03 ... 2.95e+05</div><input id='attrs-212ffba9-b2b3-490a-90e1-aeee2379fecc' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-212ffba9-b2b3-490a-90e1-aeee2379fecc' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ee80e805-db06-44bb-8dd1-9a308c910143' class='xr-var-data-in' type='checkbox'><label for='data-ee80e805-db06-44bb-8dd1-9a308c910143' 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([ -5000., -4990., -4980., ..., 294970., 294980., 294990.])</pre></div></li><li class='xr-var-item'><div class='xr-var-name'><span class='xr-has-index'>y</span></div><div class='xr-var-dims'>(y)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>6.312e+05 6.312e+05 ... 2.875e+05</div><input id='attrs-846d493e-9351-41de-a8c3-361107e48aab' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-846d493e-9351-41de-a8c3-361107e48aab' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8aee93d1-b402-4d81-9b50-60e8726a9184' class='xr-var-data-in' type='checkbox'><label for='data-8aee93d1-b402-4d81-9b50-60e8726a9184' 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([631250., 631240., 631230., ..., 287530., 287520., 287510.])</pre></div></li></ul></div></li><li class='xr-section-item'><input id='section-c4a10807-9fe3-487a-8516-a01d05ae6cd5' class='xr-section-summary-in' type='checkbox' ><label for='section-c4a10807-9fe3-487a-8516-a01d05ae6cd5' class='xr-section-summary' >Data variables: <span>(20)</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>AOT</span></div><div class='xr-var-dims'>(time, y, x)</div><div class='xr-var-dtype'>float32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(10, 1500, 1875), meta=np.ndarray&gt;</div><input id='attrs-9c9a1c2e-add5-4d4f-b41b-c60660634a30' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-9c9a1c2e-add5-4d4f-b41b-c60660634a30' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-f9bfe581-ceec-4b45-bfda-a5f2bf4b92b7' class='xr-var-data-in' type='checkbox'><label for='data-f9bfe581-ceec-4b45-bfda-a5f2bf4b92b7' 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>grid_mapping :</span></dt><dd>crsRD: y x crsWGS84: lat lon</dd></dl></div><div class='xr-var-data'><table>\n",
"<tr>\n",
"<td>\n",
"<table>\n",
" <thead>\n",
" <tr><td> </td><th> Array </th><th> Chunk </th></tr>\n",
" </thead>\n",
" <tbody>\n",
" <tr><th> Bytes </th><td> 1.46 TB </td> <td> 112.50 MB </td></tr>\n",
" <tr><th> Shape </th><td> (354, 34375, 30000) </td> <td> (10, 1500, 1875) </td></tr>\n",
" <tr><th> Count </th><td> 13249 Tasks </td><td> 13248 Chunks </td></tr>\n",
" <tr><th> Type </th><td> float32 </td><td> numpy.ndarray </td></tr>\n",
" </tbody>\n",
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"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>B01</span></div><div class='xr-var-dims'>(time, y, x)</div><div class='xr-var-dtype'>float32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(5, 500, 625), meta=np.ndarray&gt;</div><input id='attrs-cace19aa-0da4-400d-adc4-6aa7366f81fc' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-cace19aa-0da4-400d-adc4-6aa7366f81fc' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-aeb3eeb5-7e1b-47d4-af1d-b779592736c9' class='xr-var-data-in' type='checkbox'><label for='data-aeb3eeb5-7e1b-47d4-af1d-b779592736c9' 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>grid_mapping :</span></dt><dd>crsRD: y x crsWGS84: lat lon</dd><dt><span>sensor_band_central_radiation_wavelength :</span></dt><dd>4.43e-07</dd><dt><span>standard_name :</span></dt><dd>surface_bidirectional_reflectance</dd></dl></div><div class='xr-var-data'><table>\n",
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"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>B02</span></div><div class='xr-var-dims'>(time, y, x)</div><div class='xr-var-dtype'>float32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(5, 500, 625), meta=np.ndarray&gt;</div><input id='attrs-416b0ca6-8e1c-4948-949e-6b7d49142a6f' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-416b0ca6-8e1c-4948-949e-6b7d49142a6f' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-1d158e4d-143e-46db-89fb-d5935e6a181f' class='xr-var-data-in' type='checkbox'><label for='data-1d158e4d-143e-46db-89fb-d5935e6a181f' 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>grid_mapping :</span></dt><dd>crsRD: y x crsWGS84: lat lon</dd><dt><span>sensor_band_central_radiation_wavelength :</span></dt><dd>4.9e-07</dd><dt><span>standard_name :</span></dt><dd>surface_bidirectional_reflectance</dd></dl></div><div class='xr-var-data'><table>\n",
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"</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>B03</span></div><div class='xr-var-dims'>(time, y, x)</div><div class='xr-var-dtype'>float32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(5, 500, 625), meta=np.ndarray&gt;</div><input id='attrs-cc868bd3-f999-4bea-bee7-a38bc1063986' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-cc868bd3-f999-4bea-bee7-a38bc1063986' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-6d676543-4799-4880-81f2-a2513ba5e9bd' class='xr-var-data-in' type='checkbox'><label for='data-6d676543-4799-4880-81f2-a2513ba5e9bd' 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>grid_mapping :</span></dt><dd>crsRD: y x crsWGS84: lat lon</dd><dt><span>sensor_band_central_radiation_wavelength :</span></dt><dd>5.6e-07</dd><dt><span>standard_name :</span></dt><dd>surface_bidirectional_reflectance</dd></dl></div><div class='xr-var-data'><table>\n",
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