hapnest_gwas.ipynb

{
 "cells": [
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Get Hapnest data onto Google Cloud"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "### Paths"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "metadata": {},
   "outputs": [],
   "source": [
    "hapnest_ftp_base = 'ftp://ftp.ebi.ac.uk//biostudies/fire/S-BSST/936/S-BSST936/Files/'\n",
    "example_dir = 'example/'\n",
    "genotypes_dir = 'genotypes/'\n",
    "phenotypes_dir = 'phenotypes/'"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "### Example files"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "hapnest_example_files = [\n",
    "    'synthetic_small_v1_chr-10.bed',\n",
    "    'synthetic_small_v1_chr-10.bim',\n",
    "    'synthetic_small_v1_chr-10.fam',\n",
    "    'synthetic_small_v1_chr-10.sample',\n",
    "    'synthetic_small_v1_chr-11.bed',\n",
    "    'synthetic_small_v1_chr-11.bim',\n",
    "    'synthetic_small_v1_chr-11.fam',\n",
    "    'synthetic_small_v1_chr-11.sample',\n",
    "    'synthetic_small_v1_chr-12.bed',\n",
    "    'synthetic_small_v1_chr-12.bim',\n",
    "    'synthetic_small_v1_chr-12.fam',\n",
    "    'synthetic_small_v1_chr-12.sample',\n",
    "    'synthetic_small_v1_chr-13.bed',\n",
    "    'synthetic_small_v1_chr-13.bim',\n",
    "    'synthetic_small_v1_chr-13.fam',\n",
    "    'synthetic_small_v1_chr-13.sample',\n",
    "    'synthetic_small_v1_chr-14.bed',\n",
    "    'synthetic_small_v1_chr-14.bim',\n",
    "    'synthetic_small_v1_chr-14.fam',\n",
    "    'synthetic_small_v1_chr-14.sample',\n",
    "    'synthetic_small_v1_chr-15.bed',\n",
    "    'synthetic_small_v1_chr-15.bim',\n",
    "    'synthetic_small_v1_chr-15.fam',\n",
    "    'synthetic_small_v1_chr-15.sample',\n",
    "    'synthetic_small_v1_chr-16.bed',\n",
    "    'synthetic_small_v1_chr-16.bim',\n",
    "    'synthetic_small_v1_chr-16.fam',\n",
    "    'synthetic_small_v1_chr-16.sample',\n",
    "    'synthetic_small_v1_chr-17.bed',\n",
    "    'synthetic_small_v1_chr-17.bim',\n",
    "    'synthetic_small_v1_chr-17.fam',\n",
    "    'synthetic_small_v1_chr-17.sample',\n",
    "    'synthetic_small_v1_chr-18.bed',\n",
    "    'synthetic_small_v1_chr-18.bim',\n",
    "    'synthetic_small_v1_chr-18.fam',\n",
    "    'synthetic_small_v1_chr-18.sample',\n",
    "    'synthetic_small_v1_chr-19.bed',\n",
    "    'synthetic_small_v1_chr-19.bim',\n",
    "    'synthetic_small_v1_chr-19.fam',\n",
    "    'synthetic_small_v1_chr-19.sample',\n",
    "    'synthetic_small_v1_chr-1.bed',\n",
    "    'synthetic_small_v1_chr-1.bim',\n",
    "    'synthetic_small_v1_chr-1.fam',\n",
    "    'synthetic_small_v1_chr-1.sample',\n",
    "    'synthetic_small_v1_chr-20.bed',\n",
    "    'synthetic_small_v1_chr-20.bim',\n",
    "    'synthetic_small_v1_chr-20.fam',\n",
    "    'synthetic_small_v1_chr-20.sample',\n",
    "    'synthetic_small_v1_chr-21.bed',\n",
    "    'synthetic_small_v1_chr-21.bim',\n",
    "    'synthetic_small_v1_chr-21.fam',\n",
    "    'synthetic_small_v1_chr-21.sample',\n",
    "    'synthetic_small_v1_chr-22.bed',\n",
    "    'synthetic_small_v1_chr-22.bim',\n",
    "    'synthetic_small_v1_chr-22.fam',\n",
    "    'synthetic_small_v1_chr-22.sample',\n",
    "    'synthetic_small_v1_chr-2.bed',\n",
    "    'synthetic_small_v1_chr-2.bim',\n",
    "    'synthetic_small_v1_chr-2.fam',\n",
    "    'synthetic_small_v1_chr-2.sample',\n",
    "    'synthetic_small_v1_chr-3.bed',\n",
    "    'synthetic_small_v1_chr-3.bim',\n",
    "    'synthetic_small_v1_chr-3.fam',\n",
    "    'synthetic_small_v1_chr-3.sample',\n",
    "    'synthetic_small_v1_chr-4.bed',\n",
    "    'synthetic_small_v1_chr-4.bim',\n",
    "    'synthetic_small_v1_chr-4.fam',\n",
    "    'synthetic_small_v1_chr-4.sample',\n",
    "    'synthetic_small_v1_chr-5.bed',\n",
    "    'synthetic_small_v1_chr-5.bim',\n",
    "    'synthetic_small_v1_chr-5.fam',\n",
    "    'synthetic_small_v1_chr-5.sample',\n",
    "    'synthetic_small_v1_chr-6.bed',\n",
    "    'synthetic_small_v1_chr-6.bim',\n",
    "    'synthetic_small_v1_chr-6.fam',\n",
    "    'synthetic_small_v1_chr-6.sample',\n",
    "    'synthetic_small_v1_chr-7.bed',\n",
    "    'synthetic_small_v1_chr-7.bim',\n",
    "    'synthetic_small_v1_chr-7.fam',\n",
    "    'synthetic_small_v1_chr-7.sample',\n",
    "    'synthetic_small_v1_chr-8.bed',\n",
    "    'synthetic_small_v1_chr-8.bim',\n",
    "    'synthetic_small_v1_chr-8.fam',\n",
    "    'synthetic_small_v1_chr-8.sample',\n",
    "    'synthetic_small_v1_chr-9.bed',\n",
    "    'synthetic_small_v1_chr-9.bim',\n",
    "    'synthetic_small_v1_chr-9.fam',\n",
    "    'synthetic_small_v1_chr-9.sample',\n",
    "    'synthetic_small_v1.pheno1',\n",
    "    'synthetic_small_v1.pheno2',\n",
    "    'synthetic_small_v1.pheno3',\n",
    "    'synthetic_small_v1.pheno4',\n",
    "    'synthetic_small_v1.pheno5',\n",
    "    'synthetic_small_v1.pheno6',\n",
    "    'synthetic_small_v1.pheno7',\n",
    "    'synthetic_small_v1.pheno8',\n",
    "    'synthetic_small_v1.pheno9',\n",
    "]"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "### Cloud connection"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "metadata": {},
   "outputs": [],
   "source": [
    "# Get a connection to GCS\n",
    "import gcsfs\n",
    "\n",
    "project = 'sgkit-on-coiled'\n",
    "token_path = '/home/ec2-user/.config/gcloud/application_default_credentials.json'\n",
    "gcs = gcsfs.GCSFileSystem(project=project, token=token_path)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "### Move files from FTP -> local -> GCS"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 18,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloading synthetic_v1.pheno1\n"
     ]
    }
   ],
   "source": [
    "# Get file over FTP to local, upload to GCS, delete local\n",
    "# Cell requires: hapnest_example_files, gcs\n",
    "import os\n",
    "import urllib.request\n",
    "\n",
    "files = [\n",
    "    'synthetic_v1.pheno1',\n",
    "]\n",
    "\n",
    "for f in files:\n",
    "    print('Downloading', f)\n",
    "    urllib.request.urlretrieve(hapnest_ftp_base+phenotypes_dir+f, f)\n",
    "    gcs.put(f, 'hapnest/'+genotypes_dir+f)\n",
    "    os.remove(f)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Do some analysis on the Hapnest example data"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "### An overview of the data\n",
    "- [HAPNEST BioStudies page](https://www.ebi.ac.uk/biostudies/studies/S-BSST936)\n",
    "- [PLINK File format reference](https://www.cog-genomics.org/plink/1.9/formats)\n",
    "\n",
    "- `.bed` files are binary files that contain genotype data.\n",
    "- [`.bim`](https://www.cog-genomics.org/plink/1.9/formats#bim) files are no header TSVs with information about the SNPs in the data.\n",
    "- [`.fam`](https://www.cog-genomics.org/plink/1.9/formats#fam) files are no header TSVs with information about the individuals in the data.\n",
    "- `.sample` has the ancestry group of each individual.\n",
    "- `.phenoX` files are TSVs with headers Sample, GenoEff, CovarEff, EnvEff, Phenotype(liability), Phenotype(binary). Liability is defined in the supplementary materials to be the sum of the covariate effects and the genetic effects. The binary phenotype is defined as 1 if the liability is greater than 0 and 0 otherwise (I think)."
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 1,
   "metadata": {},
   "outputs": [],
   "source": [
    "# PyData\n",
    "import numpy as np\n",
    "import pandas as pd\n",
    "import xarray as xr\n",
    "import dask.dataframe as dd\n",
    "import dask.array as da\n",
    "xr.set_options(display_expand_attrs=False, display_expand_data_vars=True);\n",
    "\n",
    "# sgkit\n",
    "import sgkit as sg\n",
    "from sgkit.io import plink"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "metadata": {},
   "outputs": [],
   "source": [
    "file_base = 'synthetic_v1_chr-20'\n",
    "dir = 'genotypes/'\n",
    "\n",
    "# Files to get from GCS\n",
    "files = [\n",
    "    file_base + '.bed',\n",
    "    file_base + '.bim',\n",
    "    file_base + '.fam',\n",
    "]\n",
    "\n",
    "# Local directory to put them in\n",
    "data_dir = ''\n",
    "local_dir = data_dir + file_base\n",
    "\n",
    "local_plink_path = local_dir+'/'+file_base # read_plink adds .bed, .bim, .fam\n",
    "remote_zarr_path = 'gs://hapnest/'+dir+file_base+'.zarr'"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloading synthetic_v1_chr-20.bed\n",
      "Downloading synthetic_v1_chr-20.bim\n",
      "Downloading synthetic_v1_chr-20.fam\n"
     ]
    }
   ],
   "source": [
    "# Move PLINK files from GCS to the local fs \n",
    "for f in files:\n",
    "    print('Downloading', f)\n",
    "    gcs.get('hapnest/'+dir+f, local_dir+'/'+f)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "metadata": {},
   "outputs": [],
   "source": [
    "# Configure Dask\n",
    "from dask.distributed import Client\n",
    "client = Client(n_workers=16, threads_per_worker=1) # is this optimal?"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:3162: UserWarning: Sending large graph of size 9.65 MiB.\n",
      "This may cause some slowdown.\n",
      "Consider scattering data ahead of time and using futures.\n",
      "  warnings.warn(\n"
     ]
    },
    {
     "data": {
      "text/plain": [
       "<xarray.backends.zarr.ZarrStore at 0x7f7b21cb4040>"
      ]
     },
     "execution_count": 8,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "# Read local PLINK files and write them as Zarr file to GCS\n",
    "ds = plink.read_plink(path=local_plink_path)\n",
    "ds.to_zarr(gcs.get_mapper(remote_zarr_path), mode='w') # do I need get_mapper?"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "metadata": {},
   "outputs": [
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       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.Dataset&gt;\n",
       "Dimensions:             (variants: 153988, samples: 1008000, ploidy: 2,\n",
       "                         contigs: 1, alleles: 2)\n",
       "Dimensions without coordinates: variants, samples, ploidy, contigs, alleles\n",
       "Data variables: (12/14)\n",
       "    call_genotype       (variants, samples, ploidy) int8 dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;\n",
       "    call_genotype_mask  (variants, samples, ploidy) bool dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;\n",
       "    contig_id           (contigs) &lt;U2 dask.array&lt;chunksize=(1,), meta=np.ndarray&gt;\n",
       "    sample_family_id    (samples) &lt;U10 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_id           (samples) &lt;U10 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_maternal_id  (samples) &lt;U1 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    ...                  ...\n",
       "    sample_phenotype    (samples) int8 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_sex          (samples) int8 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    variant_allele      (variants, alleles) |S1 dask.array&lt;chunksize=(153988, 1), meta=np.ndarray&gt;\n",
       "    variant_contig      (variants) int16 dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;\n",
       "    variant_id          (variants) &lt;U18 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_position    (variants) int32 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "Attributes: (2)</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-b44dca8b-72ef-4979-8c3c-6a8320073860' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-b44dca8b-72ef-4979-8c3c-6a8320073860' class='xr-section-summary'  title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span>variants</span>: 153988</li><li><span>samples</span>: 1008000</li><li><span>ploidy</span>: 2</li><li><span>contigs</span>: 1</li><li><span>alleles</span>: 2</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-da33882b-5828-45d7-a09e-c0e281ec2f79' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-da33882b-5828-45d7-a09e-c0e281ec2f79' class='xr-section-summary'  title='Expand/collapse section'>Coordinates: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-4bbd65eb-c512-4250-953d-bbb0be609b0b' class='xr-section-summary-in' type='checkbox'  checked><label for='section-4bbd65eb-c512-4250-953d-bbb0be609b0b' class='xr-section-summary' >Data variables: <span>(14)</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>call_genotype</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-e7c05de1-dad4-4f68-9a1c-c46ab2cce05b' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e7c05de1-dad4-4f68-9a1c-c46ab2cce05b' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-9a058306-eea1-469e-bd58-53915d732225' class='xr-var-data-in' type='checkbox'><label for='data-9a058306-eea1-469e-bd58-53915d732225' 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>comment :</span></dt><dd>Call genotype. Encoded as allele values (0 for the reference, 1 for\n",
       "the first allele, 2 for the second allele), -1 to indicate a\n",
       "missing value, or -2 to indicate a non allele in mixed ploidy datasets.</dd><dt><span>mixed_ploidy :</span></dt><dd>False</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
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       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>call_genotype_mask</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>bool</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-6d426550-1859-4173-873b-76925565aa33' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-6d426550-1859-4173-873b-76925565aa33' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-9ddc1c36-b94f-404e-83d4-ab1422cab596' class='xr-var-data-in' type='checkbox'><label for='data-9ddc1c36-b94f-404e-83d4-ab1422cab596' 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>comment :</span></dt><dd>A flag for each call indicating which values are missing.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
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       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> bool numpy.ndarray </td>\n",
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       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>contig_id</span></div><div class='xr-var-dims'>(contigs)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1,), meta=np.ndarray&gt;</div><input id='attrs-918d1ac9-a1cd-4d65-875e-eeb02f7ed26e' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-918d1ac9-a1cd-4d65-875e-eeb02f7ed26e' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8ba500ca-ce6e-491b-87a3-4558ef7f5080' class='xr-var-data-in' type='checkbox'><label for='data-8ba500ca-ce6e-491b-87a3-4558ef7f5080' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 8 B </td>\n",
       "                        <td> 8 B </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1,) </td>\n",
       "                        <td> (1,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
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       "                </tbody>\n",
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       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_family_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-52c24067-1677-4679-a585-5c24e8471686' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-52c24067-1677-4679-a585-5c24e8471686' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-1452bc4a-ad0d-4cbc-85c8-60d5bad09ceb' class='xr-var-data-in' type='checkbox'><label for='data-1452bc4a-ad0d-4cbc-85c8-60d5bad09ceb' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
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       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
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       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-f96bade3-5011-43b0-b34c-4312fc27dcf3' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-f96bade3-5011-43b0-b34c-4312fc27dcf3' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-73e8258f-0091-4a01-afca-7dd3cf1b5e96' class='xr-var-data-in' type='checkbox'><label for='data-73e8258f-0091-4a01-afca-7dd3cf1b5e96' 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>comment :</span></dt><dd>The unique identifier of the sample.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_maternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-22959d64-fcb6-4456-aa55-c36ede356793' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-22959d64-fcb6-4456-aa55-c36ede356793' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ead1d3b4-5ffd-4651-8511-f52a0942ed1f' class='xr-var-data-in' type='checkbox'><label for='data-ead1d3b4-5ffd-4651-8511-f52a0942ed1f' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_member_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-32095d88-5f3d-4db7-b766-26eb9e29e5ef' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-32095d88-5f3d-4db7-b766-26eb9e29e5ef' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-9f6aa74f-984d-4c76-b09c-b5d8f0ff9cd1' class='xr-var-data-in' type='checkbox'><label for='data-9f6aa74f-984d-4c76-b09c-b5d8f0ff9cd1' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_paternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-d3985105-b56d-4740-bae8-6abe2678e42d' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-d3985105-b56d-4740-bae8-6abe2678e42d' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-363a6480-746c-4d75-adc3-36ede5c5947d' class='xr-var-data-in' type='checkbox'><label for='data-363a6480-746c-4d75-adc3-36ede5c5947d' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_phenotype</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-2a0473a3-f209-4227-942d-d0b651ecc495' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-2a0473a3-f209-4227-942d-d0b651ecc495' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-7580a1c0-3e99-42d6-bffb-2a448ff36da3' class='xr-var-data-in' type='checkbox'><label for='data-7580a1c0-3e99-42d6-bffb-2a448ff36da3' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "  <!-- Horizontal lines -->\n",
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       "\n",
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       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_sex</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-35ff8ae8-e759-457a-855f-9bdaa729bc1b' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-35ff8ae8-e759-457a-855f-9bdaa729bc1b' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-03b4b6e2-9180-4107-873f-14d422772a55' class='xr-var-data-in' type='checkbox'><label for='data-03b4b6e2-9180-4107-873f-14d422772a55' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>|S1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988, 1), meta=np.ndarray&gt;</div><input id='attrs-932e21a3-4979-4b4f-8379-8b8da8638bcd' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-932e21a3-4979-4b4f-8379-8b8da8638bcd' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-a9737033-08a6-4197-bed7-c206c5ed2711' class='xr-var-data-in' type='checkbox'><label for='data-a9737033-08a6-4197-bed7-c206c5ed2711' 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>comment :</span></dt><dd>The possible alleles for the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 2) </td>\n",
       "                        <td> (153988, 1) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> |S1 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",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"25\" y2=\"0\" style=\"stroke-width:2\" />\n",
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       "  <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"120\" style=\"stroke-width:2\" />\n",
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       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int16</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-e4c1f6c8-a712-4103-9396-b8b9447dd96c' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e4c1f6c8-a712-4103-9396-b8b9447dd96c' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-be9d47c7-2f74-4f0c-842c-8d06e8850a75' class='xr-var-data-in' type='checkbox'><label for='data-be9d47c7-2f74-4f0c-842c-8d06e8850a75' 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>comment :</span></dt><dd>Index corresponding to contig name for each variant. In some less common\n",
       "scenarios, this may also be equivalent to the contig names if the data\n",
       "generating process used contig names that were also integers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int16 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_id</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U18</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-a1fce323-fd3d-4cda-be87-516595baa2cc' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-a1fce323-fd3d-4cda-be87-516595baa2cc' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-6bdde2b7-63b8-4684-906e-52ebcd47f1dd' class='xr-var-data-in' type='checkbox'><label for='data-6bdde2b7-63b8-4684-906e-52ebcd47f1dd' 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>comment :</span></dt><dd>The unique identifier of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U18 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_position</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-1dfa2db8-554d-4c5c-b3cf-7cce3e074f32' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-1dfa2db8-554d-4c5c-b3cf-7cce3e074f32' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-836a0ed5-f137-4c2f-b526-c7d7303b14fa' class='xr-var-data-in' type='checkbox'><label for='data-836a0ed5-f137-4c2f-b526-c7d7303b14fa' 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>comment :</span></dt><dd>The reference position of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int32 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
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       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li></ul></div></li><li class='xr-section-item'><input id='section-9c05d001-28f1-4e4d-8c85-fdf5bcc0cd40' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-9c05d001-28f1-4e4d-8c85-fdf5bcc0cd40' class='xr-section-summary'  title='Expand/collapse section'>Indexes: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-10e1af5a-7b07-455b-af21-03f48f0f877d' class='xr-section-summary-in' type='checkbox'  ><label for='section-10e1af5a-7b07-455b-af21-03f48f0f877d' class='xr-section-summary' >Attributes: <span>(2)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>contigs :</span></dt><dd>[&#x27;20&#x27;]</dd><dt><span>source :</span></dt><dd>sgkit-0.7.1.dev38+g7d8f5f3</dd></dl></div></li></ul></div></div>"
      ],
      "text/plain": [
       "<xarray.Dataset>\n",
       "Dimensions:             (variants: 153988, samples: 1008000, ploidy: 2,\n",
       "                         contigs: 1, alleles: 2)\n",
       "Dimensions without coordinates: variants, samples, ploidy, contigs, alleles\n",
       "Data variables: (12/14)\n",
       "    call_genotype       (variants, samples, ploidy) int8 dask.array<chunksize=(8192, 8192, 2), meta=np.ndarray>\n",
       "    call_genotype_mask  (variants, samples, ploidy) bool dask.array<chunksize=(8192, 8192, 2), meta=np.ndarray>\n",
       "    contig_id           (contigs) <U2 dask.array<chunksize=(1,), meta=np.ndarray>\n",
       "    sample_family_id    (samples) <U10 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_id           (samples) <U10 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_maternal_id  (samples) <U1 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    ...                  ...\n",
       "    sample_phenotype    (samples) int8 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_sex          (samples) int8 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    variant_allele      (variants, alleles) |S1 dask.array<chunksize=(153988, 1), meta=np.ndarray>\n",
       "    variant_contig      (variants) int16 dask.array<chunksize=(76994,), meta=np.ndarray>\n",
       "    variant_id          (variants) <U18 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_position    (variants) int32 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "Attributes: (2)"
      ]
     },
     "execution_count": 4,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "ds = sg.load_dataset(remote_zarr_path)\n",
    "ds"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
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       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th>samples</th>\n",
       "      <th>syn1</th>\n",
       "      <th>syn2</th>\n",
       "      <th>...</th>\n",
       "      <th>syn1007999</th>\n",
       "      <th>syn1008000</th>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>variants</th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>(20, 60291, chr20:60291:G:T)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/1</td>\n",
       "      <td>1/0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 60331, chr20:60331:T:C)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 60513, chr20:60513:A:C)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 60580, chr20:60580:G:A)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 60823, chr20:60823:T:C)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 64328176, chr20:64328176:A:C)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 64328876, chr20:64328876:T:C)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 64330371, chr20:64330371:C:T)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/0</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 64331516, chr20:64331516:C:T)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>(20, 64331538, chr20:64331538:C:T)</th>\n",
       "      <td>1/1</td>\n",
       "      <td>1/1</td>\n",
       "      <td>...</td>\n",
       "      <td>1/0</td>\n",
       "      <td>1/1</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>153988 rows x 1008000 columns</p></div>"
      ],
      "text/plain": [
       "samples                            syn1 syn2  ... syn1007999 syn1008000\n",
       "variants                                      ...                      \n",
       "(20, 60291, chr20:60291:G:T)        1/1  1/1  ...        1/1        1/0\n",
       "(20, 60331, chr20:60331:T:C)        1/1  1/1  ...        1/1        1/1\n",
       "(20, 60513, chr20:60513:A:C)        1/1  1/1  ...        1/1        1/1\n",
       "(20, 60580, chr20:60580:G:A)        1/1  1/1  ...        1/1        1/1\n",
       "(20, 60823, chr20:60823:T:C)        1/1  1/1  ...        1/1        1/1\n",
       "...                                 ...  ...  ...        ...        ...\n",
       "(20, 64328176, chr20:64328176:A:C)  1/1  1/1  ...        1/1        1/1\n",
       "(20, 64328876, chr20:64328876:T:C)  1/1  1/1  ...        1/1        1/1\n",
       "(20, 64330371, chr20:64330371:C:T)  1/1  1/1  ...        1/0        1/1\n",
       "(20, 64331516, chr20:64331516:C:T)  1/1  1/1  ...        1/1        1/1\n",
       "(20, 64331538, chr20:64331538:C:T)  1/1  1/1  ...        1/0        1/1\n",
       "\n",
       "[153988 rows x 1008000 columns]"
      ]
     },
     "execution_count": 5,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "ds[\"variant_contig_name\"] = ds.contig_id[ds.variant_contig]\n",
    "ds2 = ds.set_index({\"variants\": (\"variant_contig_name\", \"variant_position\", \"variant_id\")})\n",
    "sg.display_genotypes(ds2, max_variants=10, max_samples=5)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
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       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th>variant_allele</th>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>variant_contig_name</th>\n",
       "      <th>variant_position</th>\n",
       "      <th>variant_id</th>\n",
       "      <th></th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th rowspan=\"5\" valign=\"top\">20</th>\n",
       "      <th>60291</th>\n",
       "      <th>chr20:60291:G:T</th>\n",
       "      <td>[b'T', b'G']</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>60331</th>\n",
       "      <th>chr20:60331:T:C</th>\n",
       "      <td>[b'C', b'T']</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>60513</th>\n",
       "      <th>chr20:60513:A:C</th>\n",
       "      <td>[b'C', b'A']</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>60580</th>\n",
       "      <th>chr20:60580:G:A</th>\n",
       "      <td>[b'A', b'G']</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>60823</th>\n",
       "      <th>chr20:60823:T:C</th>\n",
       "      <td>[b'C', b'T']</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "</div>"
      ],
      "text/plain": [
       "                                                     variant_allele\n",
       "variant_contig_name variant_position variant_id                    \n",
       "20                  60291            chr20:60291:G:T   [b'T', b'G']\n",
       "                    60331            chr20:60331:T:C   [b'C', b'T']\n",
       "                    60513            chr20:60513:A:C   [b'C', b'A']\n",
       "                    60580            chr20:60580:G:A   [b'A', b'G']\n",
       "                    60823            chr20:60823:T:C   [b'C', b'T']"
      ]
     },
     "execution_count": 6,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_variant = ds[[v for v in ds.data_vars if v.startswith(\"variant_\")]].to_dataframe()\n",
    "df_variant.groupby([\"variant_contig_name\", \"variant_position\", \"variant_id\"]).agg({\"variant_allele\": lambda x: list(x)}).head(5)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "array(['syn1', 'syn2', 'syn3', 'syn4', 'syn5'], dtype='<U10')"
      ]
     },
     "execution_count": 7,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "ds.sample_id[:5].values"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "metadata": {},
   "outputs": [],
   "source": [
    "ancestry_file = 'gs://hapnest/genotypes/synthetic_v1.sample'\n",
    "ancestry_df = pd.read_csv(ancestry_file, header=None)"
   ]
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  {
   "cell_type": "code",
   "execution_count": 9,
   "metadata": {},
   "outputs": [],
   "source": [
    "# Make dask array from df and add to ds as a new data variable called \"sample_ancestry\" with the \"samples\" dimension\n",
    "# Is there a better dtype to use than \"object\"?\n",
    "ancestry_da = da.from_array(ancestry_df[0].values, chunks=(1008000,))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds = ds.assign(sample_ancestry=('samples', ancestry_da))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 11,
   "metadata": {},
   "outputs": [
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       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.Dataset&gt;\n",
       "Dimensions:              (variants: 153988, samples: 1008000, ploidy: 2,\n",
       "                          contigs: 1, alleles: 2)\n",
       "Dimensions without coordinates: variants, samples, ploidy, contigs, alleles\n",
       "Data variables: (12/17)\n",
       "    call_genotype        (variants, samples, ploidy) int8 dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;\n",
       "    call_genotype_mask   (variants, samples, ploidy) bool dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;\n",
       "    contig_id            (contigs) &lt;U2 dask.array&lt;chunksize=(1,), meta=np.ndarray&gt;\n",
       "    sample_family_id     (samples) &lt;U10 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_id            (samples) &lt;U10 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_maternal_id   (samples) &lt;U1 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    ...                   ...\n",
       "    variant_contig       (variants) int16 dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;\n",
       "    variant_id           (variants) &lt;U18 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_position     (variants) int32 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_contig_name  (variants) &lt;U2 dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;\n",
       "    sample_ancestry      (samples) object dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_pheno         (samples) int64 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "Attributes: (2)</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-42335c74-4bfb-4404-8273-4dc7c714ef1c' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-42335c74-4bfb-4404-8273-4dc7c714ef1c' class='xr-section-summary'  title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span>variants</span>: 153988</li><li><span>samples</span>: 1008000</li><li><span>ploidy</span>: 2</li><li><span>contigs</span>: 1</li><li><span>alleles</span>: 2</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-d7d3d689-275a-4003-a9f4-543fdf87fd98' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-d7d3d689-275a-4003-a9f4-543fdf87fd98' class='xr-section-summary'  title='Expand/collapse section'>Coordinates: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-cb3e998a-65ea-41f4-878a-b2d6420fd0a6' class='xr-section-summary-in' type='checkbox'  checked><label for='section-cb3e998a-65ea-41f4-878a-b2d6420fd0a6' class='xr-section-summary' >Data variables: <span>(17)</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>call_genotype</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-e22db5fc-bf01-45ec-a999-1f1c49dcf29c' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e22db5fc-bf01-45ec-a999-1f1c49dcf29c' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-c331c024-fbff-4ca5-b754-8d4423261bc7' class='xr-var-data-in' type='checkbox'><label for='data-c331c024-fbff-4ca5-b754-8d4423261bc7' 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>comment :</span></dt><dd>Call genotype. Encoded as allele values (0 for the reference, 1 for\n",
       "the first allele, 2 for the second allele), -1 to indicate a\n",
       "missing value, or -2 to indicate a non allele in mixed ploidy datasets.</dd><dt><span>mixed_ploidy :</span></dt><dd>False</dd></dl></div><div class='xr-var-data'><table>\n",
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       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
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       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
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       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>call_genotype_mask</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>bool</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-b55746f5-8b47-42dc-9105-327be319ace4' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-b55746f5-8b47-42dc-9105-327be319ace4' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-b96885cd-16fd-4ffe-ba11-fa7b4f60b86c' class='xr-var-data-in' type='checkbox'><label for='data-b96885cd-16fd-4ffe-ba11-fa7b4f60b86c' 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>comment :</span></dt><dd>A flag for each call indicating which values are missing.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> bool numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>contig_id</span></div><div class='xr-var-dims'>(contigs)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1,), meta=np.ndarray&gt;</div><input id='attrs-85463f32-cd1c-4476-8ffd-d3ebdc8fdfe4' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-85463f32-cd1c-4476-8ffd-d3ebdc8fdfe4' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-43421035-50a8-48b0-a3ba-b2ef5e1df7fb' class='xr-var-data-in' type='checkbox'><label for='data-43421035-50a8-48b0-a3ba-b2ef5e1df7fb' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 8 B </td>\n",
       "                        <td> 8 B </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1,) </td>\n",
       "                        <td> (1,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
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       "                </tbody>\n",
       "            </table>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_family_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-89d422a5-ebcc-4f15-ac35-8552d00c2c19' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-89d422a5-ebcc-4f15-ac35-8552d00c2c19' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-2b0c3406-1b65-45b9-9deb-6339c9af3189' class='xr-var-data-in' type='checkbox'><label for='data-2b0c3406-1b65-45b9-9deb-6339c9af3189' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-806ccac9-8a7a-4810-a9ec-9f0e3f39db13' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-806ccac9-8a7a-4810-a9ec-9f0e3f39db13' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-1713bd3f-1e74-45b8-8387-aad6e1307c3c' class='xr-var-data-in' type='checkbox'><label for='data-1713bd3f-1e74-45b8-8387-aad6e1307c3c' 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>comment :</span></dt><dd>The unique identifier of the sample.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_maternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-d4f4f3bb-de05-429a-bf5c-e69fb675f5f9' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-d4f4f3bb-de05-429a-bf5c-e69fb675f5f9' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-70c2f106-d3ce-4853-a55f-69c54aea14d5' class='xr-var-data-in' type='checkbox'><label for='data-70c2f106-d3ce-4853-a55f-69c54aea14d5' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_member_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-2fd9d794-c845-46d3-9822-61a2460fdd08' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-2fd9d794-c845-46d3-9822-61a2460fdd08' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-6b21fc37-00a5-4c4c-95da-9a7efee21073' class='xr-var-data-in' type='checkbox'><label for='data-6b21fc37-00a5-4c4c-95da-9a7efee21073' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_paternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-0691ba7a-164d-47e2-b01d-6ec8c9f54afe' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-0691ba7a-164d-47e2-b01d-6ec8c9f54afe' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8a08cad1-b4d2-40c6-8256-f93a0b4ae94c' class='xr-var-data-in' type='checkbox'><label for='data-8a08cad1-b4d2-40c6-8256-f93a0b4ae94c' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_phenotype</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-5188b4a3-c59d-4f0c-b4a8-9143ea42daaa' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-5188b4a3-c59d-4f0c-b4a8-9143ea42daaa' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-4b19a7f5-d4b4-438a-95a6-192be3e24a24' class='xr-var-data-in' type='checkbox'><label for='data-4b19a7f5-d4b4-438a-95a6-192be3e24a24' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
       "  <!-- Colored Rectangle -->\n",
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       "\n",
       "  <!-- Text -->\n",
       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1008000</text>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_sex</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-52f90b04-0f66-4e79-9260-7fc96ca67d9d' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-52f90b04-0f66-4e79-9260-7fc96ca67d9d' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-b81c003e-16f4-43e6-bf28-efef6faacc99' class='xr-var-data-in' type='checkbox'><label for='data-b81c003e-16f4-43e6-bf28-efef6faacc99' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
       "  <!-- Colored Rectangle -->\n",
       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
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       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>|S1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988, 1), meta=np.ndarray&gt;</div><input id='attrs-da232533-635f-4081-946e-3a38f2a601a9' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-da232533-635f-4081-946e-3a38f2a601a9' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-fea9eefd-3b93-41cd-9a13-458c5c234ab7' class='xr-var-data-in' type='checkbox'><label for='data-fea9eefd-3b93-41cd-9a13-458c5c234ab7' 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>comment :</span></dt><dd>The possible alleles for the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 2) </td>\n",
       "                        <td> (153988, 1) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> |S1 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",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"25\" y2=\"0\" style=\"stroke-width:2\" />\n",
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       "\n",
       "  <!-- Vertical lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"120\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"12\" y1=\"0\" x2=\"12\" y2=\"120\" />\n",
       "  <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"120\" style=\"stroke-width:2\" />\n",
       "\n",
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       "\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)\">153988</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int16</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-b76b6d1d-8395-4bec-beb2-1086f3724667' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-b76b6d1d-8395-4bec-beb2-1086f3724667' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-d05ef9bb-025d-4519-b3c9-087878677b67' class='xr-var-data-in' type='checkbox'><label for='data-d05ef9bb-025d-4519-b3c9-087878677b67' 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>comment :</span></dt><dd>Index corresponding to contig name for each variant. In some less common\n",
       "scenarios, this may also be equivalent to the contig names if the data\n",
       "generating process used contig names that were also integers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int16 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"60\" y1=\"0\" x2=\"60\" y2=\"25\" />\n",
       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
       "  <!-- Text -->\n",
       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >153988</text>\n",
       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_id</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U18</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-917f9411-9b31-4e59-bfad-fb28f27b0a88' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-917f9411-9b31-4e59-bfad-fb28f27b0a88' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-a25fd840-8eee-49b8-8ef8-ad7bb75a96ed' class='xr-var-data-in' type='checkbox'><label for='data-a25fd840-8eee-49b8-8ef8-ad7bb75a96ed' 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>comment :</span></dt><dd>The unique identifier of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U18 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
       "  <!-- Colored Rectangle -->\n",
       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
       "  <!-- Text -->\n",
       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >153988</text>\n",
       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_position</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-e4afe1fc-0885-4844-b0f8-f83bfb5e3b3a' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e4afe1fc-0885-4844-b0f8-f83bfb5e3b3a' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-2e5852b7-0797-4d5b-9eec-2123f493ebb6' class='xr-var-data-in' type='checkbox'><label for='data-2e5852b7-0797-4d5b-9eec-2123f493ebb6' 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>comment :</span></dt><dd>The reference position of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int32 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
       "  <!-- Text -->\n",
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       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig_name</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-d494fbf5-2ee5-4b40-b926-4be9d5e70788' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-d494fbf5-2ee5-4b40-b926-4be9d5e70788' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-6ff58eb3-86c4-4af9-9683-9115b1688ee2' class='xr-var-data-in' type='checkbox'><label for='data-6ff58eb3-86c4-4af9-9683-9115b1688ee2' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 8 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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      ],
      "text/plain": [
       "<xarray.Dataset>\n",
       "Dimensions:              (variants: 153988, samples: 1008000, ploidy: 2,\n",
       "                          contigs: 1, alleles: 2)\n",
       "Dimensions without coordinates: variants, samples, ploidy, contigs, alleles\n",
       "Data variables: (12/17)\n",
       "    call_genotype        (variants, samples, ploidy) int8 dask.array<chunksize=(8192, 8192, 2), meta=np.ndarray>\n",
       "    call_genotype_mask   (variants, samples, ploidy) bool dask.array<chunksize=(8192, 8192, 2), meta=np.ndarray>\n",
       "    contig_id            (contigs) <U2 dask.array<chunksize=(1,), meta=np.ndarray>\n",
       "    sample_family_id     (samples) <U10 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_id            (samples) <U10 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_maternal_id   (samples) <U1 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    ...                   ...\n",
       "    variant_contig       (variants) int16 dask.array<chunksize=(76994,), meta=np.ndarray>\n",
       "    variant_id           (variants) <U18 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_position     (variants) int32 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_contig_name  (variants) <U2 dask.array<chunksize=(76994,), meta=np.ndarray>\n",
       "    sample_ancestry      (samples) object dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_pheno         (samples) int64 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "Attributes: (2)"
      ]
     },
     "execution_count": 11,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "# TODO: all phenotypes\n",
    "# TODO: recode binary phenotypes as bool?\n",
    "# TODO: use sample index to merge instead of just grabbing the array?\n",
    "pheno_base = 'synthetic_v1'\n",
    "pheno_file = 'gs://hapnest/genotypes/'+pheno_base+'.pheno1'\n",
    "pheno_df = pd.read_csv(pheno_file, sep='\\t', index_col='Sample')\n",
    "pheno_da = da.from_array(pheno_df['Phenotype(binary)'].values, chunks=(1008000,))\n",
    "ds = ds.assign(sample_pheno=('samples', pheno_da))\n",
    "ds"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "sample_ancestry\n",
       "AFR    168000\n",
       "AMR    168000\n",
       "EAS    168000\n",
       "EUR    168000\n",
       "CSA    168000\n",
       "MID    168000\n",
       "Name: count, dtype: int64"
      ]
     },
     "execution_count": 12,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "ds.sample_ancestry.to_series().value_counts()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "count    1.008000e+06\n",
       "mean     4.999663e-01\n",
       "std      5.000002e-01\n",
       "min      0.000000e+00\n",
       "25%      0.000000e+00\n",
       "50%      0.000000e+00\n",
       "75%      1.000000e+00\n",
       "max      1.000000e+00\n",
       "Name: sample_pheno, dtype: float64"
      ]
     },
     "execution_count": 13,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "ds.sample_pheno.to_series().describe()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "1008000"
      ]
     },
     "execution_count": 14,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "len(ds.samples)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "variant_allele\n",
       "(b'A', b'G')    30884\n",
       "(b'T', b'C')    30722\n",
       "(b'G', b'A')    21498\n",
       "(b'C', b'T')    21055\n",
       "(b'A', b'C')     7177\n",
       "(b'T', b'G')     6997\n",
       "(b'C', b'G')     6750\n",
       "(b'G', b'C')     6335\n",
       "(b'G', b'T')     5799\n",
       "(b'A', b'T')     5673\n",
       "(b'C', b'A')     5601\n",
       "(b'T', b'A')     5497\n",
       "Name: count, dtype: int64"
      ]
     },
     "execution_count": 15,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_variant.groupby([\"variant_contig_name\", \"variant_position\", \"variant_id\"])[\"variant_allele\"].apply(tuple).value_counts()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "metadata": {},
   "outputs": [
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       ".xr-section-inline-details {\n",
       "  grid-column: 2 / -1;\n",
       "}\n",
       "\n",
       ".xr-section-details {\n",
       "  display: none;\n",
       "  grid-column: 1 / -1;\n",
       "  margin-bottom: 5px;\n",
       "}\n",
       "\n",
       ".xr-section-summary-in:checked ~ .xr-section-details {\n",
       "  display: contents;\n",
       "}\n",
       "\n",
       ".xr-array-wrap {\n",
       "  grid-column: 1 / -1;\n",
       "  display: grid;\n",
       "  grid-template-columns: 20px auto;\n",
       "}\n",
       "\n",
       ".xr-array-wrap > label {\n",
       "  grid-column: 1;\n",
       "  vertical-align: top;\n",
       "}\n",
       "\n",
       ".xr-preview {\n",
       "  color: var(--xr-font-color3);\n",
       "}\n",
       "\n",
       ".xr-array-preview,\n",
       ".xr-array-data {\n",
       "  padding: 0 5px !important;\n",
       "  grid-column: 2;\n",
       "}\n",
       "\n",
       ".xr-array-data,\n",
       ".xr-array-in:checked ~ .xr-array-preview {\n",
       "  display: none;\n",
       "}\n",
       "\n",
       ".xr-array-in:checked ~ .xr-array-data,\n",
       ".xr-array-preview {\n",
       "  display: inline-block;\n",
       "}\n",
       "\n",
       ".xr-dim-list {\n",
       "  display: inline-block !important;\n",
       "  list-style: none;\n",
       "  padding: 0 !important;\n",
       "  margin: 0;\n",
       "}\n",
       "\n",
       ".xr-dim-list li {\n",
       "  display: inline-block;\n",
       "  padding: 0;\n",
       "  margin: 0;\n",
       "}\n",
       "\n",
       ".xr-dim-list:before {\n",
       "  content: '(';\n",
       "}\n",
       "\n",
       ".xr-dim-list:after {\n",
       "  content: ')';\n",
       "}\n",
       "\n",
       ".xr-dim-list li:not(:last-child):after {\n",
       "  content: ',';\n",
       "  padding-right: 5px;\n",
       "}\n",
       "\n",
       ".xr-has-index {\n",
       "  font-weight: bold;\n",
       "}\n",
       "\n",
       ".xr-var-list,\n",
       ".xr-var-item {\n",
       "  display: contents;\n",
       "}\n",
       "\n",
       ".xr-var-item > div,\n",
       ".xr-var-item label,\n",
       ".xr-var-item > .xr-var-name span {\n",
       "  background-color: var(--xr-background-color-row-even);\n",
       "  margin-bottom: 0;\n",
       "}\n",
       "\n",
       ".xr-var-item > .xr-var-name:hover span {\n",
       "  padding-right: 5px;\n",
       "}\n",
       "\n",
       ".xr-var-list > li:nth-child(odd) > div,\n",
       ".xr-var-list > li:nth-child(odd) > label,\n",
       ".xr-var-list > li:nth-child(odd) > .xr-var-name span {\n",
       "  background-color: var(--xr-background-color-row-odd);\n",
       "}\n",
       "\n",
       ".xr-var-name {\n",
       "  grid-column: 1;\n",
       "}\n",
       "\n",
       ".xr-var-dims {\n",
       "  grid-column: 2;\n",
       "}\n",
       "\n",
       ".xr-var-dtype {\n",
       "  grid-column: 3;\n",
       "  text-align: right;\n",
       "  color: var(--xr-font-color2);\n",
       "}\n",
       "\n",
       ".xr-var-preview {\n",
       "  grid-column: 4;\n",
       "}\n",
       "\n",
       ".xr-index-preview {\n",
       "  grid-column: 2 / 5;\n",
       "  color: var(--xr-font-color2);\n",
       "}\n",
       "\n",
       ".xr-var-name,\n",
       ".xr-var-dims,\n",
       ".xr-var-dtype,\n",
       ".xr-preview,\n",
       ".xr-attrs dt {\n",
       "  white-space: nowrap;\n",
       "  overflow: hidden;\n",
       "  text-overflow: ellipsis;\n",
       "  padding-right: 10px;\n",
       "}\n",
       "\n",
       ".xr-var-name:hover,\n",
       ".xr-var-dims:hover,\n",
       ".xr-var-dtype:hover,\n",
       ".xr-attrs dt:hover {\n",
       "  overflow: visible;\n",
       "  width: auto;\n",
       "  z-index: 1;\n",
       "}\n",
       "\n",
       ".xr-var-attrs,\n",
       ".xr-var-data,\n",
       ".xr-index-data {\n",
       "  display: none;\n",
       "  background-color: var(--xr-background-color) !important;\n",
       "  padding-bottom: 5px !important;\n",
       "}\n",
       "\n",
       ".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
       ".xr-var-data-in:checked ~ .xr-var-data,\n",
       ".xr-index-data-in:checked ~ .xr-index-data {\n",
       "  display: block;\n",
       "}\n",
       "\n",
       ".xr-var-data > table {\n",
       "  float: right;\n",
       "}\n",
       "\n",
       ".xr-var-name span,\n",
       ".xr-var-data,\n",
       ".xr-index-name div,\n",
       ".xr-index-data,\n",
       ".xr-attrs {\n",
       "  padding-left: 25px !important;\n",
       "}\n",
       "\n",
       ".xr-attrs,\n",
       ".xr-var-attrs,\n",
       ".xr-var-data,\n",
       ".xr-index-data {\n",
       "  grid-column: 1 / -1;\n",
       "}\n",
       "\n",
       "dl.xr-attrs {\n",
       "  padding: 0;\n",
       "  margin: 0;\n",
       "  display: grid;\n",
       "  grid-template-columns: 125px auto;\n",
       "}\n",
       "\n",
       ".xr-attrs dt,\n",
       ".xr-attrs dd {\n",
       "  padding: 0;\n",
       "  margin: 0;\n",
       "  float: left;\n",
       "  padding-right: 10px;\n",
       "  width: auto;\n",
       "}\n",
       "\n",
       ".xr-attrs dt {\n",
       "  font-weight: normal;\n",
       "  grid-column: 1;\n",
       "}\n",
       "\n",
       ".xr-attrs dt:hover span {\n",
       "  display: inline-block;\n",
       "  background: var(--xr-background-color);\n",
       "  padding-right: 10px;\n",
       "}\n",
       "\n",
       ".xr-attrs dd {\n",
       "  grid-column: 2;\n",
       "  white-space: pre-wrap;\n",
       "  word-break: break-all;\n",
       "}\n",
       "\n",
       ".xr-icon-database,\n",
       ".xr-icon-file-text2,\n",
       ".xr-no-icon {\n",
       "  display: inline-block;\n",
       "  vertical-align: middle;\n",
       "  width: 1em;\n",
       "  height: 1.5em !important;\n",
       "  stroke-width: 0;\n",
       "  stroke: currentColor;\n",
       "  fill: currentColor;\n",
       "}\n",
       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.Dataset&gt;\n",
       "Dimensions:              (samples: 1008000, variants: 153988, ploidy: 2,\n",
       "                          contigs: 1, alleles: 2)\n",
       "Dimensions without coordinates: samples, variants, ploidy, contigs, alleles\n",
       "Data variables: (12/23)\n",
       "    sample_n_called      (samples) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    sample_call_rate     (samples) float64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    sample_n_het         (samples) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    sample_n_hom_ref     (samples) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    sample_n_hom_alt     (samples) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    sample_n_non_ref     (samples) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    ...                   ...\n",
       "    variant_contig       (variants) int16 dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;\n",
       "    variant_id           (variants) &lt;U18 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_position     (variants) int32 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_contig_name  (variants) &lt;U2 dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;\n",
       "    sample_ancestry      (samples) object dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_pheno         (samples) int64 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "Attributes: (2)</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-edb6204e-2af4-4f34-b2c8-a83e5b723457' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-edb6204e-2af4-4f34-b2c8-a83e5b723457' class='xr-section-summary'  title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span>samples</span>: 1008000</li><li><span>variants</span>: 153988</li><li><span>ploidy</span>: 2</li><li><span>contigs</span>: 1</li><li><span>alleles</span>: 2</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-2581309d-0aa2-4095-990e-757c3f02b13b' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-2581309d-0aa2-4095-990e-757c3f02b13b' class='xr-section-summary'  title='Expand/collapse section'>Coordinates: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-41f40e1b-7faf-4ad6-8eec-c9321581f781' class='xr-section-summary-in' type='checkbox'  checked><label for='section-41f40e1b-7faf-4ad6-8eec-c9321581f781' class='xr-section-summary' >Data variables: <span>(23)</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>sample_n_called</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-17e8301e-e4d9-4f72-b117-ca07396cf8a1' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-17e8301e-e4d9-4f72-b117-ca07396cf8a1' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8e34cbb9-2517-47c5-8eca-b2275c191bf8' class='xr-var-data-in' type='checkbox'><label for='data-8e34cbb9-2517-47c5-8eca-b2275c191bf8' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 6 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
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       "\n",
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       "  <line x1=\"12\" y1=\"0\" x2=\"12\" y2=\"25\" />\n",
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       "  <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"25\" />\n",
       "  <line x1=\"31\" y1=\"0\" x2=\"31\" y2=\"25\" />\n",
       "  <line x1=\"38\" y1=\"0\" x2=\"38\" y2=\"25\" />\n",
       "  <line x1=\"43\" y1=\"0\" x2=\"43\" y2=\"25\" />\n",
       "  <line x1=\"50\" y1=\"0\" x2=\"50\" y2=\"25\" />\n",
       "  <line x1=\"56\" y1=\"0\" x2=\"56\" y2=\"25\" />\n",
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       "  <line x1=\"76\" y1=\"0\" x2=\"76\" y2=\"25\" />\n",
       "  <line x1=\"81\" y1=\"0\" x2=\"81\" y2=\"25\" />\n",
       "  <line x1=\"88\" y1=\"0\" x2=\"88\" y2=\"25\" />\n",
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       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "\n",
       "  <!-- Text -->\n",
       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1008000</text>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_call_rate</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-2d83ead4-c27f-4e21-b0c2-822bc90a5544' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-2d83ead4-c27f-4e21-b0c2-822bc90a5544' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-a2263a3e-0861-4ec3-b521-69e66a0eecae' class='xr-var-data-in' type='checkbox'><label for='data-a2263a3e-0861-4ec3-b521-69e66a0eecae' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 7 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=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" 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=\"12\" y1=\"0\" x2=\"12\" y2=\"25\" />\n",
       "  <line x1=\"18\" y1=\"0\" x2=\"18\" y2=\"25\" />\n",
       "  <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"25\" />\n",
       "  <line x1=\"31\" y1=\"0\" x2=\"31\" y2=\"25\" />\n",
       "  <line x1=\"38\" y1=\"0\" x2=\"38\" y2=\"25\" />\n",
       "  <line x1=\"43\" y1=\"0\" x2=\"43\" y2=\"25\" />\n",
       "  <line x1=\"50\" y1=\"0\" x2=\"50\" y2=\"25\" />\n",
       "  <line x1=\"56\" y1=\"0\" x2=\"56\" y2=\"25\" />\n",
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       "  <line x1=\"69\" y1=\"0\" x2=\"69\" y2=\"25\" />\n",
       "  <line x1=\"76\" y1=\"0\" x2=\"76\" y2=\"25\" />\n",
       "  <line x1=\"81\" y1=\"0\" x2=\"81\" y2=\"25\" />\n",
       "  <line x1=\"88\" y1=\"0\" x2=\"88\" y2=\"25\" />\n",
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       "  <line x1=\"101\" y1=\"0\" x2=\"101\" y2=\"25\" />\n",
       "  <line x1=\"107\" y1=\"0\" x2=\"107\" y2=\"25\" />\n",
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       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
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       "\n",
       "  <!-- Text -->\n",
       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1008000</text>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_het</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-11e85fce-c647-4974-a010-dd36503b9ff9' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-11e85fce-c647-4974-a010-dd36503b9ff9' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-2354e61e-0581-47ee-bb30-3a09b0cf7ed0' class='xr-var-data-in' type='checkbox'><label for='data-2354e61e-0581-47ee-bb30-3a09b0cf7ed0' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
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       "        <td>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_hom_ref</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-30e8930f-a213-4e77-b943-319a420d902e' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-30e8930f-a213-4e77-b943-319a420d902e' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-cdd90fa2-8cd0-4b0b-8dd9-30cfd9bc57d8' class='xr-var-data-in' type='checkbox'><label for='data-cdd90fa2-8cd0-4b0b-8dd9-30cfd9bc57d8' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_hom_alt</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-bc56f8cd-e424-499a-87fd-8eba0fdea4c8' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-bc56f8cd-e424-499a-87fd-8eba0fdea4c8' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-dcc52824-8234-48f4-97c6-1c30d4c25d64' class='xr-var-data-in' type='checkbox'><label for='data-dcc52824-8234-48f4-97c6-1c30d4c25d64' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "  <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"25\" style=\"stroke-width:2\" />\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_non_ref</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-8ea63c7e-85b2-47f3-ac0d-634fccafd2e5' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-8ea63c7e-85b2-47f3-ac0d-634fccafd2e5' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-57c2e756-5b01-42ff-8510-72f424b25bff' class='xr-var-data-in' type='checkbox'><label for='data-57c2e756-5b01-42ff-8510-72f424b25bff' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 8 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "  <line x1=\"94\" y1=\"0\" x2=\"94\" y2=\"25\" />\n",
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       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>call_genotype</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-eaaabf49-bdb6-45c5-8b19-953847126f38' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-eaaabf49-bdb6-45c5-8b19-953847126f38' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e1f5e98e-1c72-495a-be70-2b6706fd0d15' class='xr-var-data-in' type='checkbox'><label for='data-e1f5e98e-1c72-495a-be70-2b6706fd0d15' 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>comment :</span></dt><dd>Call genotype. Encoded as allele values (0 for the reference, 1 for\n",
       "the first allele, 2 for the second allele), -1 to indicate a\n",
       "missing value, or -2 to indicate a non allele in mixed ploidy datasets.</dd><dt><span>mixed_ploidy :</span></dt><dd>False</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"109\" height=\"193\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>call_genotype_mask</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>bool</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-bb4268d2-eef2-4628-97b9-cd1e03cb6638' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-bb4268d2-eef2-4628-97b9-cd1e03cb6638' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-792d0849-8935-4bb3-9ca2-ab7aeaa6bc0b' class='xr-var-data-in' type='checkbox'><label for='data-792d0849-8935-4bb3-9ca2-ab7aeaa6bc0b' 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>comment :</span></dt><dd>A flag for each call indicating which values are missing.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> bool numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>contig_id</span></div><div class='xr-var-dims'>(contigs)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1,), meta=np.ndarray&gt;</div><input id='attrs-9b0236b8-9a21-4b45-b35b-22e1ab01152b' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-9b0236b8-9a21-4b45-b35b-22e1ab01152b' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e396baf5-d646-4263-9cc1-7d44437754b1' class='xr-var-data-in' type='checkbox'><label for='data-e396baf5-d646-4263-9cc1-7d44437754b1' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 8 B </td>\n",
       "                        <td> 8 B </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1,) </td>\n",
       "                        <td> (1,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
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       "                </tbody>\n",
       "            </table>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_family_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-7f49e97b-9dd3-432a-a52a-de413acb732c' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-7f49e97b-9dd3-432a-a52a-de413acb732c' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-37cfb415-7847-4cab-aeb8-ce08421b36b9' class='xr-var-data-in' type='checkbox'><label for='data-37cfb415-7847-4cab-aeb8-ce08421b36b9' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-b577fb43-1a15-426c-8958-68286baff32a' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-b577fb43-1a15-426c-8958-68286baff32a' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e55257c9-a614-49a1-bda6-e0207c162c70' class='xr-var-data-in' type='checkbox'><label for='data-e55257c9-a614-49a1-bda6-e0207c162c70' 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>comment :</span></dt><dd>The unique identifier of the sample.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_maternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-17cb0e28-6830-48ec-8bd1-3ea5739003cd' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-17cb0e28-6830-48ec-8bd1-3ea5739003cd' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e64c7ec4-5007-4de2-9575-e90f4ccfaf27' class='xr-var-data-in' type='checkbox'><label for='data-e64c7ec4-5007-4de2-9575-e90f4ccfaf27' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_member_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-4d416fe9-c123-4f0b-a3e8-6f7b29838894' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-4d416fe9-c123-4f0b-a3e8-6f7b29838894' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-4c24e1ce-b26c-4e40-b481-d5442abe4293' class='xr-var-data-in' type='checkbox'><label for='data-4c24e1ce-b26c-4e40-b481-d5442abe4293' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_paternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-94e3199e-eb51-45a9-b0fc-7839b9cae022' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-94e3199e-eb51-45a9-b0fc-7839b9cae022' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-6b59f8fd-71f8-4c66-b724-e64d5859129f' class='xr-var-data-in' type='checkbox'><label for='data-6b59f8fd-71f8-4c66-b724-e64d5859129f' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_phenotype</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-3c3fe663-d3ac-47d9-8922-bca608b6127f' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-3c3fe663-d3ac-47d9-8922-bca608b6127f' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-05beb75a-888a-4c7b-8a3b-f64c2cfc19ac' class='xr-var-data-in' type='checkbox'><label for='data-05beb75a-888a-4c7b-8a3b-f64c2cfc19ac' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
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       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_sex</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-5d027873-8895-4013-b4b3-39ae8b99ee6f' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-5d027873-8895-4013-b4b3-39ae8b99ee6f' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-83a3cffa-fa4b-4d6a-a684-42f288a97201' class='xr-var-data-in' type='checkbox'><label for='data-83a3cffa-fa4b-4d6a-a684-42f288a97201' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>|S1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988, 1), meta=np.ndarray&gt;</div><input id='attrs-47a31f9f-c34f-4ac2-8580-c82778b7f3e7' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-47a31f9f-c34f-4ac2-8580-c82778b7f3e7' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-99634ea4-4585-4086-aac5-42d4d55428b9' class='xr-var-data-in' type='checkbox'><label for='data-99634ea4-4585-4086-aac5-42d4d55428b9' 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>comment :</span></dt><dd>The possible alleles for the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 2) </td>\n",
       "                        <td> (153988, 1) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> |S1 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",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"25\" y2=\"0\" style=\"stroke-width:2\" />\n",
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       "\n",
       "  <!-- Vertical lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"120\" style=\"stroke-width:2\" />\n",
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       "  <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"120\" style=\"stroke-width:2\" />\n",
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       "\n",
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       "  <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)\">153988</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int16</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-0527fc5d-7b4b-4e2f-be9c-8b5e81758498' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-0527fc5d-7b4b-4e2f-be9c-8b5e81758498' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-6426645b-65ef-4e2a-b5d6-3ccd73a854a1' class='xr-var-data-in' type='checkbox'><label for='data-6426645b-65ef-4e2a-b5d6-3ccd73a854a1' 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>comment :</span></dt><dd>Index corresponding to contig name for each variant. In some less common\n",
       "scenarios, this may also be equivalent to the contig names if the data\n",
       "generating process used contig names that were also integers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int16 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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",
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       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
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       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
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       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >153988</text>\n",
       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_id</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U18</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-b6a8dbb2-6839-41b3-95ea-4056b6333fd0' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-b6a8dbb2-6839-41b3-95ea-4056b6333fd0' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8092ca32-2352-4a26-8d2b-6bcd1d22b43c' class='xr-var-data-in' type='checkbox'><label for='data-8092ca32-2352-4a26-8d2b-6bcd1d22b43c' 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>comment :</span></dt><dd>The unique identifier of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U18 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "\n",
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       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_position</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-1705b3ce-67fc-479b-847d-03480a63350a' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-1705b3ce-67fc-479b-847d-03480a63350a' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-af30a206-8f95-492f-9115-c348ec300294' class='xr-var-data-in' type='checkbox'><label for='data-af30a206-8f95-492f-9115-c348ec300294' 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>comment :</span></dt><dd>The reference position of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int32 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig_name</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-64fd33ba-2439-4e5e-a88c-6f645089e83a' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-64fd33ba-2439-4e5e-a88c-6f645089e83a' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-4a049410-26e4-45a6-bfa5-7bb1b8dbdfe8' class='xr-var-data-in' type='checkbox'><label for='data-4a049410-26e4-45a6-bfa5-7bb1b8dbdfe8' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 8 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
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       "                        <td> 7.69 MiB </td>\n",
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       "                        <td> (1008000,) </td>\n",
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      ],
      "text/plain": [
       "<xarray.Dataset>\n",
       "Dimensions:              (samples: 1008000, variants: 153988, ploidy: 2,\n",
       "                          contigs: 1, alleles: 2)\n",
       "Dimensions without coordinates: samples, variants, ploidy, contigs, alleles\n",
       "Data variables: (12/23)\n",
       "    sample_n_called      (samples) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    sample_call_rate     (samples) float64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    sample_n_het         (samples) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    sample_n_hom_ref     (samples) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    sample_n_hom_alt     (samples) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    sample_n_non_ref     (samples) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    ...                   ...\n",
       "    variant_contig       (variants) int16 dask.array<chunksize=(76994,), meta=np.ndarray>\n",
       "    variant_id           (variants) <U18 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_position     (variants) int32 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_contig_name  (variants) <U2 dask.array<chunksize=(76994,), meta=np.ndarray>\n",
       "    sample_ancestry      (samples) object dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_pheno         (samples) int64 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "Attributes: (2)"
      ]
     },
     "execution_count": 16,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "ds = sg.sample_stats(ds)\n",
    "ds"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 17,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds.sample_call_rate.attrs[\"long_name\"] = \"Sample call rate\"\n",
    "#xr.plot.hist(ds.sample_call_rate, range=(.88,1), bins=50, size=8, edgecolor=\"black\");"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 18,
   "metadata": {},
   "outputs": [
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       ".xr-var-name {\n",
       "  grid-column: 1;\n",
       "}\n",
       "\n",
       ".xr-var-dims {\n",
       "  grid-column: 2;\n",
       "}\n",
       "\n",
       ".xr-var-dtype {\n",
       "  grid-column: 3;\n",
       "  text-align: right;\n",
       "  color: var(--xr-font-color2);\n",
       "}\n",
       "\n",
       ".xr-var-preview {\n",
       "  grid-column: 4;\n",
       "}\n",
       "\n",
       ".xr-index-preview {\n",
       "  grid-column: 2 / 5;\n",
       "  color: var(--xr-font-color2);\n",
       "}\n",
       "\n",
       ".xr-var-name,\n",
       ".xr-var-dims,\n",
       ".xr-var-dtype,\n",
       ".xr-preview,\n",
       ".xr-attrs dt {\n",
       "  white-space: nowrap;\n",
       "  overflow: hidden;\n",
       "  text-overflow: ellipsis;\n",
       "  padding-right: 10px;\n",
       "}\n",
       "\n",
       ".xr-var-name:hover,\n",
       ".xr-var-dims:hover,\n",
       ".xr-var-dtype:hover,\n",
       ".xr-attrs dt:hover {\n",
       "  overflow: visible;\n",
       "  width: auto;\n",
       "  z-index: 1;\n",
       "}\n",
       "\n",
       ".xr-var-attrs,\n",
       ".xr-var-data,\n",
       ".xr-index-data {\n",
       "  display: none;\n",
       "  background-color: var(--xr-background-color) !important;\n",
       "  padding-bottom: 5px !important;\n",
       "}\n",
       "\n",
       ".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
       ".xr-var-data-in:checked ~ .xr-var-data,\n",
       ".xr-index-data-in:checked ~ .xr-index-data {\n",
       "  display: block;\n",
       "}\n",
       "\n",
       ".xr-var-data > table {\n",
       "  float: right;\n",
       "}\n",
       "\n",
       ".xr-var-name span,\n",
       ".xr-var-data,\n",
       ".xr-index-name div,\n",
       ".xr-index-data,\n",
       ".xr-attrs {\n",
       "  padding-left: 25px !important;\n",
       "}\n",
       "\n",
       ".xr-attrs,\n",
       ".xr-var-attrs,\n",
       ".xr-var-data,\n",
       ".xr-index-data {\n",
       "  grid-column: 1 / -1;\n",
       "}\n",
       "\n",
       "dl.xr-attrs {\n",
       "  padding: 0;\n",
       "  margin: 0;\n",
       "  display: grid;\n",
       "  grid-template-columns: 125px auto;\n",
       "}\n",
       "\n",
       ".xr-attrs dt,\n",
       ".xr-attrs dd {\n",
       "  padding: 0;\n",
       "  margin: 0;\n",
       "  float: left;\n",
       "  padding-right: 10px;\n",
       "  width: auto;\n",
       "}\n",
       "\n",
       ".xr-attrs dt {\n",
       "  font-weight: normal;\n",
       "  grid-column: 1;\n",
       "}\n",
       "\n",
       ".xr-attrs dt:hover span {\n",
       "  display: inline-block;\n",
       "  background: var(--xr-background-color);\n",
       "  padding-right: 10px;\n",
       "}\n",
       "\n",
       ".xr-attrs dd {\n",
       "  grid-column: 2;\n",
       "  white-space: pre-wrap;\n",
       "  word-break: break-all;\n",
       "}\n",
       "\n",
       ".xr-icon-database,\n",
       ".xr-icon-file-text2,\n",
       ".xr-no-icon {\n",
       "  display: inline-block;\n",
       "  vertical-align: middle;\n",
       "  width: 1em;\n",
       "  height: 1.5em !important;\n",
       "  stroke-width: 0;\n",
       "  stroke: currentColor;\n",
       "  fill: currentColor;\n",
       "}\n",
       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.Dataset&gt;\n",
       "Dimensions:                   (variants: 153988, alleles: 2, samples: 1008000,\n",
       "                               ploidy: 2, contigs: 1)\n",
       "Dimensions without coordinates: variants, alleles, samples, ploidy, contigs\n",
       "Data variables: (12/32)\n",
       "    variant_n_called          (variants) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    variant_call_rate         (variants) float64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    variant_n_het             (variants) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    variant_n_hom_ref         (variants) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    variant_n_hom_alt         (variants) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    variant_n_non_ref         (variants) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    ...                        ...\n",
       "    variant_contig            (variants) int16 dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;\n",
       "    variant_id                (variants) &lt;U18 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_position          (variants) int32 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_contig_name       (variants) &lt;U2 dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;\n",
       "    sample_ancestry           (samples) object dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_pheno              (samples) int64 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "Attributes: (2)</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-1c56b123-73a2-44eb-bd60-8122a0250d11' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-1c56b123-73a2-44eb-bd60-8122a0250d11' class='xr-section-summary'  title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span>variants</span>: 153988</li><li><span>alleles</span>: 2</li><li><span>samples</span>: 1008000</li><li><span>ploidy</span>: 2</li><li><span>contigs</span>: 1</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-454cbeb7-ffb1-421b-8be8-98e33b06151a' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-454cbeb7-ffb1-421b-8be8-98e33b06151a' class='xr-section-summary'  title='Expand/collapse section'>Coordinates: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-b326b95d-ca8b-4868-a477-54a7f74a0dd9' class='xr-section-summary-in' type='checkbox'  checked><label for='section-b326b95d-ca8b-4868-a477-54a7f74a0dd9' class='xr-section-summary' >Data variables: <span>(32)</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>variant_n_called</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-3eb75070-4d0b-4c21-8146-6335fb5709e7' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-3eb75070-4d0b-4c21-8146-6335fb5709e7' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-eada48d9-c8ca-416d-8f1f-d51bc3681dbf' class='xr-var-data-in' type='checkbox'><label for='data-eada48d9-c8ca-416d-8f1f-d51bc3681dbf' 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> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_call_rate</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-98fbf03a-e258-4ea1-a0ab-8df27a021ba2' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-98fbf03a-e258-4ea1-a0ab-8df27a021ba2' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ec5217ef-665f-48d4-99c1-333c7a4e3b54' class='xr-var-data-in' type='checkbox'><label for='data-ec5217ef-665f-48d4-99c1-333c7a4e3b54' 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> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 6 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=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_het</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-26bedbc1-8b17-474d-89c1-29d7a1200408' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-26bedbc1-8b17-474d-89c1-29d7a1200408' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-9adf89af-5e72-4e94-a684-78aa6ad326d8' class='xr-var-data-in' type='checkbox'><label for='data-9adf89af-5e72-4e94-a684-78aa6ad326d8' 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> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
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       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 4 graph layers </td>\n",
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       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_hom_ref</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-9f01f4ff-e2ed-472d-9b16-349b05514444' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-9f01f4ff-e2ed-472d-9b16-349b05514444' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-84e4ff45-1db4-44b7-9400-d8d97a199935' class='xr-var-data-in' type='checkbox'><label for='data-84e4ff45-1db4-44b7-9400-d8d97a199935' 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",
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       "        <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> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 4 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_hom_alt</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-0a2b358b-2dd8-4f23-a5e2-383461358992' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-0a2b358b-2dd8-4f23-a5e2-383461358992' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-a78df9aa-ebcb-4c8e-b894-f003dcc46cdb' class='xr-var-data-in' type='checkbox'><label for='data-a78df9aa-ebcb-4c8e-b894-f003dcc46cdb' 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",
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       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
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       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
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       "                    <tr>\n",
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       "                        <td> (8192,) </td>\n",
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       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 4 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_non_ref</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-27c477cb-242b-49d0-8fae-786e9610b0db' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-27c477cb-242b-49d0-8fae-786e9610b0db' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ed87d04c-ce7b-400d-bd3e-f8bbc4ebaf98' class='xr-var-data-in' type='checkbox'><label for='data-ed87d04c-ce7b-400d-bd3e-f8bbc4ebaf98' 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",
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       "                        <th> Array </th>\n",
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       "                <tbody>\n",
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       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
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       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 7 graph layers </td>\n",
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       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele_count</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>uint64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 2), meta=np.ndarray&gt;</div><input id='attrs-6244e901-1ed8-4c34-828a-8e7f20331ba3' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-6244e901-1ed8-4c34-828a-8e7f20331ba3' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-300eaa3f-90c0-45ea-99c6-6a4139ba522a' class='xr-var-data-in' type='checkbox'><label for='data-300eaa3f-90c0-45ea-99c6-6a4139ba522a' 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>comment :</span></dt><dd>Variant allele counts. With shape (variants, alleles) and values\n",
       "corresponding to the number of non-missing occurrences of each allele.</dd></dl></div><div class='xr-var-data'><table>\n",
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       "                <tbody>\n",
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       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 2.35 MiB </td>\n",
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       "                        <th> Shape </th>\n",
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       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> uint64 numpy.ndarray </td>\n",
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       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele_total</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-bd43a0c1-f8d7-4017-8f9f-eba34f86b780' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-bd43a0c1-f8d7-4017-8f9f-eba34f86b780' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-3c031ed2-f20f-4e26-8eea-0b85a4fc6265' class='xr-var-data-in' type='checkbox'><label for='data-3c031ed2-f20f-4e26-8eea-0b85a4fc6265' 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",
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       "                    <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> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 7 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele_frequency</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 2), meta=np.ndarray&gt;</div><input id='attrs-22f4a9be-b50c-4569-a08e-911b87113651' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-22f4a9be-b50c-4569-a08e-911b87113651' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-3a49259c-2205-4c4b-a57e-4f636aa3185a' class='xr-var-data-in' type='checkbox'><label for='data-3a49259c-2205-4c4b-a57e-4f636aa3185a' 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> 2.35 MiB </td>\n",
       "                        <td> 128.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 2) </td>\n",
       "                        <td> (8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 10 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",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_called</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-b540676b-2b08-4f27-a0c5-193a4e613162' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-b540676b-2b08-4f27-a0c5-193a4e613162' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-eea6fd90-d087-403c-8097-68faefcb5e5a' class='xr-var-data-in' type='checkbox'><label for='data-eea6fd90-d087-403c-8097-68faefcb5e5a' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 6 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_call_rate</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-d7da6b47-0072-47d4-9c01-7468802de05b' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-d7da6b47-0072-47d4-9c01-7468802de05b' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-9eab9d30-9867-43de-903c-b39e9226657c' class='xr-var-data-in' type='checkbox'><label for='data-9eab9d30-9867-43de-903c-b39e9226657c' 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>Sample call rate</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 7 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> float64 numpy.ndarray </td>\n",
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       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_het</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-969911d9-2f08-48e8-a1d2-57599f59a9fc' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-969911d9-2f08-48e8-a1d2-57599f59a9fc' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-b0af0090-478b-4179-9baa-e021fd8251ec' class='xr-var-data-in' type='checkbox'><label for='data-b0af0090-478b-4179-9baa-e021fd8251ec' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_hom_ref</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-802def5b-b748-49dc-ae1c-c5448cf5cd5a' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-802def5b-b748-49dc-ae1c-c5448cf5cd5a' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-7537fe35-8cec-44f0-b143-d33445418c6c' class='xr-var-data-in' type='checkbox'><label for='data-7537fe35-8cec-44f0-b143-d33445418c6c' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_hom_alt</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-a9754330-b04d-4248-8943-290bd5d6e3b6' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-a9754330-b04d-4248-8943-290bd5d6e3b6' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-778e0594-f4f9-422a-8b3d-7ccea342cadf' class='xr-var-data-in' type='checkbox'><label for='data-778e0594-f4f9-422a-8b3d-7ccea342cadf' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_non_ref</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-f3ba8604-490d-4acf-8a83-a4ba1d708e19' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-f3ba8604-490d-4acf-8a83-a4ba1d708e19' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-0c1eabac-4c62-4bec-839a-610568c7edf3' class='xr-var-data-in' type='checkbox'><label for='data-0c1eabac-4c62-4bec-839a-610568c7edf3' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 8 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>call_genotype</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-0f79e66d-8db3-4e99-9d8b-d67a0ad40398' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-0f79e66d-8db3-4e99-9d8b-d67a0ad40398' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-1f2473ec-869b-449c-ba4b-a54b20ba912c' class='xr-var-data-in' type='checkbox'><label for='data-1f2473ec-869b-449c-ba4b-a54b20ba912c' 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>comment :</span></dt><dd>Call genotype. Encoded as allele values (0 for the reference, 1 for\n",
       "the first allele, 2 for the second allele), -1 to indicate a\n",
       "missing value, or -2 to indicate a non allele in mixed ploidy datasets.</dd><dt><span>mixed_ploidy :</span></dt><dd>False</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"109\" height=\"193\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>call_genotype_mask</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>bool</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-6d430844-9fb5-46c8-8ac0-744559124f0e' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-6d430844-9fb5-46c8-8ac0-744559124f0e' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-115cc4cd-2ff9-415c-9e2b-8b599a3c9d31' class='xr-var-data-in' type='checkbox'><label for='data-115cc4cd-2ff9-415c-9e2b-8b599a3c9d31' 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>comment :</span></dt><dd>A flag for each call indicating which values are missing.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> bool numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
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       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>contig_id</span></div><div class='xr-var-dims'>(contigs)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1,), meta=np.ndarray&gt;</div><input id='attrs-dc674f12-67fe-431f-a415-7954c69d9d3e' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-dc674f12-67fe-431f-a415-7954c69d9d3e' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-4cb4f852-6456-40a7-a5ed-2b555c7b60ae' class='xr-var-data-in' type='checkbox'><label for='data-4cb4f852-6456-40a7-a5ed-2b555c7b60ae' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 8 B </td>\n",
       "                        <td> 8 B </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1,) </td>\n",
       "                        <td> (1,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_family_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-041f9a37-bed0-47c0-b8d7-3e4e43a0fdb4' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-041f9a37-bed0-47c0-b8d7-3e4e43a0fdb4' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-79d12df3-c9d1-4912-8f9c-23ed19a9889c' class='xr-var-data-in' type='checkbox'><label for='data-79d12df3-c9d1-4912-8f9c-23ed19a9889c' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-14c9433f-9bbc-4c4d-b950-420194e565c4' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-14c9433f-9bbc-4c4d-b950-420194e565c4' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-481673df-c803-4a29-aef0-4b74895d6784' class='xr-var-data-in' type='checkbox'><label for='data-481673df-c803-4a29-aef0-4b74895d6784' 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>comment :</span></dt><dd>The unique identifier of the sample.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
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       "            </table>\n",
       "        </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_maternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-868a2659-22cf-4859-b529-b40c1e9ff859' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-868a2659-22cf-4859-b529-b40c1e9ff859' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e1e7dee1-d29d-49c4-a5a2-9fb6e6390e21' class='xr-var-data-in' type='checkbox'><label for='data-e1e7dee1-d29d-49c4-a5a2-9fb6e6390e21' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
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       "        </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_member_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-ab61acf5-52af-48cb-9cf4-24ae64f1775d' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-ab61acf5-52af-48cb-9cf4-24ae64f1775d' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-a71cd8e6-c663-4096-b7c5-ea325be91e98' class='xr-var-data-in' type='checkbox'><label for='data-a71cd8e6-c663-4096-b7c5-ea325be91e98' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
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       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_paternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-0c911d72-20ed-4561-927e-da5d762c66f1' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-0c911d72-20ed-4561-927e-da5d762c66f1' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-83800a59-53e9-4f36-99d4-bb3653f1d14c' class='xr-var-data-in' type='checkbox'><label for='data-83800a59-53e9-4f36-99d4-bb3653f1d14c' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
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       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_phenotype</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-91c8d7ba-fa60-4c6d-93ef-4adf292bf24e' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-91c8d7ba-fa60-4c6d-93ef-4adf292bf24e' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e2183fd5-22a4-4e76-8dc3-ce654a3d4079' class='xr-var-data-in' type='checkbox'><label for='data-e2183fd5-22a4-4e76-8dc3-ce654a3d4079' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_sex</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-784495bf-e89f-4d25-8d33-77b0acf16dcb' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-784495bf-e89f-4d25-8d33-77b0acf16dcb' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-edcb9509-e543-43ed-87c4-b14ec3cb22e4' class='xr-var-data-in' type='checkbox'><label for='data-edcb9509-e543-43ed-87c4-b14ec3cb22e4' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
       "  <!-- Colored Rectangle -->\n",
       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>|S1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988, 1), meta=np.ndarray&gt;</div><input id='attrs-905943b9-92a0-4fbc-913b-501a4d93e458' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-905943b9-92a0-4fbc-913b-501a4d93e458' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-9d23e049-be4f-4a7d-b810-92d56ff951fd' class='xr-var-data-in' type='checkbox'><label for='data-9d23e049-be4f-4a7d-b810-92d56ff951fd' 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>comment :</span></dt><dd>The possible alleles for the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 2) </td>\n",
       "                        <td> (153988, 1) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> |S1 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",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"25\" y2=\"0\" style=\"stroke-width:2\" />\n",
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       "\n",
       "  <!-- Vertical lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"120\" style=\"stroke-width:2\" />\n",
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       "  <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"120\" style=\"stroke-width:2\" />\n",
       "\n",
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       "\n",
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       "  <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)\">153988</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int16</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-5c24c2b1-5fa3-42e7-8de1-5e88d2ffdf6c' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-5c24c2b1-5fa3-42e7-8de1-5e88d2ffdf6c' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-1505cc93-5ccd-4b04-8614-8f6029a7ef75' class='xr-var-data-in' type='checkbox'><label for='data-1505cc93-5ccd-4b04-8614-8f6029a7ef75' 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>comment :</span></dt><dd>Index corresponding to contig name for each variant. In some less common\n",
       "scenarios, this may also be equivalent to the contig names if the data\n",
       "generating process used contig names that were also integers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int16 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"60\" y1=\"0\" x2=\"60\" y2=\"25\" />\n",
       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
       "  <!-- Colored Rectangle -->\n",
       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
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       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >153988</text>\n",
       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_id</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U18</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-8dfa7544-4a05-4e5d-b17a-a4f2fc8847fc' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-8dfa7544-4a05-4e5d-b17a-a4f2fc8847fc' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-a5f285f9-a7f5-49c3-81ff-ce5b20c30f91' class='xr-var-data-in' type='checkbox'><label for='data-a5f285f9-a7f5-49c3-81ff-ce5b20c30f91' 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>comment :</span></dt><dd>The unique identifier of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U18 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "\n",
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       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_position</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-e88c447e-4944-491a-b833-8847b4e3be34' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e88c447e-4944-491a-b833-8847b4e3be34' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-20001756-db06-48a1-8765-3efb680b526d' class='xr-var-data-in' type='checkbox'><label for='data-20001756-db06-48a1-8765-3efb680b526d' 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>comment :</span></dt><dd>The reference position of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int32 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig_name</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-e14aeb1e-330e-4cd5-ac3a-bb66c4c514d9' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-e14aeb1e-330e-4cd5-ac3a-bb66c4c514d9' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e6aef234-8001-47dc-b842-df5426a42ad2' class='xr-var-data-in' type='checkbox'><label for='data-e6aef234-8001-47dc-b842-df5426a42ad2' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 8 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_ancestry</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>object</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-72a48da5-3fc9-490b-8df2-4173dcff9987' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-72a48da5-3fc9-490b-8df2-4173dcff9987' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-e5a99cef-64dd-4d17-9954-a659ab32928e' class='xr-var-data-in' type='checkbox'><label for='data-e5a99cef-64dd-4d17-9954-a659ab32928e' 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> 7.69 MiB </td>\n",
       "                        <td> 7.69 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </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\"> object numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
       "  <!-- Colored Rectangle -->\n",
       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
       "  <!-- Text -->\n",
       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1008000</text>\n",
       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_pheno</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-8d8e1ddf-7f3d-4f74-bf89-6de21015a3f6' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-8d8e1ddf-7f3d-4f74-bf89-6de21015a3f6' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-58b5e615-235a-4ef3-9887-c6ca2052da56' class='xr-var-data-in' type='checkbox'><label for='data-58b5e615-235a-4ef3-9887-c6ca2052da56' 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> 7.69 MiB </td>\n",
       "                        <td> 7.69 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </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\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
       "  <!-- Colored Rectangle -->\n",
       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
       "  <!-- Text -->\n",
       "  <text x=\"60.000000\" y=\"45.412617\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" >1008000</text>\n",
       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li></ul></div></li><li class='xr-section-item'><input id='section-34005344-951f-403d-a541-c411311454f9' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-34005344-951f-403d-a541-c411311454f9' class='xr-section-summary'  title='Expand/collapse section'>Indexes: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-45a2487b-8029-4bd6-b444-3e24154e6234' class='xr-section-summary-in' type='checkbox'  ><label for='section-45a2487b-8029-4bd6-b444-3e24154e6234' class='xr-section-summary' >Attributes: <span>(2)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>contigs :</span></dt><dd>[&#x27;20&#x27;]</dd><dt><span>source :</span></dt><dd>sgkit-0.7.1.dev38+g7d8f5f3</dd></dl></div></li></ul></div></div>"
      ],
      "text/plain": [
       "<xarray.Dataset>\n",
       "Dimensions:                   (variants: 153988, alleles: 2, samples: 1008000,\n",
       "                               ploidy: 2, contigs: 1)\n",
       "Dimensions without coordinates: variants, alleles, samples, ploidy, contigs\n",
       "Data variables: (12/32)\n",
       "    variant_n_called          (variants) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    variant_call_rate         (variants) float64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    variant_n_het             (variants) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    variant_n_hom_ref         (variants) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    variant_n_hom_alt         (variants) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    variant_n_non_ref         (variants) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    ...                        ...\n",
       "    variant_contig            (variants) int16 dask.array<chunksize=(76994,), meta=np.ndarray>\n",
       "    variant_id                (variants) <U18 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_position          (variants) int32 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_contig_name       (variants) <U2 dask.array<chunksize=(76994,), meta=np.ndarray>\n",
       "    sample_ancestry           (samples) object dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_pheno              (samples) int64 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "Attributes: (2)"
      ]
     },
     "execution_count": 18,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "ds = sg.variant_stats(ds)\n",
    "ds"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 32,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "2024-01-11 17:15:36,228 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:36,231 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:36,266 - distributed.worker - ERROR - Worker stream died during communication: tcp://127.0.0.1:33091\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/tornado/iostream.py\", line 861, in _read_to_buffer\n",
      "    bytes_read = self.read_from_fd(buf)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/tornado/iostream.py\", line 1116, in read_from_fd\n",
      "    return self.socket.recv_into(buf, len(buf))\n",
      "ConnectionResetError: [Errno 104] Connection reset by peer\n",
      "\n",
      "The above exception was the direct cause of the following exception:\n",
      "\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2056, in gather_dep\n",
      "    response = await get_data_from_worker(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2860, in get_data_from_worker\n",
      "    response = await send_recv(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/core.py\", line 1153, in send_recv\n",
      "    response = await comm.read(deserializers=deserializers)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 237, in read\n",
      "    convert_stream_closed_error(self, e)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 140, in convert_stream_closed_error\n",
      "    raise CommClosedError(f\"in {obj}: {exc.__class__.__name__}: {exc}\") from exc\n",
      "distributed.comm.core.CommClosedError: in <TCP (closed) Ephemeral Worker->Worker for gather local=tcp://127.0.0.1:35812 remote=tcp://127.0.0.1:33091>: ConnectionResetError: [Errno 104] Connection reset by peer\n",
      "2024-01-11 17:15:36,299 - distributed.worker - ERROR - failed during get data with tcp://127.0.0.1:39043 -> tcp://127.0.0.1:34479\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 225, in read\n",
      "    frames_nosplit_nbytes_bin = await stream.read_bytes(fmt_size)\n",
      "tornado.iostream.StreamClosedError: Stream is closed\n",
      "\n",
      "The above exception was the direct cause of the following exception:\n",
      "\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 1780, in get_data\n",
      "    response = await comm.read(deserializers=serializers)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 237, in read\n",
      "    convert_stream_closed_error(self, e)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 142, in convert_stream_closed_error\n",
      "    raise CommClosedError(f\"in {obj}: {exc}\") from exc\n",
      "distributed.comm.core.CommClosedError: in <TCP (closed)  local=tcp://127.0.0.1:39043 remote=tcp://127.0.0.1:46816>: Stream is closed\n",
      "2024-01-11 17:15:36,300 - distributed.worker - ERROR - Worker stream died during communication: tcp://127.0.0.1:34479\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 225, in read\n",
      "    frames_nosplit_nbytes_bin = await stream.read_bytes(fmt_size)\n",
      "tornado.iostream.StreamClosedError: Stream is closed\n",
      "\n",
      "The above exception was the direct cause of the following exception:\n",
      "\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2056, in gather_dep\n",
      "    response = await get_data_from_worker(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2860, in get_data_from_worker\n",
      "    response = await send_recv(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/core.py\", line 1153, in send_recv\n",
      "    response = await comm.read(deserializers=deserializers)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 237, in read\n",
      "    convert_stream_closed_error(self, e)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 142, in convert_stream_closed_error\n",
      "    raise CommClosedError(f\"in {obj}: {exc}\") from exc\n",
      "distributed.comm.core.CommClosedError: in <TCP (closed) Ephemeral Worker->Worker for gather local=tcp://127.0.0.1:34736 remote=tcp://127.0.0.1:34479>: Stream is closed\n",
      "2024-01-11 17:15:36,307 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:36,310 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:36,310 - distributed.worker - ERROR - Worker stream died during communication: tcp://127.0.0.1:33255\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/tornado/iostream.py\", line 861, in _read_to_buffer\n",
      "    bytes_read = self.read_from_fd(buf)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/tornado/iostream.py\", line 1116, in read_from_fd\n",
      "    return self.socket.recv_into(buf, len(buf))\n",
      "ConnectionResetError: [Errno 104] Connection reset by peer\n",
      "\n",
      "The above exception was the direct cause of the following exception:\n",
      "\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2056, in gather_dep\n",
      "    response = await get_data_from_worker(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2860, in get_data_from_worker\n",
      "    response = await send_recv(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/core.py\", line 1153, in send_recv\n",
      "    response = await comm.read(deserializers=deserializers)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 237, in read\n",
      "    convert_stream_closed_error(self, e)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 140, in convert_stream_closed_error\n",
      "    raise CommClosedError(f\"in {obj}: {exc.__class__.__name__}: {exc}\") from exc\n",
      "distributed.comm.core.CommClosedError: in <TCP (closed) Ephemeral Worker->Worker for gather local=tcp://127.0.0.1:39196 remote=tcp://127.0.0.1:33255>: ConnectionResetError: [Errno 104] Connection reset by peer\n",
      "2024-01-11 17:15:36,326 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:36,349 - distributed.worker - ERROR - Worker stream died during communication: tcp://127.0.0.1:39295\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 225, in read\n",
      "    frames_nosplit_nbytes_bin = await stream.read_bytes(fmt_size)\n",
      "tornado.iostream.StreamClosedError: Stream is closed\n",
      "\n",
      "The above exception was the direct cause of the following exception:\n",
      "\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2056, in gather_dep\n",
      "    response = await get_data_from_worker(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2860, in get_data_from_worker\n",
      "    response = await send_recv(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/core.py\", line 1153, in send_recv\n",
      "    response = await comm.read(deserializers=deserializers)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 237, in read\n",
      "    convert_stream_closed_error(self, e)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 142, in convert_stream_closed_error\n",
      "    raise CommClosedError(f\"in {obj}: {exc}\") from exc\n",
      "distributed.comm.core.CommClosedError: in <TCP (closed) Ephemeral Worker->Worker for gather local=tcp://127.0.0.1:56918 remote=tcp://127.0.0.1:39295>: Stream is closed\n",
      "2024-01-11 17:15:36,352 - distributed.worker - ERROR - Worker stream died during communication: tcp://127.0.0.1:44887\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/tornado/iostream.py\", line 861, in _read_to_buffer\n",
      "    bytes_read = self.read_from_fd(buf)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/tornado/iostream.py\", line 1116, in read_from_fd\n",
      "    return self.socket.recv_into(buf, len(buf))\n",
      "ConnectionResetError: [Errno 104] Connection reset by peer\n",
      "\n",
      "The above exception was the direct cause of the following exception:\n",
      "\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2056, in gather_dep\n",
      "    response = await get_data_from_worker(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2860, in get_data_from_worker\n",
      "    response = await send_recv(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/core.py\", line 1153, in send_recv\n",
      "    response = await comm.read(deserializers=deserializers)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 237, in read\n",
      "    convert_stream_closed_error(self, e)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 140, in convert_stream_closed_error\n",
      "    raise CommClosedError(f\"in {obj}: {exc.__class__.__name__}: {exc}\") from exc\n",
      "distributed.comm.core.CommClosedError: in <TCP (closed) Ephemeral Worker->Worker for gather local=tcp://127.0.0.1:39964 remote=tcp://127.0.0.1:44887>: ConnectionResetError: [Errno 104] Connection reset by peer\n",
      "2024-01-11 17:15:36,352 - distributed.worker - ERROR - Worker stream died during communication: tcp://127.0.0.1:44887\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/tornado/iostream.py\", line 861, in _read_to_buffer\n",
      "    bytes_read = self.read_from_fd(buf)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/tornado/iostream.py\", line 1116, in read_from_fd\n",
      "    return self.socket.recv_into(buf, len(buf))\n",
      "ConnectionResetError: [Errno 104] Connection reset by peer\n",
      "\n",
      "The above exception was the direct cause of the following exception:\n",
      "\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2056, in gather_dep\n",
      "    response = await get_data_from_worker(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/worker.py\", line 2860, in get_data_from_worker\n",
      "    response = await send_recv(\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/core.py\", line 1153, in send_recv\n",
      "    response = await comm.read(deserializers=deserializers)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 237, in read\n",
      "    convert_stream_closed_error(self, e)\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/comm/tcp.py\", line 140, in convert_stream_closed_error\n",
      "    raise CommClosedError(f\"in {obj}: {exc.__class__.__name__}: {exc}\") from exc\n",
      "distributed.comm.core.CommClosedError: in <TCP (closed) Ephemeral Worker->Worker for gather local=tcp://127.0.0.1:52740 remote=tcp://127.0.0.1:44887>: ConnectionResetError: [Errno 104] Connection reset by peer\n",
      "2024-01-11 17:15:36,361 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:36,394 - distributed.nanny - WARNING - Restarting worker\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012482' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012483' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012484' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012485' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012486' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012487' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012488' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012489' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012490' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012491' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012492' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012493' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012494' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012495' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012496' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012497' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012498' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012499' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012500' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012501' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012502' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012503' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012504' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012505' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012506' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012507' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012508' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012509' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012510' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012511' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012512' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012513' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012514' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012515' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012516' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012517' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012518' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012519' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012520' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012521' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012522' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012523' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012524' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012525' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012526' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012527' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012528' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012529' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012530' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012531' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012532' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012533' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012534' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012535' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012536' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012537' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012538' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012539' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012540' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012541' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012542' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012543' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012544' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012545' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012546' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012547' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012548' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012549' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012550' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012551' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012552' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012553' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012554' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012555' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012556' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012557' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012558' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012559' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012560' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012561' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012562' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012563' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012564' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012565' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012566' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012567' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012568' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012569' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012570' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012571' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012572' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012573' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012574' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012575' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012576' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012577' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012578' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012579' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012580' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012581' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012582' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012583' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012584' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012585' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012586' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012587' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012588' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012589' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012590' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012591' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012592' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012593' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012594' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012595' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012596' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012597' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012598' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012599' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012600' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012601' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012602' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012603' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012604' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n",
      "Task exception was never retrieved\n",
      "future: <Task finished name='Task-2012605' coro=<Client._gather.<locals>.wait() done, defined at /home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py:2208> exception=AllExit()>\n",
      "Traceback (most recent call last):\n",
      "  File \"/home/ec2-user/.local/lib/python3.9/site-packages/distributed/client.py\", line 2217, in wait\n",
      "    raise AllExit()\n",
      "distributed.client.AllExit\n"
     ]
    },
    {
     "ename": "KilledWorker",
     "evalue": "Attempted to run task ('arange-genotype_as_bytes-index_as_genotype-astype-0d9ea21cc0c15c028899cea1fa9b05c4', 0) on 4 different workers, but all those workers died while running it. The last worker that attempt to run the task was tcp://127.0.0.1:39295. Inspecting worker logs is often a good next step to diagnose what went wrong. For more information see https://distributed.dask.org/en/stable/killed.html.",
     "output_type": "error",
     "traceback": [
      "\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
      "\u001b[0;31mKilledWorker\u001b[0m                              Traceback (most recent call last)",
      "Cell \u001b[0;32mIn[32], line 1\u001b[0m\n\u001b[0;32m----> 1\u001b[0m ds \u001b[38;5;241m=\u001b[39m \u001b[43msg\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mhardy_weinberg_test\u001b[49m\u001b[43m(\u001b[49m\u001b[43mds\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m      2\u001b[0m ds\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/sgkit/stats/hwe.py:220\u001b[0m, in \u001b[0;36mhardy_weinberg_test\u001b[0;34m(ds, genotype_count, ploidy, alleles, merge)\u001b[0m\n\u001b[1;32m    217\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m alleles \u001b[38;5;241m!=\u001b[39m \u001b[38;5;241m2\u001b[39m:\n\u001b[1;32m    218\u001b[0m     \u001b[38;5;28;01mraise\u001b[39;00m \u001b[38;5;167;01mNotImplementedError\u001b[39;00m(\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mHWE test only implemented for biallelic genotypes\u001b[39m\u001b[38;5;124m\"\u001b[39m)\n\u001b[0;32m--> 220\u001b[0m ds \u001b[38;5;241m=\u001b[39m \u001b[43mdefine_variable_if_absent\u001b[49m\u001b[43m(\u001b[49m\n\u001b[1;32m    221\u001b[0m \u001b[43m    \u001b[49m\u001b[43mds\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mvariables\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mvariant_genotype_count\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mgenotype_count\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mcount_variant_genotypes\u001b[49m\n\u001b[1;32m    222\u001b[0m \u001b[43m\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m    223\u001b[0m variables\u001b[38;5;241m.\u001b[39mvalidate(ds, {genotype_count: variables\u001b[38;5;241m.\u001b[39mvariant_genotype_count_spec})\n\u001b[1;32m    225\u001b[0m \u001b[38;5;66;03m# extract counts by coords\u001b[39;00m\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/sgkit/utils.py:282\u001b[0m, in \u001b[0;36mdefine_variable_if_absent\u001b[0;34m(ds, default_variable_name, variable_name, func, **kwargs)\u001b[0m\n\u001b[1;32m    278\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m variable_name \u001b[38;5;241m!=\u001b[39m default_variable_name:\n\u001b[1;32m    279\u001b[0m     \u001b[38;5;28;01mraise\u001b[39;00m \u001b[38;5;167;01mValueError\u001b[39;00m(\n\u001b[1;32m    280\u001b[0m         \u001b[38;5;124mf\u001b[39m\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mVariable \u001b[39m\u001b[38;5;124m'\u001b[39m\u001b[38;5;132;01m{\u001b[39;00mvariable_name\u001b[38;5;132;01m}\u001b[39;00m\u001b[38;5;124m'\u001b[39m\u001b[38;5;124m with non-default name is missing and will not be automatically defined.\u001b[39m\u001b[38;5;124m\"\u001b[39m\n\u001b[1;32m    281\u001b[0m     )\n\u001b[0;32m--> 282\u001b[0m \u001b[38;5;28;01mreturn\u001b[39;00m \u001b[43mfunc\u001b[49m\u001b[43m(\u001b[49m\u001b[43mds\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[38;5;241;43m*\u001b[39;49m\u001b[38;5;241;43m*\u001b[39;49m\u001b[43mkwargs\u001b[49m\u001b[43m)\u001b[49m\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/sgkit/stats/aggregation.py:350\u001b[0m, in \u001b[0;36mcount_variant_genotypes\u001b[0;34m(ds, call_genotype, genotype_id, assign_coords, merge)\u001b[0m\n\u001b[1;32m    281\u001b[0m \u001b[38;5;250m\u001b[39m\u001b[38;5;124;03m\"\"\"Count the number of calls of each possible genotype, at each variant.\u001b[39;00m\n\u001b[1;32m    282\u001b[0m \n\u001b[1;32m    283\u001b[0m \u001b[38;5;124;03mThe \"possible genotypes\" at a given variant locus include all possible\u001b[39;00m\n\u001b[0;32m   (...)\u001b[0m\n\u001b[1;32m    342\u001b[0m \u001b[38;5;124;03m       [2, 0, 0]], dtype=uint64)\u001b[39;00m\n\u001b[1;32m    343\u001b[0m \u001b[38;5;124;03m\"\"\"\u001b[39;00m\n\u001b[1;32m    344\u001b[0m \u001b[38;5;28;01mfrom\u001b[39;00m \u001b[38;5;21;01m.\u001b[39;00m\u001b[38;5;21;01mconversion_numba_fns\u001b[39;00m \u001b[38;5;28;01mimport\u001b[39;00m (\n\u001b[1;32m    345\u001b[0m     _comb_with_replacement,\n\u001b[1;32m    346\u001b[0m     _count_biallelic_genotypes,\n\u001b[1;32m    347\u001b[0m     _count_sorted_genotypes,\n\u001b[1;32m    348\u001b[0m )\n\u001b[0;32m--> 350\u001b[0m ds \u001b[38;5;241m=\u001b[39m \u001b[43mdefine_variable_if_absent\u001b[49m\u001b[43m(\u001b[49m\n\u001b[1;32m    351\u001b[0m \u001b[43m    \u001b[49m\u001b[43mds\u001b[49m\u001b[43m,\u001b[49m\n\u001b[1;32m    352\u001b[0m \u001b[43m    \u001b[49m\u001b[43mvariables\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mgenotype_id\u001b[49m\u001b[43m,\u001b[49m\n\u001b[1;32m    353\u001b[0m \u001b[43m    \u001b[49m\u001b[43mgenotype_id\u001b[49m\u001b[43m,\u001b[49m\n\u001b[1;32m    354\u001b[0m \u001b[43m    \u001b[49m\u001b[43mgenotype_coords\u001b[49m\u001b[43m,\u001b[49m\n\u001b[1;32m    355\u001b[0m \u001b[43m    \u001b[49m\u001b[43massign_coords\u001b[49m\u001b[38;5;241;43m=\u001b[39;49m\u001b[43massign_coords\u001b[49m\u001b[43m,\u001b[49m\n\u001b[1;32m    356\u001b[0m \u001b[43m\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m    357\u001b[0m variables\u001b[38;5;241m.\u001b[39mvalidate(\n\u001b[1;32m    358\u001b[0m     ds,\n\u001b[1;32m    359\u001b[0m     {\n\u001b[0;32m   (...)\u001b[0m\n\u001b[1;32m    362\u001b[0m     },\n\u001b[1;32m    363\u001b[0m )\n\u001b[1;32m    364\u001b[0m mixed_ploidy \u001b[38;5;241m=\u001b[39m ds[call_genotype]\u001b[38;5;241m.\u001b[39mattrs\u001b[38;5;241m.\u001b[39mget(\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mmixed_ploidy\u001b[39m\u001b[38;5;124m\"\u001b[39m, \u001b[38;5;28;01mFalse\u001b[39;00m)\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/sgkit/utils.py:282\u001b[0m, in \u001b[0;36mdefine_variable_if_absent\u001b[0;34m(ds, default_variable_name, variable_name, func, **kwargs)\u001b[0m\n\u001b[1;32m    278\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m variable_name \u001b[38;5;241m!=\u001b[39m default_variable_name:\n\u001b[1;32m    279\u001b[0m     \u001b[38;5;28;01mraise\u001b[39;00m \u001b[38;5;167;01mValueError\u001b[39;00m(\n\u001b[1;32m    280\u001b[0m         \u001b[38;5;124mf\u001b[39m\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mVariable \u001b[39m\u001b[38;5;124m'\u001b[39m\u001b[38;5;132;01m{\u001b[39;00mvariable_name\u001b[38;5;132;01m}\u001b[39;00m\u001b[38;5;124m'\u001b[39m\u001b[38;5;124m with non-default name is missing and will not be automatically defined.\u001b[39m\u001b[38;5;124m\"\u001b[39m\n\u001b[1;32m    281\u001b[0m     )\n\u001b[0;32m--> 282\u001b[0m \u001b[38;5;28;01mreturn\u001b[39;00m \u001b[43mfunc\u001b[49m\u001b[43m(\u001b[49m\u001b[43mds\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[38;5;241;43m*\u001b[39;49m\u001b[38;5;241;43m*\u001b[39;49m\u001b[43mkwargs\u001b[49m\u001b[43m)\u001b[49m\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/sgkit/stats/aggregation.py:452\u001b[0m, in \u001b[0;36mgenotype_coords\u001b[0;34m(ds, chunks, assign_coords, merge)\u001b[0m\n\u001b[1;32m    450\u001b[0m ds \u001b[38;5;241m=\u001b[39m conditional_merge_datasets(ds, new_ds, merge)\n\u001b[1;32m    451\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m assign_coords:\n\u001b[0;32m--> 452\u001b[0m     ds \u001b[38;5;241m=\u001b[39m \u001b[43mds\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43massign_coords\u001b[49m\u001b[43m(\u001b[49m\u001b[43m{\u001b[49m\u001b[38;5;124;43m\"\u001b[39;49m\u001b[38;5;124;43mgenotypes\u001b[39;49m\u001b[38;5;124;43m\"\u001b[39;49m\u001b[43m:\u001b[49m\u001b[43m \u001b[49m\u001b[43mS\u001b[49m\u001b[43m}\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m    453\u001b[0m \u001b[38;5;28;01mreturn\u001b[39;00m ds\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/xarray/core/common.py:621\u001b[0m, in \u001b[0;36mDataWithCoords.assign_coords\u001b[0;34m(self, coords, **coords_kwargs)\u001b[0m\n\u001b[1;32m    618\u001b[0m \u001b[38;5;28;01melse\u001b[39;00m:\n\u001b[1;32m    619\u001b[0m     results \u001b[38;5;241m=\u001b[39m \u001b[38;5;28mself\u001b[39m\u001b[38;5;241m.\u001b[39m_calc_assign_results(coords_combined)\n\u001b[0;32m--> 621\u001b[0m \u001b[43mdata\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mcoords\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mupdate\u001b[49m\u001b[43m(\u001b[49m\u001b[43mresults\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m    622\u001b[0m \u001b[38;5;28;01mreturn\u001b[39;00m data\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/xarray/core/coordinates.py:542\u001b[0m, in \u001b[0;36mCoordinates.update\u001b[0;34m(self, other)\u001b[0m\n\u001b[1;32m    540\u001b[0m     other_coords \u001b[38;5;241m=\u001b[39m other\n\u001b[1;32m    541\u001b[0m \u001b[38;5;28;01melse\u001b[39;00m:\n\u001b[0;32m--> 542\u001b[0m     other_coords \u001b[38;5;241m=\u001b[39m \u001b[43mcreate_coords_with_default_indexes\u001b[49m\u001b[43m(\u001b[49m\n\u001b[1;32m    543\u001b[0m \u001b[43m        \u001b[49m\u001b[38;5;28;43mgetattr\u001b[39;49m\u001b[43m(\u001b[49m\u001b[43mother\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[38;5;124;43m\"\u001b[39;49m\u001b[38;5;124;43mvariables\u001b[39;49m\u001b[38;5;124;43m\"\u001b[39;49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mother\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m    544\u001b[0m \u001b[43m    \u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m    546\u001b[0m \u001b[38;5;66;03m# Discard original indexed coordinates prior to merge allows to:\u001b[39;00m\n\u001b[1;32m    547\u001b[0m \u001b[38;5;66;03m# - fail early if the new coordinates don't preserve the integrity of existing\u001b[39;00m\n\u001b[1;32m    548\u001b[0m \u001b[38;5;66;03m#   multi-coordinate indexes\u001b[39;00m\n\u001b[1;32m    549\u001b[0m \u001b[38;5;66;03m# - drop & replace coordinates without alignment (note: we must keep indexed\u001b[39;00m\n\u001b[1;32m    550\u001b[0m \u001b[38;5;66;03m#   coordinates extracted from the DataArray objects passed as values to\u001b[39;00m\n\u001b[1;32m    551\u001b[0m \u001b[38;5;66;03m#   `other` - if any - as those are still used for aligning the old/new coordinates)\u001b[39;00m\n\u001b[1;32m    552\u001b[0m coords_to_align \u001b[38;5;241m=\u001b[39m drop_indexed_coords(\u001b[38;5;28mset\u001b[39m(other_coords) \u001b[38;5;241m&\u001b[39m \u001b[38;5;28mset\u001b[39m(other), \u001b[38;5;28mself\u001b[39m)\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/xarray/core/coordinates.py:1001\u001b[0m, in \u001b[0;36mcreate_coords_with_default_indexes\u001b[0;34m(coords, data_vars)\u001b[0m\n\u001b[1;32m    998\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m \u001b[38;5;28misinstance\u001b[39m(obj, DataArray):\n\u001b[1;32m    999\u001b[0m     dataarray_coords\u001b[38;5;241m.\u001b[39mappend(obj\u001b[38;5;241m.\u001b[39mcoords)\n\u001b[0;32m-> 1001\u001b[0m variable \u001b[38;5;241m=\u001b[39m \u001b[43mas_variable\u001b[49m\u001b[43m(\u001b[49m\u001b[43mobj\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mname\u001b[49m\u001b[38;5;241;43m=\u001b[39;49m\u001b[43mname\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m   1003\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m variable\u001b[38;5;241m.\u001b[39mdims \u001b[38;5;241m==\u001b[39m (name,):\n\u001b[1;32m   1004\u001b[0m     idx, idx_vars \u001b[38;5;241m=\u001b[39m create_default_index_implicit(variable, all_variables)\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/xarray/core/variable.py:159\u001b[0m, in \u001b[0;36mas_variable\u001b[0;34m(obj, name)\u001b[0m\n\u001b[1;32m    152\u001b[0m     \u001b[38;5;28;01mraise\u001b[39;00m \u001b[38;5;167;01mTypeError\u001b[39;00m(\n\u001b[1;32m    153\u001b[0m         \u001b[38;5;124mf\u001b[39m\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mVariable \u001b[39m\u001b[38;5;132;01m{\u001b[39;00mname\u001b[38;5;132;01m!r}\u001b[39;00m\u001b[38;5;124m: unable to convert object into a variable without an \u001b[39m\u001b[38;5;124m\"\u001b[39m\n\u001b[1;32m    154\u001b[0m         \u001b[38;5;124mf\u001b[39m\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mexplicit list of dimensions: \u001b[39m\u001b[38;5;132;01m{\u001b[39;00mobj\u001b[38;5;132;01m!r}\u001b[39;00m\u001b[38;5;124m\"\u001b[39m\n\u001b[1;32m    155\u001b[0m     )\n\u001b[1;32m    157\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m name \u001b[38;5;129;01mis\u001b[39;00m \u001b[38;5;129;01mnot\u001b[39;00m \u001b[38;5;28;01mNone\u001b[39;00m \u001b[38;5;129;01mand\u001b[39;00m name \u001b[38;5;129;01min\u001b[39;00m obj\u001b[38;5;241m.\u001b[39mdims \u001b[38;5;129;01mand\u001b[39;00m obj\u001b[38;5;241m.\u001b[39mndim \u001b[38;5;241m==\u001b[39m \u001b[38;5;241m1\u001b[39m:\n\u001b[1;32m    158\u001b[0m     \u001b[38;5;66;03m# automatically convert the Variable into an Index\u001b[39;00m\n\u001b[0;32m--> 159\u001b[0m     obj \u001b[38;5;241m=\u001b[39m \u001b[43mobj\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mto_index_variable\u001b[49m\u001b[43m(\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m    161\u001b[0m \u001b[38;5;28;01mreturn\u001b[39;00m obj\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/xarray/core/variable.py:572\u001b[0m, in \u001b[0;36mVariable.to_index_variable\u001b[0;34m(self)\u001b[0m\n\u001b[1;32m    570\u001b[0m \u001b[38;5;28;01mdef\u001b[39;00m \u001b[38;5;21mto_index_variable\u001b[39m(\u001b[38;5;28mself\u001b[39m) \u001b[38;5;241m-\u001b[39m\u001b[38;5;241m>\u001b[39m IndexVariable:\n\u001b[1;32m    571\u001b[0m \u001b[38;5;250m    \u001b[39m\u001b[38;5;124;03m\"\"\"Return this variable as an xarray.IndexVariable\"\"\"\u001b[39;00m\n\u001b[0;32m--> 572\u001b[0m     \u001b[38;5;28;01mreturn\u001b[39;00m \u001b[43mIndexVariable\u001b[49m\u001b[43m(\u001b[49m\n\u001b[1;32m    573\u001b[0m \u001b[43m        \u001b[49m\u001b[38;5;28;43mself\u001b[39;49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43m_dims\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[38;5;28;43mself\u001b[39;49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43m_data\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[38;5;28;43mself\u001b[39;49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43m_attrs\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mencoding\u001b[49m\u001b[38;5;241;43m=\u001b[39;49m\u001b[38;5;28;43mself\u001b[39;49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43m_encoding\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mfastpath\u001b[49m\u001b[38;5;241;43m=\u001b[39;49m\u001b[38;5;28;43;01mTrue\u001b[39;49;00m\n\u001b[1;32m    574\u001b[0m \u001b[43m    \u001b[49m\u001b[43m)\u001b[49m\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/xarray/core/variable.py:2641\u001b[0m, in \u001b[0;36mIndexVariable.__init__\u001b[0;34m(self, dims, data, attrs, encoding, fastpath)\u001b[0m\n\u001b[1;32m   2639\u001b[0m \u001b[38;5;66;03m# Unlike in Variable, always eagerly load values into memory\u001b[39;00m\n\u001b[1;32m   2640\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m \u001b[38;5;129;01mnot\u001b[39;00m \u001b[38;5;28misinstance\u001b[39m(\u001b[38;5;28mself\u001b[39m\u001b[38;5;241m.\u001b[39m_data, PandasIndexingAdapter):\n\u001b[0;32m-> 2641\u001b[0m     \u001b[38;5;28mself\u001b[39m\u001b[38;5;241m.\u001b[39m_data \u001b[38;5;241m=\u001b[39m \u001b[43mPandasIndexingAdapter\u001b[49m\u001b[43m(\u001b[49m\u001b[38;5;28;43mself\u001b[39;49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43m_data\u001b[49m\u001b[43m)\u001b[49m\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/xarray/core/indexing.py:1481\u001b[0m, in \u001b[0;36mPandasIndexingAdapter.__init__\u001b[0;34m(self, array, dtype)\u001b[0m\n\u001b[1;32m   1478\u001b[0m \u001b[38;5;28;01mdef\u001b[39;00m \u001b[38;5;21m__init__\u001b[39m(\u001b[38;5;28mself\u001b[39m, array: pd\u001b[38;5;241m.\u001b[39mIndex, dtype: DTypeLike \u001b[38;5;241m=\u001b[39m \u001b[38;5;28;01mNone\u001b[39;00m):\n\u001b[1;32m   1479\u001b[0m     \u001b[38;5;28;01mfrom\u001b[39;00m \u001b[38;5;21;01mxarray\u001b[39;00m\u001b[38;5;21;01m.\u001b[39;00m\u001b[38;5;21;01mcore\u001b[39;00m\u001b[38;5;21;01m.\u001b[39;00m\u001b[38;5;21;01mindexes\u001b[39;00m \u001b[38;5;28;01mimport\u001b[39;00m safe_cast_to_index\n\u001b[0;32m-> 1481\u001b[0m     \u001b[38;5;28mself\u001b[39m\u001b[38;5;241m.\u001b[39marray \u001b[38;5;241m=\u001b[39m \u001b[43msafe_cast_to_index\u001b[49m\u001b[43m(\u001b[49m\u001b[43marray\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m   1483\u001b[0m     \u001b[38;5;28;01mif\u001b[39;00m dtype \u001b[38;5;129;01mis\u001b[39;00m \u001b[38;5;28;01mNone\u001b[39;00m:\n\u001b[1;32m   1484\u001b[0m         \u001b[38;5;28mself\u001b[39m\u001b[38;5;241m.\u001b[39m_dtype \u001b[38;5;241m=\u001b[39m get_valid_numpy_dtype(array)\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/xarray/core/indexes.py:469\u001b[0m, in \u001b[0;36msafe_cast_to_index\u001b[0;34m(array)\u001b[0m\n\u001b[1;32m    459\u001b[0m             emit_user_level_warning(\n\u001b[1;32m    460\u001b[0m                 (\n\u001b[1;32m    461\u001b[0m                     \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124m`pandas.Index` does not support the `float16` dtype.\u001b[39m\u001b[38;5;124m\"\u001b[39m\n\u001b[0;32m   (...)\u001b[0m\n\u001b[1;32m    465\u001b[0m                 category\u001b[38;5;241m=\u001b[39m\u001b[38;5;167;01mDeprecationWarning\u001b[39;00m,\n\u001b[1;32m    466\u001b[0m             )\n\u001b[1;32m    467\u001b[0m             kwargs[\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mdtype\u001b[39m\u001b[38;5;124m\"\u001b[39m] \u001b[38;5;241m=\u001b[39m \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mfloat64\u001b[39m\u001b[38;5;124m\"\u001b[39m\n\u001b[0;32m--> 469\u001b[0m     index \u001b[38;5;241m=\u001b[39m pd\u001b[38;5;241m.\u001b[39mIndex(\u001b[43mnp\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43masarray\u001b[49m\u001b[43m(\u001b[49m\u001b[43marray\u001b[49m\u001b[43m)\u001b[49m, \u001b[38;5;241m*\u001b[39m\u001b[38;5;241m*\u001b[39mkwargs)\n\u001b[1;32m    471\u001b[0m \u001b[38;5;28;01mreturn\u001b[39;00m _maybe_cast_to_cftimeindex(index)\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/dask/array/core.py:1700\u001b[0m, in \u001b[0;36mArray.__array__\u001b[0;34m(self, dtype, **kwargs)\u001b[0m\n\u001b[1;32m   1699\u001b[0m \u001b[38;5;28;01mdef\u001b[39;00m \u001b[38;5;21m__array__\u001b[39m(\u001b[38;5;28mself\u001b[39m, dtype\u001b[38;5;241m=\u001b[39m\u001b[38;5;28;01mNone\u001b[39;00m, \u001b[38;5;241m*\u001b[39m\u001b[38;5;241m*\u001b[39mkwargs):\n\u001b[0;32m-> 1700\u001b[0m     x \u001b[38;5;241m=\u001b[39m \u001b[38;5;28;43mself\u001b[39;49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mcompute\u001b[49m\u001b[43m(\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m   1701\u001b[0m     \u001b[38;5;28;01mif\u001b[39;00m dtype \u001b[38;5;129;01mand\u001b[39;00m x\u001b[38;5;241m.\u001b[39mdtype \u001b[38;5;241m!=\u001b[39m dtype:\n\u001b[1;32m   1702\u001b[0m         x \u001b[38;5;241m=\u001b[39m x\u001b[38;5;241m.\u001b[39mastype(dtype)\n",
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      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/dask/base.py:628\u001b[0m, in \u001b[0;36mcompute\u001b[0;34m(traverse, optimize_graph, scheduler, get, *args, **kwargs)\u001b[0m\n\u001b[1;32m    625\u001b[0m     postcomputes\u001b[38;5;241m.\u001b[39mappend(x\u001b[38;5;241m.\u001b[39m__dask_postcompute__())\n\u001b[1;32m    627\u001b[0m \u001b[38;5;28;01mwith\u001b[39;00m shorten_traceback():\n\u001b[0;32m--> 628\u001b[0m     results \u001b[38;5;241m=\u001b[39m \u001b[43mschedule\u001b[49m\u001b[43m(\u001b[49m\u001b[43mdsk\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mkeys\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[38;5;241;43m*\u001b[39;49m\u001b[38;5;241;43m*\u001b[39;49m\u001b[43mkwargs\u001b[49m\u001b[43m)\u001b[49m\n\u001b[1;32m    630\u001b[0m \u001b[38;5;28;01mreturn\u001b[39;00m repack([f(r, \u001b[38;5;241m*\u001b[39ma) \u001b[38;5;28;01mfor\u001b[39;00m r, (f, a) \u001b[38;5;129;01min\u001b[39;00m \u001b[38;5;28mzip\u001b[39m(results, postcomputes)])\n",
      "File \u001b[0;32m~/.local/lib/python3.9/site-packages/distributed/client.py:2243\u001b[0m, in \u001b[0;36mClient._gather\u001b[0;34m(self, futures, errors, direct, local_worker)\u001b[0m\n\u001b[1;32m   2241\u001b[0m         exc \u001b[38;5;241m=\u001b[39m CancelledError(key)\n\u001b[1;32m   2242\u001b[0m     \u001b[38;5;28;01melse\u001b[39;00m:\n\u001b[0;32m-> 2243\u001b[0m         \u001b[38;5;28;01mraise\u001b[39;00m exception\u001b[38;5;241m.\u001b[39mwith_traceback(traceback)\n\u001b[1;32m   2244\u001b[0m     \u001b[38;5;28;01mraise\u001b[39;00m exc\n\u001b[1;32m   2245\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m errors \u001b[38;5;241m==\u001b[39m \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mskip\u001b[39m\u001b[38;5;124m\"\u001b[39m:\n",
      "\u001b[0;31mKilledWorker\u001b[0m: Attempted to run task ('arange-genotype_as_bytes-index_as_genotype-astype-0d9ea21cc0c15c028899cea1fa9b05c4', 0) on 4 different workers, but all those workers died while running it. The last worker that attempt to run the task was tcp://127.0.0.1:39295. Inspecting worker logs is often a good next step to diagnose what went wrong. For more information see https://distributed.dask.org/en/stable/killed.html."
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "2024-01-11 17:15:37,570 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:37,571 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:37,588 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:37,626 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:37,628 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:37,658 - distributed.nanny - WARNING - Restarting worker\n",
      "2024-01-11 17:15:37,686 - distributed.nanny - WARNING - Restarting worker\n"
     ]
    }
   ],
   "source": [
    "ds = sg.hardy_weinberg_test(ds)\n",
    "ds"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds = ds.sel(variants=((ds.variant_allele_frequency[:,1] > 0.01) & (ds.variant_hwe_p_value > 1e-6)).compute())"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 33,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Samples: 1008000  Variants: 153988\n"
     ]
    }
   ],
   "source": [
    "print(f\"Samples: {len(ds.samples)}  Variants: {len(ds.variants)}\")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 19,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/ec2-user/.local/lib/python3.9/site-packages/dask/array/routines.py:443: PerformanceWarning: Increasing number of chunks by factor of 19\n",
      "  out = blockwise(\n"
     ]
    },
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       "  color: var(--xr-disabled-color);\n",
       "}\n",
       "\n",
       ".xr-section-item input:enabled + label {\n",
       "  cursor: pointer;\n",
       "  color: var(--xr-font-color2);\n",
       "}\n",
       "\n",
       ".xr-section-item input:enabled + label:hover {\n",
       "  color: var(--xr-font-color0);\n",
       "}\n",
       "\n",
       ".xr-section-summary {\n",
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       "  color: var(--xr-font-color2);\n",
       "  font-weight: 500;\n",
       "}\n",
       "\n",
       ".xr-section-summary > span {\n",
       "  display: inline-block;\n",
       "  padding-left: 0.5em;\n",
       "}\n",
       "\n",
       ".xr-section-summary-in:disabled + label {\n",
       "  color: var(--xr-font-color2);\n",
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       "\n",
       ".xr-section-summary-in + label:before {\n",
       "  display: inline-block;\n",
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       ".xr-section-summary-in:checked + label:before {\n",
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       "}\n",
       "\n",
       ".xr-section-summary-in:checked + label > span {\n",
       "  display: none;\n",
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       "\n",
       ".xr-section-summary,\n",
       ".xr-section-inline-details {\n",
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       "\n",
       ".xr-section-inline-details {\n",
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       "\n",
       ".xr-section-details {\n",
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       "  margin-bottom: 5px;\n",
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       "\n",
       ".xr-section-summary-in:checked ~ .xr-section-details {\n",
       "  display: contents;\n",
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       "\n",
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       "\n",
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       "\n",
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       "  display: none;\n",
       "}\n",
       "\n",
       ".xr-array-in:checked ~ .xr-array-data,\n",
       ".xr-array-preview {\n",
       "  display: inline-block;\n",
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       "\n",
       ".xr-dim-list {\n",
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       "\n",
       ".xr-dim-list li {\n",
       "  display: inline-block;\n",
       "  padding: 0;\n",
       "  margin: 0;\n",
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       "\n",
       ".xr-dim-list:before {\n",
       "  content: '(';\n",
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       "\n",
       ".xr-dim-list:after {\n",
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       "\n",
       ".xr-dim-list li:not(:last-child):after {\n",
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       "\n",
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       "\n",
       ".xr-var-list,\n",
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       "\n",
       ".xr-var-item > div,\n",
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       ".xr-var-item > .xr-var-name span {\n",
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       "\n",
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       "\n",
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       "\n",
       ".xr-index-preview {\n",
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       "\n",
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       ".xr-var-dtype,\n",
       ".xr-preview,\n",
       ".xr-attrs dt {\n",
       "  white-space: nowrap;\n",
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       "\n",
       ".xr-var-name:hover,\n",
       ".xr-var-dims:hover,\n",
       ".xr-var-dtype:hover,\n",
       ".xr-attrs dt:hover {\n",
       "  overflow: visible;\n",
       "  width: auto;\n",
       "  z-index: 1;\n",
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       "\n",
       ".xr-var-attrs,\n",
       ".xr-var-data,\n",
       ".xr-index-data {\n",
       "  display: none;\n",
       "  background-color: var(--xr-background-color) !important;\n",
       "  padding-bottom: 5px !important;\n",
       "}\n",
       "\n",
       ".xr-var-attrs-in:checked ~ .xr-var-attrs,\n",
       ".xr-var-data-in:checked ~ .xr-var-data,\n",
       ".xr-index-data-in:checked ~ .xr-index-data {\n",
       "  display: block;\n",
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       "\n",
       ".xr-var-data > table {\n",
       "  float: right;\n",
       "}\n",
       "\n",
       ".xr-var-name span,\n",
       ".xr-var-data,\n",
       ".xr-index-name div,\n",
       ".xr-index-data,\n",
       ".xr-attrs {\n",
       "  padding-left: 25px !important;\n",
       "}\n",
       "\n",
       ".xr-attrs,\n",
       ".xr-var-attrs,\n",
       ".xr-var-data,\n",
       ".xr-index-data {\n",
       "  grid-column: 1 / -1;\n",
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       "\n",
       "dl.xr-attrs {\n",
       "  padding: 0;\n",
       "  margin: 0;\n",
       "  display: grid;\n",
       "  grid-template-columns: 125px auto;\n",
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       "\n",
       ".xr-attrs dt,\n",
       ".xr-attrs dd {\n",
       "  padding: 0;\n",
       "  margin: 0;\n",
       "  float: left;\n",
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       "  width: auto;\n",
       "}\n",
       "\n",
       ".xr-attrs dt {\n",
       "  font-weight: normal;\n",
       "  grid-column: 1;\n",
       "}\n",
       "\n",
       ".xr-attrs dt:hover span {\n",
       "  display: inline-block;\n",
       "  background: var(--xr-background-color);\n",
       "  padding-right: 10px;\n",
       "}\n",
       "\n",
       ".xr-attrs dd {\n",
       "  grid-column: 2;\n",
       "  white-space: pre-wrap;\n",
       "  word-break: break-all;\n",
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       "\n",
       ".xr-icon-database,\n",
       ".xr-icon-file-text2,\n",
       ".xr-no-icon {\n",
       "  display: inline-block;\n",
       "  vertical-align: middle;\n",
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       "</style><pre class='xr-text-repr-fallback'>&lt;xarray.Dataset&gt;\n",
       "Dimensions:                   (variants: 153988, traits: 1, alleles: 2,\n",
       "                               samples: 1008000, ploidy: 2, contigs: 1)\n",
       "Dimensions without coordinates: variants, traits, alleles, samples, ploidy,\n",
       "                                contigs\n",
       "Data variables: (12/36)\n",
       "    variant_linreg_beta       (variants, traits) float64 dask.array&lt;chunksize=(8192, 1), meta=np.ndarray&gt;\n",
       "    variant_linreg_t_value    (variants, traits) float64 dask.array&lt;chunksize=(8192, 1), meta=np.ndarray&gt;\n",
       "    variant_linreg_p_value    (variants, traits) float64 dask.array&lt;chunksize=(8192, 1), meta=np.ndarray&gt;\n",
       "    variant_n_called          (variants) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    variant_call_rate         (variants) float64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    variant_n_het             (variants) int64 dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;\n",
       "    ...                        ...\n",
       "    variant_id                (variants) &lt;U18 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_position          (variants) int32 dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;\n",
       "    variant_contig_name       (variants) &lt;U2 dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;\n",
       "    sample_ancestry           (samples) object dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    sample_pheno              (samples) int64 dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;\n",
       "    call_dosage               (variants, samples) int64 dask.array&lt;chunksize=(8192, 8192), meta=np.ndarray&gt;\n",
       "Attributes: (2)</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-4d9fdee2-ca15-4a8e-9986-8346dc6762f3' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-4d9fdee2-ca15-4a8e-9986-8346dc6762f3' class='xr-section-summary'  title='Expand/collapse section'>Dimensions:</label><div class='xr-section-inline-details'><ul class='xr-dim-list'><li><span>variants</span>: 153988</li><li><span>traits</span>: 1</li><li><span>alleles</span>: 2</li><li><span>samples</span>: 1008000</li><li><span>ploidy</span>: 2</li><li><span>contigs</span>: 1</li></ul></div><div class='xr-section-details'></div></li><li class='xr-section-item'><input id='section-836c35fa-0997-4afa-a1a6-86c074c0cdcd' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-836c35fa-0997-4afa-a1a6-86c074c0cdcd' class='xr-section-summary'  title='Expand/collapse section'>Coordinates: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-6ce0dc6e-a3fd-4229-aa1c-bff969856bc3' class='xr-section-summary-in' type='checkbox'  checked><label for='section-6ce0dc6e-a3fd-4229-aa1c-bff969856bc3' class='xr-section-summary' >Data variables: <span>(36)</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>variant_linreg_beta</span></div><div class='xr-var-dims'>(variants, traits)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 1), meta=np.ndarray&gt;</div><input id='attrs-98f2706b-cdef-467b-8694-1db316c988ff' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-98f2706b-cdef-467b-8694-1db316c988ff' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-c8942e46-5ac0-4efb-9595-872f99975845' class='xr-var-data-in' type='checkbox'><label for='data-c8942e46-5ac0-4efb-9595-872f99975845' 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>comment :</span></dt><dd>Beta values associated with each variant and trait.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1) </td>\n",
       "                        <td> (8192, 1) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 55 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=\"75\" height=\"170\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "\n",
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       "  <text x=\"45.412617\" y=\"60.000000\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(-90,45.412617,60.000000)\">153988</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_linreg_t_value</span></div><div class='xr-var-dims'>(variants, traits)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 1), meta=np.ndarray&gt;</div><input id='attrs-9e13db3e-9706-4a86-a5bf-44971e6dc3ba' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-9e13db3e-9706-4a86-a5bf-44971e6dc3ba' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-c66c0882-5aee-493e-ac81-ab5c43cd9698' class='xr-var-data-in' type='checkbox'><label for='data-c66c0882-5aee-493e-ac81-ab5c43cd9698' 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>comment :</span></dt><dd>T statistics for each beta.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1) </td>\n",
       "                        <td> (8192, 1) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 70 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",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_linreg_p_value</span></div><div class='xr-var-dims'>(variants, traits)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 1), meta=np.ndarray&gt;</div><input id='attrs-b19faeec-745c-4599-b6d8-7cff7b0924e0' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-b19faeec-745c-4599-b6d8-7cff7b0924e0' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ff14de0b-8741-4bcc-b4e4-2c8c4a3dc096' class='xr-var-data-in' type='checkbox'><label for='data-ff14de0b-8741-4bcc-b4e4-2c8c4a3dc096' 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>comment :</span></dt><dd>P values as float in [0, 1].</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1) </td>\n",
       "                        <td> (8192, 1) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 72 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> float64 numpy.ndarray </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_called</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-4bc2eaa2-0fde-4a55-8c0a-0a2afd92f7a0' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-4bc2eaa2-0fde-4a55-8c0a-0a2afd92f7a0' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-958c9a2e-55a4-40e2-a89d-b10ded32574f' class='xr-var-data-in' type='checkbox'><label for='data-958c9a2e-55a4-40e2-a89d-b10ded32574f' 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",
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       "                <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> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_call_rate</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-db200e60-f11f-4f08-a3cc-0431caedadb6' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-db200e60-f11f-4f08-a3cc-0431caedadb6' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-85f2b93b-e341-49b6-8ac0-a4e67f4f0cb4' class='xr-var-data-in' type='checkbox'><label for='data-85f2b93b-e341-49b6-8ac0-a4e67f4f0cb4' 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> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 6 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> float64 numpy.ndarray </td>\n",
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       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_het</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-9942c6ee-5cc0-48b5-a61b-37f2712d3cf0' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-9942c6ee-5cc0-48b5-a61b-37f2712d3cf0' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-765f2c2b-c4ca-4958-afe5-8b48c84915f2' class='xr-var-data-in' type='checkbox'><label for='data-765f2c2b-c4ca-4958-afe5-8b48c84915f2' 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",
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       "                        <th> Array </th>\n",
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       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
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       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
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       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 4 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_hom_ref</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-4b562f94-04c7-4536-8e9c-b325ce9d48fc' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-4b562f94-04c7-4536-8e9c-b325ce9d48fc' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-f96a5590-ca0d-425b-8d86-c3a177d200d3' class='xr-var-data-in' type='checkbox'><label for='data-f96a5590-ca0d-425b-8d86-c3a177d200d3' 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",
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       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
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       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
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       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (8192,) </td>\n",
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       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 4 graph layers </td>\n",
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       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_hom_alt</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-96e6fb00-1310-4a14-abde-d1029e22b520' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-96e6fb00-1310-4a14-abde-d1029e22b520' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-0c3adca1-937f-4363-9aba-72063239bbd9' class='xr-var-data-in' type='checkbox'><label for='data-0c3adca1-937f-4363-9aba-72063239bbd9' 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",
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       "                <tbody>\n",
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       "                    <tr>\n",
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       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
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       "                    <tr>\n",
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       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 4 graph layers </td>\n",
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       "                    <tr>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_n_non_ref</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-e49ddeba-22c9-4507-84bb-300292c5fa87' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-e49ddeba-22c9-4507-84bb-300292c5fa87' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-8ad2a038-c436-41f5-947b-b05207ba4e03' class='xr-var-data-in' type='checkbox'><label for='data-8ad2a038-c436-41f5-947b-b05207ba4e03' 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",
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       "                <tbody>\n",
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       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
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       "                        <td colspan=\"2\"> 19 chunks in 7 graph layers </td>\n",
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       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele_count</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>uint64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 2), meta=np.ndarray&gt;</div><input id='attrs-fef31261-f5e2-495f-b5ca-8ff2cd53b1b6' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-fef31261-f5e2-495f-b5ca-8ff2cd53b1b6' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-71b39fd8-742e-4f2d-904e-1bbda733c658' class='xr-var-data-in' type='checkbox'><label for='data-71b39fd8-742e-4f2d-904e-1bbda733c658' 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>comment :</span></dt><dd>Variant allele counts. With shape (variants, alleles) and values\n",
       "corresponding to the number of non-missing occurrences of each allele.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
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       "                <tbody>\n",
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       "                    <tr>\n",
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       "                        <td> 2.35 MiB </td>\n",
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       "                        <th> Shape </th>\n",
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       "                        <th> Dask graph </th>\n",
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       "                        <td colspan=\"2\"> uint64 numpy.ndarray </td>\n",
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       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele_total</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-1963f38b-5ddc-4d28-bda0-228fce54c6bf' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-1963f38b-5ddc-4d28-bda0-228fce54c6bf' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-9113ecb6-f113-4952-a0df-64432e93c853' class='xr-var-data-in' type='checkbox'><label for='data-9113ecb6-f113-4952-a0df-64432e93c853' 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",
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       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
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       "                        <td> (8192,) </td>\n",
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       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
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       "                    </tr>\n",
       "                    <tr>\n",
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       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele_frequency</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 2), meta=np.ndarray&gt;</div><input id='attrs-b6062d69-74a2-460e-9c47-e72a803d40fb' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-b6062d69-74a2-460e-9c47-e72a803d40fb' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-a1a42db4-7e81-4bf8-a9f1-ea3e1000973e' class='xr-var-data-in' type='checkbox'><label for='data-a1a42db4-7e81-4bf8-a9f1-ea3e1000973e' 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> 2.35 MiB </td>\n",
       "                        <td> 128.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 2) </td>\n",
       "                        <td> (8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 19 chunks in 10 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",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_called</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-a464f07f-a2b2-43c1-8bf9-8b0b8cd763d0' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-a464f07f-a2b2-43c1-8bf9-8b0b8cd763d0' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-bddbe2b8-534c-4bf7-828d-64912f1c2cbf' class='xr-var-data-in' type='checkbox'><label for='data-bddbe2b8-534c-4bf7-828d-64912f1c2cbf' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 6 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_call_rate</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>float64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-9574c9b1-a38a-4942-a270-541852341727' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-9574c9b1-a38a-4942-a270-541852341727' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-b3bfed33-14d7-4f54-983b-4f88a2d26fde' class='xr-var-data-in' type='checkbox'><label for='data-b3bfed33-14d7-4f54-983b-4f88a2d26fde' 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>Sample call rate</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 7 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=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_het</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-abfe3142-f6b5-4bd8-a4b2-35e5f62c4322' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-abfe3142-f6b5-4bd8-a4b2-35e5f62c4322' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-49e91434-5ca7-4cb1-ab45-836f0de492b1' class='xr-var-data-in' type='checkbox'><label for='data-49e91434-5ca7-4cb1-ab45-836f0de492b1' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
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       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_hom_ref</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-da40e44a-7c4e-405b-9531-ebd5c75401f3' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-da40e44a-7c4e-405b-9531-ebd5c75401f3' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-54c23b5a-d1a2-4fbb-b3c6-00897b532a2d' class='xr-var-data-in' type='checkbox'><label for='data-54c23b5a-d1a2-4fbb-b3c6-00897b532a2d' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_hom_alt</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-f841dd94-3c20-45e6-b4ac-6da1d7c6a1ff' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-f841dd94-3c20-45e6-b4ac-6da1d7c6a1ff' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-4ab46372-5e4e-4108-b9ea-12979535b243' class='xr-var-data-in' type='checkbox'><label for='data-4ab46372-5e4e-4108-b9ea-12979535b243' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 5 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_n_non_ref</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192,), meta=np.ndarray&gt;</div><input id='attrs-07d15820-3c43-48e2-a845-b200575f23b0' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-07d15820-3c43-48e2-a845-b200575f23b0' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-5448b1dc-9288-4403-9085-0e8670695bbe' class='xr-var-data-in' type='checkbox'><label for='data-5448b1dc-9288-4403-9085-0e8670695bbe' 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> 7.69 MiB </td>\n",
       "                        <td> 64.00 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (8192,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 124 chunks in 8 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int64 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>call_genotype</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-d20ae07d-e423-497a-9735-5d98119451e6' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-d20ae07d-e423-497a-9735-5d98119451e6' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-1bbdda3e-bcb8-4621-85de-a5b24dcd424f' class='xr-var-data-in' type='checkbox'><label for='data-1bbdda3e-bcb8-4621-85de-a5b24dcd424f' 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>comment :</span></dt><dd>Call genotype. Encoded as allele values (0 for the reference, 1 for\n",
       "the first allele, 2 for the second allele), -1 to indicate a\n",
       "missing value, or -2 to indicate a non allele in mixed ploidy datasets.</dd><dt><span>mixed_ploidy :</span></dt><dd>False</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"109\" height=\"193\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>call_genotype_mask</span></div><div class='xr-var-dims'>(variants, samples, ploidy)</div><div class='xr-var-dtype'>bool</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(8192, 8192, 2), meta=np.ndarray&gt;</div><input id='attrs-57d7d769-596b-40bd-a41c-67d0d4603c7d' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-57d7d769-596b-40bd-a41c-67d0d4603c7d' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-2de4fa22-93db-4aa4-aad0-b3a692fc3cfd' class='xr-var-data-in' type='checkbox'><label for='data-2de4fa22-93db-4aa4-aad0-b3a692fc3cfd' 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>comment :</span></dt><dd>A flag for each call indicating which values are missing.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 289.12 GiB </td>\n",
       "                        <td> 128.00 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 1008000, 2) </td>\n",
       "                        <td> (8192, 8192, 2) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> bool numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>contig_id</span></div><div class='xr-var-dims'>(contigs)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1,), meta=np.ndarray&gt;</div><input id='attrs-8ae4833b-229a-4d06-943e-bd2161fd2b61' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-8ae4833b-229a-4d06-943e-bd2161fd2b61' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-1b1fae85-910e-4ba3-9d88-bf7f88252b11' class='xr-var-data-in' type='checkbox'><label for='data-1b1fae85-910e-4ba3-9d88-bf7f88252b11' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 8 B </td>\n",
       "                        <td> 8 B </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1,) </td>\n",
       "                        <td> (1,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_family_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-a5042a00-d307-49ab-9a70-35984418a2ae' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-a5042a00-d307-49ab-9a70-35984418a2ae' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-77452db4-64ce-45e7-a5c7-80595b3a4180' class='xr-var-data-in' type='checkbox'><label for='data-77452db4-64ce-45e7-a5c7-80595b3a4180' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-50c5ea88-c384-4f04-9496-21a14c5f51f8' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-50c5ea88-c384-4f04-9496-21a14c5f51f8' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-b135b505-4103-4ed7-a245-dca88212503e' class='xr-var-data-in' type='checkbox'><label for='data-b135b505-4103-4ed7-a245-dca88212503e' 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>comment :</span></dt><dd>The unique identifier of the sample.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
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       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_maternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-c12bd273-daa6-4120-9c94-5463ff3f28fc' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-c12bd273-daa6-4120-9c94-5463ff3f28fc' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-3c8ee454-d428-448e-8016-a71a1a240318' class='xr-var-data-in' type='checkbox'><label for='data-3c8ee454-d428-448e-8016-a71a1a240318' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
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       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_member_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U10</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-5a87cae9-dd45-40c3-882b-7ebe5b77d02f' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-5a87cae9-dd45-40c3-882b-7ebe5b77d02f' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-0c32ef9e-8dad-4163-8833-4c4e08a889ee' class='xr-var-data-in' type='checkbox'><label for='data-0c32ef9e-8dad-4163-8833-4c4e08a889ee' 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> 38.45 MiB </td>\n",
       "                        <td> 38.45 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U10 numpy.ndarray </td>\n",
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       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_paternal_id</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>&lt;U1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-9c65b070-3305-41a2-b881-fd800440bfd9' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-9c65b070-3305-41a2-b881-fd800440bfd9' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-d9166eea-1543-4634-b74e-52e33840fdce' class='xr-var-data-in' type='checkbox'><label for='data-d9166eea-1543-4634-b74e-52e33840fdce' 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> 3.85 MiB </td>\n",
       "                        <td> 3.85 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U1 numpy.ndarray </td>\n",
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       "        </td>\n",
       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_phenotype</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-3403ecdc-d1ac-4a11-9979-736aa3bdcb71' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-3403ecdc-d1ac-4a11-9979-736aa3bdcb71' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-f7568844-3ff1-4727-a327-0d3085bdc3b8' class='xr-var-data-in' type='checkbox'><label for='data-f7568844-3ff1-4727-a327-0d3085bdc3b8' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
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       "        <td>\n",
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       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_sex</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int8</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-6dfdba56-dddb-4d37-8f1f-fdef6149afce' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-6dfdba56-dddb-4d37-8f1f-fdef6149afce' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-50ebcd77-f103-421c-8c3d-6ff3ada3d916' class='xr-var-data-in' type='checkbox'><label for='data-50ebcd77-f103-421c-8c3d-6ff3ada3d916' 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> 0.96 MiB </td>\n",
       "                        <td> 0.96 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int8 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
       "  <!-- Colored Rectangle -->\n",
       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_allele</span></div><div class='xr-var-dims'>(variants, alleles)</div><div class='xr-var-dtype'>|S1</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988, 1), meta=np.ndarray&gt;</div><input id='attrs-712c8532-fa72-4027-b4f4-908cc45f51dc' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-712c8532-fa72-4027-b4f4-908cc45f51dc' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-5bce8bb7-b31d-4be3-b935-9170dc30aed0' class='xr-var-data-in' type='checkbox'><label for='data-5bce8bb7-b31d-4be3-b935-9170dc30aed0' 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>comment :</span></dt><dd>The possible alleles for the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988, 2) </td>\n",
       "                        <td> (153988, 1) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> |S1 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",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"25\" y2=\"0\" style=\"stroke-width:2\" />\n",
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       "\n",
       "  <!-- Vertical lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"0\" y2=\"120\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"12\" y1=\"0\" x2=\"12\" y2=\"120\" />\n",
       "  <line x1=\"25\" y1=\"0\" x2=\"25\" y2=\"120\" style=\"stroke-width:2\" />\n",
       "\n",
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       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int16</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-8ac188f8-41c5-46eb-9aa3-e512b8fe2535' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-8ac188f8-41c5-46eb-9aa3-e512b8fe2535' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-4bcd1a37-c2f6-4046-a7a5-88ab46166d31' class='xr-var-data-in' type='checkbox'><label for='data-4bcd1a37-c2f6-4046-a7a5-88ab46166d31' 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>comment :</span></dt><dd>Index corresponding to contig name for each variant. In some less common\n",
       "scenarios, this may also be equivalent to the contig names if the data\n",
       "generating process used contig names that were also integers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 300.76 kiB </td>\n",
       "                        <td> 150.38 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int16 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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",
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       "  <line x1=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "  <polygon points=\"0.0,0.0 120.0,0.0 120.0,25.412616514582485 0.0,25.412616514582485\" style=\"fill:#ECB172A0;stroke-width:0\"/>\n",
       "\n",
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       "  <text x=\"140.000000\" y=\"12.706308\" font-size=\"1.0rem\" font-weight=\"100\" text-anchor=\"middle\" transform=\"rotate(0,140.000000,12.706308)\">1</text>\n",
       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_id</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U18</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-2b91e72b-0915-4bb2-9a43-b006ab563247' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-2b91e72b-0915-4bb2-9a43-b006ab563247' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-2e324c62-c386-4741-a079-f81e34bd8a02' class='xr-var-data-in' type='checkbox'><label for='data-2e324c62-c386-4741-a079-f81e34bd8a02' 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>comment :</span></dt><dd>The unique identifier of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                        <td> 10.57 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U18 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_position</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>int32</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(153988,), meta=np.ndarray&gt;</div><input id='attrs-b38cb1c3-7f89-4d95-b981-dfa9386cbafe' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-b38cb1c3-7f89-4d95-b981-dfa9386cbafe' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-086e64ad-d95a-49a7-bb89-aac0b711ef0a' class='xr-var-data-in' type='checkbox'><label for='data-086e64ad-d95a-49a7-bb89-aac0b711ef0a' 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>comment :</span></dt><dd>The reference position of the variant.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (153988,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 2 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> int32 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
       "  <line x1=\"0\" y1=\"0\" x2=\"120\" y2=\"0\" style=\"stroke-width:2\" />\n",
       "  <line x1=\"0\" y1=\"25\" x2=\"120\" 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=\"120\" y1=\"0\" x2=\"120\" y2=\"25\" style=\"stroke-width:2\" />\n",
       "\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>variant_contig_name</span></div><div class='xr-var-dims'>(variants)</div><div class='xr-var-dtype'>&lt;U2</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(76994,), meta=np.ndarray&gt;</div><input id='attrs-acea7937-c3ba-4cee-91e3-f9aa73bb32b9' class='xr-var-attrs-in' type='checkbox' ><label for='attrs-acea7937-c3ba-4cee-91e3-f9aa73bb32b9' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-2b5d745f-2c15-410a-9c24-b1b5b65a31f7' class='xr-var-data-in' type='checkbox'><label for='data-2b5d745f-2c15-410a-9c24-b1b5b65a31f7' 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>comment :</span></dt><dd>Contig identifiers.</dd></dl></div><div class='xr-var-data'><table>\n",
       "    <tr>\n",
       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
       "                <thead>\n",
       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
       "                    </tr>\n",
       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 1.17 MiB </td>\n",
       "                        <td> 601.52 kiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (153988,) </td>\n",
       "                        <td> (76994,) </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2 chunks in 8 graph layers </td>\n",
       "                    </tr>\n",
       "                    <tr>\n",
       "                        <th> Data type </th>\n",
       "                        <td colspan=\"2\"> <U2 numpy.ndarray </td>\n",
       "                    </tr>\n",
       "                </tbody>\n",
       "            </table>\n",
       "        </td>\n",
       "        <td>\n",
       "        <svg width=\"170\" height=\"75\" style=\"stroke:rgb(0,0,0);stroke-width:1\" >\n",
       "\n",
       "  <!-- Horizontal lines -->\n",
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       "</svg>\n",
       "        </td>\n",
       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_ancestry</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>object</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-ae70fdbf-e5f4-4c2e-ab62-4e7a35af1427' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-ae70fdbf-e5f4-4c2e-ab62-4e7a35af1427' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-79b1d44b-c013-466a-95ba-9c81432dba61' class='xr-var-data-in' type='checkbox'><label for='data-79b1d44b-c013-466a-95ba-9c81432dba61' 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",
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       "        <td>\n",
       "            <table style=\"border-collapse: collapse;\">\n",
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       "                    <tr>\n",
       "                        <td> </td>\n",
       "                        <th> Array </th>\n",
       "                        <th> Chunk </th>\n",
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       "                </thead>\n",
       "                <tbody>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Bytes </th>\n",
       "                        <td> 7.69 MiB </td>\n",
       "                        <td> 7.69 MiB </td>\n",
       "                    </tr>\n",
       "                    \n",
       "                    <tr>\n",
       "                        <th> Shape </th>\n",
       "                        <td> (1008000,) </td>\n",
       "                        <td> (1008000,) </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\"> object numpy.ndarray </td>\n",
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       "    </tr>\n",
       "</table></div></li><li class='xr-var-item'><div class='xr-var-name'><span>sample_pheno</span></div><div class='xr-var-dims'>(samples)</div><div class='xr-var-dtype'>int64</div><div class='xr-var-preview xr-preview'>dask.array&lt;chunksize=(1008000,), meta=np.ndarray&gt;</div><input id='attrs-5f63316d-5f65-4657-8e6c-19379bb81db0' class='xr-var-attrs-in' type='checkbox' disabled><label for='attrs-5f63316d-5f65-4657-8e6c-19379bb81db0' title='Show/Hide attributes'><svg class='icon xr-icon-file-text2'><use xlink:href='#icon-file-text2'></use></svg></label><input id='data-ecaef777-f5ec-48da-abac-da6bdca8a116' class='xr-var-data-in' type='checkbox'><label for='data-ecaef777-f5ec-48da-abac-da6bdca8a116' 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",
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       "                <tbody>\n",
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       "                        <td> 7.69 MiB </td>\n",
       "                        <td> 7.69 MiB </td>\n",
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       "                        <td> (1008000,) </td>\n",
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       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 1 chunks in 1 graph layer </td>\n",
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       "                    <tr>\n",
       "                        <th> Data type </th>\n",
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       "                <tbody>\n",
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       "                        <th> Bytes </th>\n",
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       "                        <th> Shape </th>\n",
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       "                        <td> (8192, 8192) </td>\n",
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       "                    <tr>\n",
       "                        <th> Dask graph </th>\n",
       "                        <td colspan=\"2\"> 2356 chunks in 4 graph layers </td>\n",
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       "</table></div></li></ul></div></li><li class='xr-section-item'><input id='section-272e7aea-26ec-4108-b1ed-bf9ccac6481a' class='xr-section-summary-in' type='checkbox' disabled ><label for='section-272e7aea-26ec-4108-b1ed-bf9ccac6481a' class='xr-section-summary'  title='Expand/collapse section'>Indexes: <span>(0)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><ul class='xr-var-list'></ul></div></li><li class='xr-section-item'><input id='section-46908562-45b6-435b-9056-95e2b9fe4936' class='xr-section-summary-in' type='checkbox'  ><label for='section-46908562-45b6-435b-9056-95e2b9fe4936' class='xr-section-summary' >Attributes: <span>(2)</span></label><div class='xr-section-inline-details'></div><div class='xr-section-details'><dl class='xr-attrs'><dt><span>contigs :</span></dt><dd>[&#x27;20&#x27;]</dd><dt><span>source :</span></dt><dd>sgkit-0.7.1.dev38+g7d8f5f3</dd></dl></div></li></ul></div></div>"
      ],
      "text/plain": [
       "<xarray.Dataset>\n",
       "Dimensions:                   (variants: 153988, traits: 1, alleles: 2,\n",
       "                               samples: 1008000, ploidy: 2, contigs: 1)\n",
       "Dimensions without coordinates: variants, traits, alleles, samples, ploidy,\n",
       "                                contigs\n",
       "Data variables: (12/36)\n",
       "    variant_linreg_beta       (variants, traits) float64 dask.array<chunksize=(8192, 1), meta=np.ndarray>\n",
       "    variant_linreg_t_value    (variants, traits) float64 dask.array<chunksize=(8192, 1), meta=np.ndarray>\n",
       "    variant_linreg_p_value    (variants, traits) float64 dask.array<chunksize=(8192, 1), meta=np.ndarray>\n",
       "    variant_n_called          (variants) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    variant_call_rate         (variants) float64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    variant_n_het             (variants) int64 dask.array<chunksize=(8192,), meta=np.ndarray>\n",
       "    ...                        ...\n",
       "    variant_id                (variants) <U18 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_position          (variants) int32 dask.array<chunksize=(153988,), meta=np.ndarray>\n",
       "    variant_contig_name       (variants) <U2 dask.array<chunksize=(76994,), meta=np.ndarray>\n",
       "    sample_ancestry           (samples) object dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    sample_pheno              (samples) int64 dask.array<chunksize=(1008000,), meta=np.ndarray>\n",
       "    call_dosage               (variants, samples) int64 dask.array<chunksize=(8192, 8192), meta=np.ndarray>\n",
       "Attributes: (2)"
      ]
     },
     "execution_count": 19,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "ds[\"call_dosage\"] = ds.call_genotype.sum(dim=\"ploidy\")\n",
    "ds_lr = sg.gwas_linear_regression(ds,\n",
    "                                  dosage=\"call_dosage\",\n",
    "                                  add_intercept=True,\n",
    "                                  covariates=[],\n",
    "                                  traits=[\"sample_pheno\"])\n",
    "ds_lr"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 36,
   "metadata": {},
   "outputs": [],
   "source": [
    "import seaborn as sns\n",
    "%matplotlib inline"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 20,
   "metadata": {},
   "outputs": [],
   "source": [
    "def manhattan_plot(ds):\n",
    "    df = ds[[\"variant_contig_name\", \"variant_contig\", \"variant_position\", \"variant_linreg_p_value\"]].to_dataframe()\n",
    "    df[\"variant_linreg_log_p_value\"] = -np.log10(df[\"variant_linreg_p_value\"])\n",
    "    df = df.astype({\"variant_position\": np.int64}) # to avoid overflow in cumulative_pos\n",
    "    \n",
    "    # from https://github.com/mojones/video_notebooks/blob/master/Manhattan%20plots%20in%20Python.ipynb, cell 20\n",
    "    running_pos = 0\n",
    "    cumulative_pos = []\n",
    "    for chrom, group_df in df.groupby(\"variant_contig\"):  \n",
    "        cumulative_pos.append(group_df[\"variant_position\"] + running_pos)\n",
    "        running_pos += group_df[\"variant_position\"].max()\n",
    "    df[\"cumulative_pos\"] = pd.concat(cumulative_pos)\n",
    "    \n",
    "    df[\"color group\"] = df[\"variant_contig\"].apply(lambda x : \"A\" if x % 2 == 0 else \"B\")\n",
    "    \n",
    "    g = sns.relplot(\n",
    "        data = df,\n",
    "        x = \"cumulative_pos\",\n",
    "        y = \"variant_linreg_log_p_value\",\n",
    "        hue = \"color group\",\n",
    "        palette = [\"blue\", \"orange\"],\n",
    "        linewidth=0,\n",
    "        s=10,\n",
    "        legend=None,\n",
    "        aspect=3\n",
    "    )\n",
    "    g.ax.set_xlabel(\"Chromosome\")\n",
    "    g.ax.set_xticks(df.groupby(\"variant_contig\")[\"cumulative_pos\"].median())\n",
    "    g.ax.set_xticklabels(df[\"variant_contig_name\"].unique())"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 21,
   "metadata": {},
   "outputs": [],
   "source": [
    "manhattan_plot(ds_lr)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "import math\n",
    "import matplotlib.pyplot as plt\n",
    "\n",
    "def qq_plot(ds):\n",
    "    p = ds[\"variant_linreg_p_value\"].squeeze().values\n",
    "    p.sort()\n",
    "    n = len(p)\n",
    "    expected_p = -np.log10(np.arange(1, n + 1) / n)\n",
    "    observed_p = -np.log10(p)\n",
    "    max_val = math.ceil(max(np.max(expected_p), np.max(observed_p)))\n",
    "\n",
    "    df = pd.DataFrame({\"Expected -log10(p)\": expected_p, \"Observed -log10(p)\": observed_p})\n",
    "\n",
    "    fig, ax = plt.subplots(figsize=(12, 12));\n",
    "    g = sns.scatterplot(data=df, x=\"Expected -log10(p)\", y=\"Observed -log10(p)\", ax=ax, linewidth=0)\n",
    "\n",
    "    x_pred = np.linspace(0, max_val, 50)\n",
    "    sns.lineplot(x=x_pred, y=x_pred, ax=ax)\n",
    "    \n",
    "    g.set(xlim=(0, max_val), ylim=(0, max_val))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "qq_plot(ds_lr)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds_pca = sg.stats.pca.count_call_alternate_alleles(ds)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "# To run PCA we need to filter out variants with any missing alt allele counts\n",
    "# Or where the counts are zero for all samples\n",
    "variant_mask = (((ds_pca.call_alternate_allele_count < 0).any(dim=\"samples\")) | \\\n",
    "    (ds_pca.call_alternate_allele_count.std(dim=\"samples\") <= 0.0)).compute()\n",
    "ds_pca = ds_pca.sel(variants=~variant_mask)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds_pca = sg.pca(ds_pca)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds_pca.sample_pca_projection.values"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds_pca"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds_pca[\"sample_pca_projection_0\"] = ds_pca.sample_pca_projection[:,0]\n",
    "ds_pca[\"sample_pca_projection_1\"] = ds_pca.sample_pca_projection[:,1]\n",
    "ds_pca[\"sample_pca_projection_2\"] = ds_pca.sample_pca_projection[:,2]\n",
    "# scatterplot fails: unable to allocate 420. GiB\n",
    "# TODO: fix scatterplot\n",
    "#ds_pca.plot.scatter(x=\"sample_pca_projection_0\", y=\"sample_pca_projection_1\", hue=\"sample_ancestry\", size=8, s=10);"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "# copy pca components back to dataset with full set of variants to run linear regression again\n",
    "ds[\"sample_pca_projection_0\"] = ds_pca.sample_pca_projection[:,0]\n",
    "ds[\"sample_pca_projection_1\"] = ds_pca.sample_pca_projection[:,1]\n",
    "ds[\"sample_pca_projection_2\"] = ds_pca.sample_pca_projection[:,2]\n",
    "ds_lr = sg.gwas_linear_regression(ds, dosage=\"call_dosage\",\n",
    "                                  add_intercept=True,\n",
    "                                  covariates=[\"sample_pca_projection_0\", \"sample_pca_projection_1\", \"sample_pca_projection_2\"],\n",
    "                                  traits=[\"sample_pheno\"])"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "qq_plot(ds_lr)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "manhattan_plot(ds_lr)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Testing linear regression"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "# PyData\n",
    "import dask.array as da\n",
    "import pandas as pd\n",
    "import xarray as xr\n",
    "xr.set_options(display_expand_attrs=False, display_expand_data_vars=True);\n",
    "\n",
    "# sgkit\n",
    "import sgkit as sg"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "# Configure Dask\n",
    "from dask.distributed import Client\n",
    "client = Client(n_workers=16, threads_per_worker=1) # is this optimal?"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "remote_zarr_path = 'gs://hapnest/genotypes/synthetic_v1_chr-20.zarr'"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds = sg.load_dataset(remote_zarr_path)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "# TODO: all phenotypes\n",
    "# TODO: recode binary phenotypes as bool?\n",
    "# TODO: use sample index to merge instead of just grabbing the array?\n",
    "pheno_file = 'gs://hapnest/genotypes/synthetic_v1.pheno1'\n",
    "pheno_df = pd.read_csv(pheno_file, sep='\\t', index_col='Sample')\n",
    "pheno_da = da.from_array(pheno_df['Phenotype(binary)'].values, chunks=(1008000,))\n",
    "ds = ds.assign(sample_pheno=('samples', pheno_da))\n",
    "ds"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "ds[\"call_dosage\"] = ds.call_genotype.sum(dim=\"ploidy\")\n",
    "ds_lr = sg.gwas_linear_regression(ds,\n",
    "                                  dosage=\"call_dosage\",\n",
    "                                  add_intercept=True,\n",
    "                                  covariates=[],\n",
    "                                  traits=[\"sample_pheno\"])"
   ]
  }
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