Updated count information to include all values that should show up as warnings when running check_taxa.

notebooks/missing_taxa_testGen.ipynb

@@ -18,7 +18,7 @@
      "name": "stderr",
      "output_type": "stream",
      "text": [
-      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_70089/3694103411.py:1: DtypeWarning: Columns (4,5,6) have mixed types. Specify dtype option on import or set low_memory=False.\n",
+      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_83240/3694103411.py:1: DtypeWarning: Columns (4,5,6) have mixed types. Specify dtype option on import or set low_memory=False.\n",
       "  df = pd.read_csv(\"../data/v1-dev-names.csv\")\n"
      ]
     }
@@ -56,25 +56,25 @@
      "output_type": "stream",
      "text": [
       "<class 'pandas.core.frame.DataFrame'>\n",
-      "Index: 1000 entries, 7986767 to 8659983\n",
+      "Index: 1000 entries, 1098219 to 6735833\n",
       "Data columns (total 17 columns):\n",
       " #   Column            Non-Null Count  Dtype  \n",
       "---  ------            --------------  -----  \n",
       " 0   treeoflife_id     1000 non-null   object \n",
-      " 1   eol_content_id    655 non-null    float64\n",
-      " 2   eol_page_id       655 non-null    float64\n",
-      " 3   bioscan_part      93 non-null     float64\n",
-      " 4   bioscan_filename  93 non-null     object \n",
-      " 5   inat21_filename   252 non-null    object \n",
-      " 6   inat21_cls_name   252 non-null    object \n",
-      " 7   inat21_cls_num    252 non-null    float64\n",
-      " 8   kingdom           728 non-null    object \n",
-      " 9   phylum            728 non-null    object \n",
-      " 10  class             628 non-null    object \n",
-      " 11  order             726 non-null    object \n",
-      " 12  family            721 non-null    object \n",
-      " 13  genus             779 non-null    object \n",
-      " 14  species           685 non-null    object \n",
+      " 1   eol_content_id    860 non-null    float64\n",
+      " 2   eol_page_id       860 non-null    float64\n",
+      " 3   bioscan_part      140 non-null    float64\n",
+      " 4   bioscan_filename  140 non-null    object \n",
+      " 5   inat21_filename   0 non-null      object \n",
+      " 6   inat21_cls_name   0 non-null      object \n",
+      " 7   inat21_cls_num    0 non-null      float64\n",
+      " 8   kingdom           633 non-null    object \n",
+      " 9   phylum            633 non-null    object \n",
+      " 10  class             499 non-null    object \n",
+      " 11  order             626 non-null    object \n",
+      " 12  family            632 non-null    object \n",
+      " 13  genus             668 non-null    object \n",
+      " 14  species           544 non-null    object \n",
       " 15  common            1000 non-null   object \n",
       " 16  data_source       1000 non-null   object \n",
       "dtypes: float64(4), object(13)\n",
@@ -83,7 +83,7 @@
     }
    ],
    "source": [
-    "df_small = df.loc[df.data_source != 'iNat'].sample(1000)\n",
+    "df_small = df.loc[df.data_source != 'iNat21'].sample(1000)\n",
     "df_small.info(show_counts = True)"
    ]
   },
@@ -97,29 +97,29 @@
      "output_type": "stream",
      "text": [
       "<class 'pandas.core.frame.DataFrame'>\n",
-      "Index: 779 entries, 7986767 to 8659983\n",
+      "Index: 668 entries, 3494190 to 4498346\n",
       "Data columns (total 17 columns):\n",
       " #   Column            Non-Null Count  Dtype  \n",
       "---  ------            --------------  -----  \n",
-      " 0   treeoflife_id     779 non-null    object \n",
-      " 1   eol_content_id    506 non-null    float64\n",
-      " 2   eol_page_id       506 non-null    float64\n",
-      " 3   bioscan_part      21 non-null     float64\n",
-      " 4   bioscan_filename  21 non-null     object \n",
-      " 5   inat21_filename   252 non-null    object \n",
-      " 6   inat21_cls_name   252 non-null    object \n",
-      " 7   inat21_cls_num    252 non-null    float64\n",
-      " 8   kingdom           647 non-null    object \n",
-      " 9   phylum            647 non-null    object \n",
-      " 10  class             549 non-null    object \n",
-      " 11  order             645 non-null    object \n",
-      " 12  family            643 non-null    object \n",
-      " 13  genus             779 non-null    object \n",
-      " 14  species           684 non-null    object \n",
-      " 15  common            779 non-null    object \n",
-      " 16  data_source       779 non-null    object \n",
+      " 0   treeoflife_id     668 non-null    object \n",
+      " 1   eol_content_id    646 non-null    float64\n",
+      " 2   eol_page_id       646 non-null    float64\n",
+      " 3   bioscan_part      22 non-null     float64\n",
+      " 4   bioscan_filename  22 non-null     object \n",
+      " 5   inat21_filename   0 non-null      object \n",
+      " 6   inat21_cls_name   0 non-null      object \n",
+      " 7   inat21_cls_num    0 non-null      float64\n",
+      " 8   kingdom           498 non-null    object \n",
+      " 9   phylum            498 non-null    object \n",
+      " 10  class             365 non-null    object \n",
+      " 11  order             491 non-null    object \n",
+      " 12  family            498 non-null    object \n",
+      " 13  genus             668 non-null    object \n",
+      " 14  species           544 non-null    object \n",
+      " 15  common            668 non-null    object \n",
+      " 16  data_source       668 non-null    object \n",
       "dtypes: float64(4), object(13)\n",
-      "memory usage: 109.5+ KB\n"
+      "memory usage: 93.9+ KB\n"
      ]
     }
    ],
@@ -171,7 +171,7 @@
     }
    ],
    "source": [
-    "bio_eol = df.loc[df.data_source != 'iNat']\n",
+    "bio_eol = df.loc[df.data_source != 'iNat21']\n",
     "null_genus = bio_eol.loc[bio_eol.genus.isna()]\n",
     "null_genus.info(show_counts = True)"
    ]
@@ -201,26 +201,26 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 9,
+   "execution_count": 8,
    "metadata": {},
    "outputs": [
     {
      "data": {
       "text/plain": [
-       "10002735                    caprata\n",
-       "5642543      paradidyma malaise2555\n",
-       "5208448                  lapponicum\n",
-       "1762361                    irrorata\n",
-       "556451                    perplexus\n",
-       "3296890              (unidentified)\n",
-       "2533982           senegalia senegal\n",
-       "9869450                 punctinalis\n",
-       "4220628     coriaria welw. ex oliv.\n",
-       "7126430                   micrantha\n",
+       "5862285             cochleariifolia\n",
+       "3874515                 oligosperma\n",
+       "4210027         polioptila caerulea\n",
+       "1482223     stigmaticus stigmaticus\n",
+       "2165326                  umbellatum\n",
+       "6966418                  contractus\n",
+       "4224046                  marginatus\n",
+       "10349676       salpinctes obsoletus\n",
+       "6994793                  bimaculata\n",
+       "4775194                    olivaris\n",
        "Name: species, dtype: object"
       ]
      },
-     "execution_count": 9,
+     "execution_count": 8,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -231,14 +231,14 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 10,
+   "execution_count": 9,
    "metadata": {},
    "outputs": [
     {
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "161\n"
+      "180\n"
      ]
     }
    ],
@@ -254,28 +254,85 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Good, these are represented too, so we can save this file."
+    "Check `(unidentified)` is represented in our sample (see note below)."
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 11,
+   "execution_count": 10,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "Index: 0 entries\n",
+      "Data columns (total 17 columns):\n",
+      " #   Column            Non-Null Count  Dtype  \n",
+      "---  ------            --------------  -----  \n",
+      " 0   treeoflife_id     0 non-null      object \n",
+      " 1   eol_content_id    0 non-null      float64\n",
+      " 2   eol_page_id       0 non-null      float64\n",
+      " 3   bioscan_part      0 non-null      float64\n",
+      " 4   bioscan_filename  0 non-null      object \n",
+      " 5   inat21_filename   0 non-null      object \n",
+      " 6   inat21_cls_name   0 non-null      object \n",
+      " 7   inat21_cls_num    0 non-null      float64\n",
+      " 8   kingdom           0 non-null      object \n",
+      " 9   phylum            0 non-null      object \n",
+      " 10  class             0 non-null      object \n",
+      " 11  order             0 non-null      object \n",
+      " 12  family            0 non-null      object \n",
+      " 13  genus             0 non-null      object \n",
+      " 14  species           0 non-null      object \n",
+      " 15  common            0 non-null      object \n",
+      " 16  data_source       0 non-null      object \n",
+      "dtypes: float64(4), object(13)\n",
+      "memory usage: 0.0+ bytes\n"
+     ]
+    }
+   ],
+   "source": [
+    "df_test.loc[df_test.species == \"(unidentified)\"].info(show_counts = True)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 12,
    "metadata": {},
    "outputs": [],
    "source": [
-    "df_test.to_csv(\"../data/tol_hierarchy_test.csv\", index = False)"
+    "df_test = pd.concat([df_test, df.loc[df.species == \"(unidentified)\"].sample(10)])"
    ]
   },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "There is also apparently a species which is labeled as `(unidentified)`. Let's check where that is and if there's more than one (in our full dataset)."
+    "Good, these are now represented too, so we can save this file."
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 12,
+   "execution_count": 13,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "# Don't overwrite current test set (but is in VC)\n",
+    "#df_test.to_csv(\"../data/tol_hierarchy_test.csv\", index = False)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "There is also apparently a species which is labeled as `(unidentified)` (found in earlier run). Let's check where that is and if there's more than one (in our full dataset)."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 11,
    "metadata": {},
    "outputs": [
     {
@@ -322,7 +379,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 13,
+   "execution_count": 12,
    "metadata": {},
    "outputs": [
     {
@@ -367,30 +424,10 @@
        "  </thead>\n",
        "  <tbody>\n",
        "    <tr>\n",
-       "      <th>10369023</th>\n",
-       "      <td>b98a7e24-4848-4134-bad3-eedfce536fab</td>\n",
-       "      <td>14844649.0</td>\n",
-       "      <td>64430448.0</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>Cis</td>\n",
-       "      <td>(unidentified)</td>\n",
-       "      <td>Cis (unidentified)</td>\n",
-       "      <td>EOL</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>7268955</th>\n",
-       "      <td>228a79c2-a482-4cd4-9a56-a000c4780b68</td>\n",
-       "      <td>14842294.0</td>\n",
-       "      <td>64429582.0</td>\n",
+       "      <th>708128</th>\n",
+       "      <td>d8ec4f3a-9f7d-45f8-af94-a9e6bc243d3b</td>\n",
+       "      <td>14845132.0</td>\n",
+       "      <td>64427694.0</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
@@ -401,16 +438,16 @@
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
-       "      <td>Sarcophaga</td>\n",
+       "      <td>Ascomycota</td>\n",
        "      <td>(unidentified)</td>\n",
-       "      <td>Sarcophaga (unidentified)</td>\n",
+       "      <td>Ascomycota (unidentified)</td>\n",
        "      <td>EOL</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>1549482</th>\n",
-       "      <td>f81c2ce7-b2dc-4d13-8991-5a20907610bb</td>\n",
-       "      <td>14842814.0</td>\n",
-       "      <td>64432966.0</td>\n",
+       "      <th>1746638</th>\n",
+       "      <td>ae9457b9-9f7f-404a-87b8-0c69b2082a54</td>\n",
+       "      <td>14844829.0</td>\n",
+       "      <td>64428954.0</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
@@ -421,16 +458,16 @@
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
-       "      <td>Chromista</td>\n",
+       "      <td>Noctuidae</td>\n",
        "      <td>(unidentified)</td>\n",
-       "      <td>Chromista (unidentified)</td>\n",
+       "      <td>Noctuidae (unidentified)</td>\n",
        "      <td>EOL</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>6552233</th>\n",
-       "      <td>724ac709-31ee-41df-b1b2-a4fbcda8a867</td>\n",
-       "      <td>14845112.0</td>\n",
-       "      <td>64430050.0</td>\n",
+       "      <th>74672</th>\n",
+       "      <td>d00a6cdd-3ac4-4eca-98dc-8fe03c006dab</td>\n",
+       "      <td>14845091.0</td>\n",
+       "      <td>64429560.0</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
@@ -441,16 +478,16 @@
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
-       "      <td>Myrmica</td>\n",
+       "      <td>Limonia</td>\n",
        "      <td>(unidentified)</td>\n",
-       "      <td>Myrmica (unidentified)</td>\n",
+       "      <td>Limonia (unidentified)</td>\n",
        "      <td>EOL</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>7064292</th>\n",
-       "      <td>079cac60-e040-4ae0-a587-d9a73b0bff65</td>\n",
-       "      <td>14851701.0</td>\n",
-       "      <td>64429842.0</td>\n",
+       "      <th>7041469</th>\n",
+       "      <td>3c02258d-c93d-400c-846e-d63c1064aa55</td>\n",
+       "      <td>14843807.0</td>\n",
+       "      <td>64430930.0</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
@@ -461,9 +498,9 @@
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
-       "      <td>Phygadeuon</td>\n",
+       "      <td>Panorpa</td>\n",
        "      <td>(unidentified)</td>\n",
-       "      <td>Phygadeuon (unidentified)</td>\n",
+       "      <td>Panorpa (unidentified)</td>\n",
        "      <td>EOL</td>\n",
        "    </tr>\n",
        "    <tr>\n",
@@ -487,50 +524,10 @@
        "      <td>EOL</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>6605868</th>\n",
-       "      <td>9a4cf29a-06d5-4c1c-94dc-6f0486347755</td>\n",
-       "      <td>14843938.0</td>\n",
-       "      <td>64427784.0</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>Entoloma</td>\n",
-       "      <td>(unidentified)</td>\n",
-       "      <td>Entoloma (unidentified)</td>\n",
-       "      <td>EOL</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>1138925</th>\n",
-       "      <td>2b4c8067-3595-4d87-897e-9d3600e3a86f</td>\n",
-       "      <td>14842566.0</td>\n",
-       "      <td>64430882.0</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>Hydropsyche</td>\n",
-       "      <td>(unidentified)</td>\n",
-       "      <td>Hydropsyche (unidentified)</td>\n",
-       "      <td>EOL</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>2018314</th>\n",
-       "      <td>2726bcc0-5c18-401a-a0a0-ad4a2cb4e302</td>\n",
-       "      <td>14845986.0</td>\n",
-       "      <td>64426150.0</td>\n",
+       "      <th>1462517</th>\n",
+       "      <td>5ac64348-e45f-4c54-8316-379543ea1ab2</td>\n",
+       "      <td>14845057.0</td>\n",
+       "      <td>64427448.0</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
@@ -541,16 +538,16 @@
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
-       "      <td>Chlorophyta</td>\n",
+       "      <td>Amerosporium</td>\n",
        "      <td>(unidentified)</td>\n",
-       "      <td>Chlorophyta (unidentified)</td>\n",
+       "      <td>Amerosporium (unidentified)</td>\n",
        "      <td>EOL</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>1675874</th>\n",
-       "      <td>578809ee-126c-468e-a39b-2878e1dafc21</td>\n",
-       "      <td>14845571.0</td>\n",
-       "      <td>64431544.0</td>\n",
+       "      <th>4604554</th>\n",
+       "      <td>5b222d55-b57d-4b3e-bbdc-837fce856b0a</td>\n",
+       "      <td>14844676.0</td>\n",
+       "      <td>64430148.0</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
@@ -561,9 +558,9 @@
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
        "      <td>NaN</td>\n",
-       "      <td>Porifera</td>\n",
+       "      <td>Symphyta</td>\n",
        "      <td>(unidentified)</td>\n",
-       "      <td>Porifera (unidentified)</td>\n",
+       "      <td>Symphyta (unidentified)</td>\n",
        "      <td>EOL</td>\n",
        "    </tr>\n",
        "  </tbody>\n",
@@ -571,62 +568,50 @@
        "</div>"
       ],
       "text/plain": [
-       "                                 treeoflife_id  eol_content_id  eol_page_id   \n",
-       "10369023  b98a7e24-4848-4134-bad3-eedfce536fab      14844649.0   64430448.0  \\\n",
-       "7268955   228a79c2-a482-4cd4-9a56-a000c4780b68      14842294.0   64429582.0   \n",
-       "1549482   f81c2ce7-b2dc-4d13-8991-5a20907610bb      14842814.0   64432966.0   \n",
-       "6552233   724ac709-31ee-41df-b1b2-a4fbcda8a867      14845112.0   64430050.0   \n",
-       "7064292   079cac60-e040-4ae0-a587-d9a73b0bff65      14851701.0   64429842.0   \n",
-       "972647    01633bbe-44f9-4e8d-b4db-d2d9678906eb      14845039.0   64429476.0   \n",
-       "6605868   9a4cf29a-06d5-4c1c-94dc-6f0486347755      14843938.0   64427784.0   \n",
-       "1138925   2b4c8067-3595-4d87-897e-9d3600e3a86f      14842566.0   64430882.0   \n",
-       "2018314   2726bcc0-5c18-401a-a0a0-ad4a2cb4e302      14845986.0   64426150.0   \n",
-       "1675874   578809ee-126c-468e-a39b-2878e1dafc21      14845571.0   64431544.0   \n",
+       "                                treeoflife_id  eol_content_id  eol_page_id   \n",
+       "708128   d8ec4f3a-9f7d-45f8-af94-a9e6bc243d3b      14845132.0   64427694.0  \\\n",
+       "1746638  ae9457b9-9f7f-404a-87b8-0c69b2082a54      14844829.0   64428954.0   \n",
+       "74672    d00a6cdd-3ac4-4eca-98dc-8fe03c006dab      14845091.0   64429560.0   \n",
+       "7041469  3c02258d-c93d-400c-846e-d63c1064aa55      14843807.0   64430930.0   \n",
+       "972647   01633bbe-44f9-4e8d-b4db-d2d9678906eb      14845039.0   64429476.0   \n",
+       "1462517  5ac64348-e45f-4c54-8316-379543ea1ab2      14845057.0   64427448.0   \n",
+       "4604554  5b222d55-b57d-4b3e-bbdc-837fce856b0a      14844676.0   64430148.0   \n",
        "\n",
-       "          bioscan_part bioscan_filename inat21_filename inat21_cls_name   \n",
-       "10369023           NaN              NaN             NaN             NaN  \\\n",
-       "7268955            NaN              NaN             NaN             NaN   \n",
-       "1549482            NaN              NaN             NaN             NaN   \n",
-       "6552233            NaN              NaN             NaN             NaN   \n",
-       "7064292            NaN              NaN             NaN             NaN   \n",
-       "972647             NaN              NaN             NaN             NaN   \n",
-       "6605868            NaN              NaN             NaN             NaN   \n",
-       "1138925            NaN              NaN             NaN             NaN   \n",
-       "2018314            NaN              NaN             NaN             NaN   \n",
-       "1675874            NaN              NaN             NaN             NaN   \n",
+       "         bioscan_part bioscan_filename inat21_filename inat21_cls_name   \n",
+       "708128            NaN              NaN             NaN             NaN  \\\n",
+       "1746638           NaN              NaN             NaN             NaN   \n",
+       "74672             NaN              NaN             NaN             NaN   \n",
+       "7041469           NaN              NaN             NaN             NaN   \n",
+       "972647            NaN              NaN             NaN             NaN   \n",
+       "1462517           NaN              NaN             NaN             NaN   \n",
+       "4604554           NaN              NaN             NaN             NaN   \n",
        "\n",
-       "          inat21_cls_num kingdom phylum class order family        genus   \n",
-       "10369023             NaN     NaN    NaN   NaN   NaN    NaN          Cis  \\\n",
-       "7268955              NaN     NaN    NaN   NaN   NaN    NaN   Sarcophaga   \n",
-       "1549482              NaN     NaN    NaN   NaN   NaN    NaN    Chromista   \n",
-       "6552233              NaN     NaN    NaN   NaN   NaN    NaN      Myrmica   \n",
-       "7064292              NaN     NaN    NaN   NaN   NaN    NaN   Phygadeuon   \n",
-       "972647               NaN     NaN    NaN   NaN   NaN    NaN    Cheilosia   \n",
-       "6605868              NaN     NaN    NaN   NaN   NaN    NaN     Entoloma   \n",
-       "1138925              NaN     NaN    NaN   NaN   NaN    NaN  Hydropsyche   \n",
-       "2018314              NaN     NaN    NaN   NaN   NaN    NaN  Chlorophyta   \n",
-       "1675874              NaN     NaN    NaN   NaN   NaN    NaN     Porifera   \n",
+       "         inat21_cls_num kingdom phylum class order family         genus   \n",
+       "708128              NaN     NaN    NaN   NaN   NaN    NaN    Ascomycota  \\\n",
+       "1746638             NaN     NaN    NaN   NaN   NaN    NaN     Noctuidae   \n",
+       "74672               NaN     NaN    NaN   NaN   NaN    NaN       Limonia   \n",
+       "7041469             NaN     NaN    NaN   NaN   NaN    NaN       Panorpa   \n",
+       "972647              NaN     NaN    NaN   NaN   NaN    NaN     Cheilosia   \n",
+       "1462517             NaN     NaN    NaN   NaN   NaN    NaN  Amerosporium   \n",
+       "4604554             NaN     NaN    NaN   NaN   NaN    NaN      Symphyta   \n",
        "\n",
-       "                 species                      common data_source  \n",
-       "10369023  (unidentified)          Cis (unidentified)         EOL  \n",
-       "7268955   (unidentified)   Sarcophaga (unidentified)         EOL  \n",
-       "1549482   (unidentified)    Chromista (unidentified)         EOL  \n",
-       "6552233   (unidentified)      Myrmica (unidentified)         EOL  \n",
-       "7064292   (unidentified)   Phygadeuon (unidentified)         EOL  \n",
-       "972647    (unidentified)    Cheilosia (unidentified)         EOL  \n",
-       "6605868   (unidentified)     Entoloma (unidentified)         EOL  \n",
-       "1138925   (unidentified)  Hydropsyche (unidentified)         EOL  \n",
-       "2018314   (unidentified)  Chlorophyta (unidentified)         EOL  \n",
-       "1675874   (unidentified)     Porifera (unidentified)         EOL  "
+       "                species                       common data_source  \n",
+       "708128   (unidentified)    Ascomycota (unidentified)         EOL  \n",
+       "1746638  (unidentified)     Noctuidae (unidentified)         EOL  \n",
+       "74672    (unidentified)       Limonia (unidentified)         EOL  \n",
+       "7041469  (unidentified)       Panorpa (unidentified)         EOL  \n",
+       "972647   (unidentified)     Cheilosia (unidentified)         EOL  \n",
+       "1462517  (unidentified)  Amerosporium (unidentified)         EOL  \n",
+       "4604554  (unidentified)      Symphyta (unidentified)         EOL  "
       ]
      },
-     "execution_count": 13,
+     "execution_count": 12,
      "metadata": {},
      "output_type": "execute_result"
     }
    ],
    "source": [
-    "df.loc[df.species == \"(unidentified)\"].sample(10)"
+    "df.loc[df.species == \"(unidentified)\"].sample(7)"
    ]
   },
   {
@@ -680,19 +665,19 @@
      "output_type": "stream",
      "text": [
       "<class 'pandas.core.frame.DataFrame'>\n",
-      "Index: 779 entries, 7986767 to 8659983\n",
+      "Index: 678 entries, 3494190 to 2887231\n",
       "Data columns (total 7 columns):\n",
       " #   Column   Non-Null Count  Dtype \n",
       "---  ------   --------------  ----- \n",
-      " 0   kingdom  647 non-null    object\n",
-      " 1   phylum   647 non-null    object\n",
-      " 2   class    549 non-null    object\n",
-      " 3   order    645 non-null    object\n",
-      " 4   family   643 non-null    object\n",
-      " 5   genus    779 non-null    object\n",
-      " 6   species  684 non-null    object\n",
+      " 0   kingdom  498 non-null    object\n",
+      " 1   phylum   498 non-null    object\n",
+      " 2   class    365 non-null    object\n",
+      " 3   order    491 non-null    object\n",
+      " 4   family   498 non-null    object\n",
+      " 5   genus    678 non-null    object\n",
+      " 6   species  554 non-null    object\n",
       "dtypes: object(7)\n",
-      "memory usage: 48.7+ KB\n"
+      "memory usage: 42.4+ KB\n"
      ]
     }
    ],
@@ -705,23 +690,23 @@
    "metadata": {},
    "source": [
     "We should have\n",
-    " - 132 missing `kingdom` and `phylum`\n",
-    " - 230 missing `class`\n",
-    " - 134 missing `family`"
+    " - 180 missing `kingdom`, `phylum`, and `family` -- These numbers will not always be the same\n",
+    " - 313 missing `class`\n",
+    " - 187 missing `order`"
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 19,
+   "execution_count": 17,
    "metadata": {},
    "outputs": [
     {
      "data": {
       "text/plain": [
-       "101"
+       "100"
       ]
      },
-     "execution_count": 19,
+     "execution_count": 17,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -734,12 +719,12 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "101 entries for which `species` is non-null, but `genus` is missing."
+    "100 entries for which `species` is non-null, but `genus` is missing."
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 20,
+   "execution_count": 18,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -748,7 +733,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 21,
+   "execution_count": 19,
    "metadata": {},
    "outputs": [
     {
@@ -756,19 +741,19 @@
      "output_type": "stream",
      "text": [
       "<class 'pandas.core.frame.DataFrame'>\n",
-      "Index: 143 entries, 4772452 to 3877527\n",
+      "Index: 198 entries, 1098219 to 1167968\n",
       "Data columns (total 7 columns):\n",
       " #   Column   Non-Null Count  Dtype \n",
       "---  ------   --------------  ----- \n",
-      " 0   kingdom  3 non-null      object\n",
-      " 1   phylum   3 non-null      object\n",
-      " 2   class    3 non-null      object\n",
-      " 3   order    3 non-null      object\n",
+      " 0   kingdom  1 non-null      object\n",
+      " 1   phylum   1 non-null      object\n",
+      " 2   class    1 non-null      object\n",
+      " 3   order    1 non-null      object\n",
       " 4   family   0 non-null      object\n",
       " 5   genus    0 non-null      object\n",
       " 6   species  0 non-null      object\n",
       "dtypes: object(7)\n",
-      "memory usage: 8.9+ KB\n"
+      "memory usage: 12.4+ KB\n"
      ]
     }
    ],
@@ -780,12 +765,12 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Only 3 instances where `family` is null and higher order taxa are not."
+    "Only 1 instance where `family` is null and higher order taxa are not."
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 22,
+   "execution_count": 20,
    "metadata": {},
    "outputs": [
     {
@@ -793,19 +778,19 @@
      "output_type": "stream",
      "text": [
       "<class 'pandas.core.frame.DataFrame'>\n",
-      "Index: 178 entries, 4943756 to 1467368\n",
+      "Index: 234 entries, 157009 to 5416459\n",
       "Data columns (total 7 columns):\n",
       " #   Column   Non-Null Count  Dtype \n",
       "---  ------   --------------  ----- \n",
-      " 0   kingdom  178 non-null    object\n",
-      " 1   phylum   178 non-null    object\n",
-      " 2   class    141 non-null    object\n",
-      " 3   order    178 non-null    object\n",
-      " 4   family   178 non-null    object\n",
+      " 0   kingdom  234 non-null    object\n",
+      " 1   phylum   234 non-null    object\n",
+      " 2   class    206 non-null    object\n",
+      " 3   order    234 non-null    object\n",
+      " 4   family   234 non-null    object\n",
       " 5   genus    0 non-null      object\n",
-      " 6   species  101 non-null    object\n",
+      " 6   species  100 non-null    object\n",
       "dtypes: object(7)\n",
-      "memory usage: 11.1+ KB\n"
+      "memory usage: 14.6+ KB\n"
      ]
     }
    ],
@@ -817,7 +802,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "For `family`, there should be a warning that 37 `class` values are not indicated."
+    "For `family`, there should be a warning that 28 `class` values are not indicated."
    ]
   },
   {
@@ -829,7 +814,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 23,
+   "execution_count": 21,
    "metadata": {},
    "outputs": [
     {
@@ -837,19 +822,19 @@
      "output_type": "stream",
      "text": [
       "<class 'pandas.core.frame.DataFrame'>\n",
-      "Index: 101 entries, 10434700 to 1467368\n",
+      "Index: 100 entries, 3723975 to 5416459\n",
       "Data columns (total 7 columns):\n",
       " #   Column   Non-Null Count  Dtype \n",
       "---  ------   --------------  ----- \n",
-      " 0   kingdom  101 non-null    object\n",
-      " 1   phylum   101 non-null    object\n",
-      " 2   class    65 non-null     object\n",
-      " 3   order    101 non-null    object\n",
-      " 4   family   101 non-null    object\n",
+      " 0   kingdom  100 non-null    object\n",
+      " 1   phylum   100 non-null    object\n",
+      " 2   class    73 non-null     object\n",
+      " 3   order    100 non-null    object\n",
+      " 4   family   100 non-null    object\n",
       " 5   genus    0 non-null      object\n",
-      " 6   species  101 non-null    object\n",
+      " 6   species  100 non-null    object\n",
       "dtypes: object(7)\n",
-      "memory usage: 6.3+ KB\n"
+      "memory usage: 6.2+ KB\n"
      ]
     }
    ],
@@ -863,12 +848,85 @@
    "source": [
     "We should have\n",
     " - no instances of missing `kingdom`, `phylum`, `order`, or `family` \n",
-    " - 36 instances of missing `class`"
+    " - 73 instances of missing `class`"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 22,
+   "metadata": {},
+   "outputs": [
+    {
+     "data": {
+      "text/plain": [
+       "kingdom      4\n",
+       "phylum      15\n",
+       "class       24\n",
+       "order      107\n",
+       "family     314\n",
+       "genus      615\n",
+       "species    531\n",
+       "dtype: int64"
+      ]
+     },
+     "execution_count": 22,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "df_test_taxa.nunique()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "We should get a warning of 4 unique values of `kingdom`."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 23,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "Index: 10 entries, 1377769 to 2887231\n",
+      "Data columns (total 7 columns):\n",
+      " #   Column   Non-Null Count  Dtype \n",
+      "---  ------   --------------  ----- \n",
+      " 0   kingdom  0 non-null      object\n",
+      " 1   phylum   0 non-null      object\n",
+      " 2   class    0 non-null      object\n",
+      " 3   order    0 non-null      object\n",
+      " 4   family   0 non-null      object\n",
+      " 5   genus    10 non-null     object\n",
+      " 6   species  10 non-null     object\n",
+      "dtypes: object(7)\n",
+      "memory usage: 640.0+ bytes\n"
+     ]
+    }
+   ],
+   "source": [
+    "df_test_taxa.loc[df_test_taxa.species == \"(unidentified)\"].info(show_counts = True)"
    ]
   },
   {
    "cell_type": "markdown",
    "metadata": {},
+   "source": [
+    "And 10 instances of `(unidentified)` label for species."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
    "source": []
   }
  ],