We may have a content/page ID mismatch.

data/eol_files/eol_cp_not_media.csv

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:25fb2f25447f09ac53ea1a180c653eb60b31dcddc304ab2c54efc0e5914b2c7b
+size 6009977

notebooks/ToL_license_check.ipynb

@@ -24,18 +24,9 @@
    "cell_type": "code",
    "execution_count": 2,
    "metadata": {},
-   "outputs": [
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_23442/4112647395.py:1: DtypeWarning: Columns (5,6,7,14,15) have mixed types. Specify dtype option on import or set low_memory=False.\n",
-      "  df = pd.read_csv(\"../data/predicted-catalog.csv\")\n"
-     ]
-    }
-   ],
+   "outputs": [],
    "source": [
-    "df = pd.read_csv(\"../data/predicted-catalog.csv\", dtype = {\"eol_content_id\": \"int64\", \"eol_page_id\": \"int64\"}, low_memory = False)"
+    "df = pd.read_csv(\"../data/predicted-catalog.csv\", low_memory = False)"
    ]
   },
   {
@@ -290,7 +281,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 3,
+   "execution_count": 5,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -309,7 +300,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 4,
+   "execution_count": 6,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -473,29 +464,29 @@
        "</div>"
       ],
       "text/plain": [
-       "   split                         treeoflife_id  eol_content_id  eol_page_id   \n",
-       "0  train  f2f0aa29-e87b-469c-bf5b-51a3611ab001      22131926.0     269504.0  \\\n",
+       "   split                         treeoflife_id  eol_content_id  eol_page_id  \\\n",
+       "0  train  f2f0aa29-e87b-469c-bf5b-51a3611ab001      22131926.0     269504.0   \n",
        "1  train  5faa4f55-32e9-4872-953d-567e5d232e52      22291283.0    6101931.0   \n",
        "2  train  2282f2bf-2b52-4522-b588-dd6f356d5fd6      21802775.0   45513632.0   \n",
        "3  train  76b57c36-2181-4e6d-a5c4-b40e22a09449      12784812.0   51655800.0   \n",
        "4  train  f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2      29713643.0   45515896.0   \n",
        "\n",
-       "   bioscan_part bioscan_filename inat21_filename inat21_cls_name   \n",
-       "0           NaN              NaN             NaN             NaN  \\\n",
+       "   bioscan_part bioscan_filename inat21_filename inat21_cls_name  \\\n",
+       "0           NaN              NaN             NaN             NaN   \n",
        "1           NaN              NaN             NaN             NaN   \n",
        "2           NaN              NaN             NaN             NaN   \n",
        "3           NaN              NaN             NaN             NaN   \n",
        "4           NaN              NaN             NaN             NaN   \n",
        "\n",
-       "   inat21_cls_num   kingdom        phylum           class           order   \n",
-       "0             NaN  Animalia    Arthropoda         Insecta     Lepidoptera  \\\n",
+       "   inat21_cls_num   kingdom        phylum           class           order  \\\n",
+       "0             NaN  Animalia    Arthropoda         Insecta     Lepidoptera   \n",
        "1             NaN   Plantae  Tracheophyta  Polypodiopsida    Polypodiales   \n",
        "2             NaN  Animalia      Chordata            Aves   Passeriformes   \n",
        "3             NaN       NaN           NaN             NaN             NaN   \n",
        "4             NaN  Animalia      Chordata            Aves  Casuariiformes   \n",
        "\n",
-       "        family        genus     species                      common   \n",
-       "0   Lycaenidae  Orthomiella  rantaizana  Chinese Straight-wing Blue  \\\n",
+       "        family        genus     species                      common  \\\n",
+       "0   Lycaenidae  Orthomiella  rantaizana  Chinese Straight-wing Blue   \n",
        "1  Woodsiaceae      Woodsia  subcordata          Woodsia subcordata   \n",
        "2     Laniidae       Lanius       minor          Lesser Grey Shrike   \n",
        "3          NaN          NaN      tenuis                      Tenuis   \n",
@@ -527,7 +518,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 5,
+   "execution_count": 8,
    "metadata": {},
    "outputs": [
     {
@@ -536,7 +527,7 @@
        "Index(['treeoflife_id', 'eol_content_id', 'eol_page_id'], dtype='object')"
       ]
      },
-     "execution_count": 5,
+     "execution_count": 8,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -548,7 +539,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 6,
+   "execution_count": 9,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -558,84 +549,9 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 11,
+   "execution_count": null,
    "metadata": {},
-   "outputs": [
-    {
-     "data": {
-      "text/html": [
-       "<div>\n",
-       "<style scoped>\n",
-       "    .dataframe tbody tr th:only-of-type {\n",
-       "        vertical-align: middle;\n",
-       "    }\n",
-       "\n",
-       "    .dataframe tbody tr th {\n",
-       "        vertical-align: top;\n",
-       "    }\n",
-       "\n",
-       "    .dataframe thead th {\n",
-       "        text-align: right;\n",
-       "    }\n",
-       "</style>\n",
-       "<table border=\"1\" class=\"dataframe\">\n",
-       "  <thead>\n",
-       "    <tr style=\"text-align: right;\">\n",
-       "      <th></th>\n",
-       "      <th>treeoflife_id</th>\n",
-       "      <th>eol_content_id</th>\n",
-       "      <th>eol_page_id</th>\n",
-       "    </tr>\n",
-       "  </thead>\n",
-       "  <tbody>\n",
-       "    <tr>\n",
-       "      <th>0</th>\n",
-       "      <td>f2f0aa29-e87b-469c-bf5b-51a3611ab001</td>\n",
-       "      <td>22131926.0</td>\n",
-       "      <td>269504.0</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>1</th>\n",
-       "      <td>5faa4f55-32e9-4872-953d-567e5d232e52</td>\n",
-       "      <td>22291283.0</td>\n",
-       "      <td>6101931.0</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>2</th>\n",
-       "      <td>2282f2bf-2b52-4522-b588-dd6f356d5fd6</td>\n",
-       "      <td>21802775.0</td>\n",
-       "      <td>45513632.0</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>3</th>\n",
-       "      <td>76b57c36-2181-4e6d-a5c4-b40e22a09449</td>\n",
-       "      <td>12784812.0</td>\n",
-       "      <td>51655800.0</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>4</th>\n",
-       "      <td>f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2</td>\n",
-       "      <td>29713643.0</td>\n",
-       "      <td>45515896.0</td>\n",
-       "    </tr>\n",
-       "  </tbody>\n",
-       "</table>\n",
-       "</div>"
-      ],
-      "text/plain": [
-       "                          treeoflife_id  eol_content_id  eol_page_id\n",
-       "0  f2f0aa29-e87b-469c-bf5b-51a3611ab001      22131926.0     269504.0\n",
-       "1  5faa4f55-32e9-4872-953d-567e5d232e52      22291283.0    6101931.0\n",
-       "2  2282f2bf-2b52-4522-b588-dd6f356d5fd6      21802775.0   45513632.0\n",
-       "3  76b57c36-2181-4e6d-a5c4-b40e22a09449      12784812.0   51655800.0\n",
-       "4  f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2      29713643.0   45515896.0"
-      ]
-     },
-     "execution_count": 11,
-     "metadata": {},
-     "output_type": "execute_result"
-    }
-   ],
+   "outputs": [],
    "source": [
     "eol_license_df.head()"
    ]
@@ -659,17 +575,9 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 7,
+   "execution_count": 11,
    "metadata": {},
    "outputs": [
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_23442/2809897267.py:1: DtypeWarning: Columns (5) have mixed types. Specify dtype option on import or set low_memory=False.\n",
-      "  media = pd.read_csv(\"../data/media_manifest (july 26).csv\")\n"
-     ]
-    },
     {
      "name": "stdout",
      "output_type": "stream",
@@ -697,16 +605,28 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 19,
+   "execution_count": 12,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "# Read eol license df back in with type int64 for ID columns\n",
+    "eol_license_df = pd.read_csv(\"../data/eol_files/eol_licenses.csv\", \n",
+    "                             dtype = {\"eol_content_id\": \"int64\", \"eol_page_id\": \"int64\"}, \n",
+    "                             low_memory = False)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 13,
    "metadata": {},
    "outputs": [
     {
      "data": {
       "text/plain": [
-       "(6277374, 3)"
+       "(6020135, 5)"
       ]
      },
-     "execution_count": 19,
+     "execution_count": 13,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -715,6 +635,57 @@
     "eol_license_df.shape"
    ]
   },
+  {
+   "cell_type": "code",
+   "execution_count": 24,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "Index: 6277374 entries, 0 to 6277373\n",
+      "Data columns (total 18 columns):\n",
+      " #   Column            Dtype  \n",
+      "---  ------            -----  \n",
+      " 0   split             object \n",
+      " 1   treeoflife_id     object \n",
+      " 2   eol_content_id    int64  \n",
+      " 3   eol_page_id       int64  \n",
+      " 4   bioscan_part      float64\n",
+      " 5   bioscan_filename  object \n",
+      " 6   inat21_filename   object \n",
+      " 7   inat21_cls_name   object \n",
+      " 8   inat21_cls_num    float64\n",
+      " 9   kingdom           object \n",
+      " 10  phylum            object \n",
+      " 11  class             object \n",
+      " 12  order             object \n",
+      " 13  family            object \n",
+      " 14  genus             object \n",
+      " 15  species           object \n",
+      " 16  common            object \n",
+      " 17  data_source       object \n",
+      "dtypes: float64(2), int64(2), object(14)\n",
+      "memory usage: 910.0+ MB\n"
+     ]
+    }
+   ],
+   "source": [
+    "eol_df = eol_df.astype({\"eol_content_id\": \"int64\", \"eol_page_id\": \"int64\"})\n",
+    "eol_df.info()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 25,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "eol_license_df = eol_df[eol_license_cols]"
+   ]
+  },
   {
    "cell_type": "markdown",
    "metadata": {},
@@ -724,7 +695,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 8,
+   "execution_count": 14,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -733,7 +704,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 9,
+   "execution_count": 26,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -742,7 +713,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 21,
+   "execution_count": 27,
    "metadata": {},
    "outputs": [
     {
@@ -755,14 +726,14 @@
       " #   Column                  Non-Null Count    Dtype  \n",
       "---  ------                  --------------    -----  \n",
       " 0   treeoflife_id           6277374 non-null  object \n",
-      " 1   eol_content_id          6277374 non-null  float64\n",
-      " 2   eol_page_id             6277374 non-null  float64\n",
-      " 3   EOL page ID             6163903 non-null  float64\n",
+      " 1   eol_content_id          6277374 non-null  int64  \n",
+      " 2   eol_page_id_x           6277374 non-null  int64  \n",
+      " 3   eol_page_id_y           6163903 non-null  float64\n",
       " 4   Medium Source URL       6163903 non-null  object \n",
       " 5   EOL Full-Size Copy URL  6163903 non-null  object \n",
       " 6   License Name            6163903 non-null  object \n",
       " 7   Copyright Owner         5549428 non-null  object \n",
-      "dtypes: float64(3), object(5)\n",
+      "dtypes: float64(1), int64(2), object(5)\n",
       "memory usage: 383.1+ MB\n"
      ]
     }
@@ -775,12 +746,12 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Clearly we have about 113K images whose content ID's are not in the media manifest, and thus we're missing the URL and license info."
+    "We have about 620K images missing copyright owner."
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 22,
+   "execution_count": 28,
    "metadata": {},
    "outputs": [
     {
@@ -806,8 +777,8 @@
        "      <th></th>\n",
        "      <th>treeoflife_id</th>\n",
        "      <th>eol_content_id</th>\n",
-       "      <th>eol_page_id</th>\n",
-       "      <th>EOL page ID</th>\n",
+       "      <th>eol_page_id_x</th>\n",
+       "      <th>eol_page_id_y</th>\n",
        "      <th>Medium Source URL</th>\n",
        "      <th>EOL Full-Size Copy URL</th>\n",
        "      <th>License Name</th>\n",
@@ -818,8 +789,8 @@
        "    <tr>\n",
        "      <th>0</th>\n",
        "      <td>f2f0aa29-e87b-469c-bf5b-51a3611ab001</td>\n",
-       "      <td>22131926.0</td>\n",
-       "      <td>269504.0</td>\n",
+       "      <td>22131926</td>\n",
+       "      <td>269504</td>\n",
        "      <td>269504.0</td>\n",
        "      <td>https://inaturalist-open-data.s3.amazonaws.com...</td>\n",
        "      <td>https://content.eol.org/data/media/6a/ed/7a/18...</td>\n",
@@ -829,8 +800,8 @@
        "    <tr>\n",
        "      <th>1</th>\n",
        "      <td>5faa4f55-32e9-4872-953d-567e5d232e52</td>\n",
-       "      <td>22291283.0</td>\n",
-       "      <td>6101931.0</td>\n",
+       "      <td>22291283</td>\n",
+       "      <td>6101931</td>\n",
        "      <td>6101931.0</td>\n",
        "      <td>https://inaturalist-open-data.s3.amazonaws.com...</td>\n",
        "      <td>https://content.eol.org/data/media/7b/bc/92/18...</td>\n",
@@ -840,8 +811,8 @@
        "    <tr>\n",
        "      <th>2</th>\n",
        "      <td>2282f2bf-2b52-4522-b588-dd6f356d5fd6</td>\n",
-       "      <td>21802775.0</td>\n",
-       "      <td>45513632.0</td>\n",
+       "      <td>21802775</td>\n",
+       "      <td>45513632</td>\n",
        "      <td>45513632.0</td>\n",
        "      <td>https://inaturalist-open-data.s3.amazonaws.com...</td>\n",
        "      <td>https://content.eol.org/data/media/66/be/16/18...</td>\n",
@@ -851,8 +822,8 @@
        "    <tr>\n",
        "      <th>3</th>\n",
        "      <td>76b57c36-2181-4e6d-a5c4-b40e22a09449</td>\n",
-       "      <td>12784812.0</td>\n",
-       "      <td>51655800.0</td>\n",
+       "      <td>12784812</td>\n",
+       "      <td>51655800</td>\n",
        "      <td>51655800.0</td>\n",
        "      <td>http://www.femorale.com/shellphotos/photos15/3...</td>\n",
        "      <td>https://content.eol.org/data/media/c4/79/dc/14...</td>\n",
@@ -862,8 +833,8 @@
        "    <tr>\n",
        "      <th>4</th>\n",
        "      <td>f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2</td>\n",
-       "      <td>29713643.0</td>\n",
-       "      <td>45515896.0</td>\n",
+       "      <td>29713643</td>\n",
+       "      <td>45515896</td>\n",
        "      <td>45515896.0</td>\n",
        "      <td>https://upload.wikimedia.org/wikipedia/commons...</td>\n",
        "      <td>https://content.eol.org/data/media/5f/ef/95/50...</td>\n",
@@ -875,22 +846,22 @@
        "</div>"
       ],
       "text/plain": [
-       "                          treeoflife_id  eol_content_id  eol_page_id   \n",
-       "0  f2f0aa29-e87b-469c-bf5b-51a3611ab001      22131926.0     269504.0  \\\n",
-       "1  5faa4f55-32e9-4872-953d-567e5d232e52      22291283.0    6101931.0   \n",
-       "2  2282f2bf-2b52-4522-b588-dd6f356d5fd6      21802775.0   45513632.0   \n",
-       "3  76b57c36-2181-4e6d-a5c4-b40e22a09449      12784812.0   51655800.0   \n",
-       "4  f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2      29713643.0   45515896.0   \n",
+       "                          treeoflife_id  eol_content_id  eol_page_id_x  \\\n",
+       "0  f2f0aa29-e87b-469c-bf5b-51a3611ab001        22131926         269504   \n",
+       "1  5faa4f55-32e9-4872-953d-567e5d232e52        22291283        6101931   \n",
+       "2  2282f2bf-2b52-4522-b588-dd6f356d5fd6        21802775       45513632   \n",
+       "3  76b57c36-2181-4e6d-a5c4-b40e22a09449        12784812       51655800   \n",
+       "4  f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2        29713643       45515896   \n",
        "\n",
-       "   EOL page ID                                  Medium Source URL   \n",
-       "0     269504.0  https://inaturalist-open-data.s3.amazonaws.com...  \\\n",
-       "1    6101931.0  https://inaturalist-open-data.s3.amazonaws.com...   \n",
-       "2   45513632.0  https://inaturalist-open-data.s3.amazonaws.com...   \n",
-       "3   51655800.0  http://www.femorale.com/shellphotos/photos15/3...   \n",
-       "4   45515896.0  https://upload.wikimedia.org/wikipedia/commons...   \n",
+       "   eol_page_id_y                                  Medium Source URL  \\\n",
+       "0       269504.0  https://inaturalist-open-data.s3.amazonaws.com...   \n",
+       "1      6101931.0  https://inaturalist-open-data.s3.amazonaws.com...   \n",
+       "2     45513632.0  https://inaturalist-open-data.s3.amazonaws.com...   \n",
+       "3     51655800.0  http://www.femorale.com/shellphotos/photos15/3...   \n",
+       "4     45515896.0  https://upload.wikimedia.org/wikipedia/commons...   \n",
        "\n",
-       "                              EOL Full-Size Copy URL  License Name   \n",
-       "0  https://content.eol.org/data/media/6a/ed/7a/18...  cc-by-nc-4.0  \\\n",
+       "                              EOL Full-Size Copy URL  License Name  \\\n",
+       "0  https://content.eol.org/data/media/6a/ed/7a/18...  cc-by-nc-4.0   \n",
        "1  https://content.eol.org/data/media/7b/bc/92/18...  cc-by-nc-4.0   \n",
        "2  https://content.eol.org/data/media/66/be/16/18...  cc-by-nc-4.0   \n",
        "3  https://content.eol.org/data/media/c4/79/dc/14...      cc-by-nc   \n",
@@ -904,7 +875,7 @@
        "4               NaN  "
       ]
      },
-     "execution_count": 22,
+     "execution_count": 28,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -915,37 +886,263 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 34,
+   "execution_count": 29,
    "metadata": {},
    "outputs": [
     {
      "data": {
       "text/plain": [
-       "treeoflife_id             113471\n",
-       "eol_content_id            113471\n",
-       "eol_page_id                 9762\n",
-       "EOL page ID                    0\n",
-       "Medium Source URL              0\n",
-       "EOL Full-Size Copy URL         0\n",
-       "License Name                   0\n",
+       "treeoflife_id             727946\n",
+       "eol_content_id            727946\n",
+       "eol_page_id_x             119376\n",
+       "eol_page_id_y             115564\n",
+       "Medium Source URL         614089\n",
+       "EOL Full-Size Copy URL    614475\n",
+       "License Name                  10\n",
        "Copyright Owner                0\n",
        "dtype: int64"
       ]
      },
+     "execution_count": 29,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "eol_df_media.loc[eol_df_media[\"Copyright Owner\"].isna()].nunique()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "The missing info is distributed across 116,609 pages.\n",
+    "\n",
+    "There also seems to be a discrepancy in the number of page IDs between these. This lead to duplicated records...definitely something's off."
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "Check consistency of merge when matching both `eol_content_id` and `eol_page_id`."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 19,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "media.rename(columns = {\"EOL page ID\": \"eol_page_id\"}, inplace = True)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 20,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "merge_cols = [\"eol_content_id\", \"eol_page_id\"]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 31,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "RangeIndex: 6163903 entries, 0 to 6163902\n",
+      "Data columns (total 7 columns):\n",
+      " #   Column                  Non-Null Count    Dtype \n",
+      "---  ------                  --------------    ----- \n",
+      " 0   treeoflife_id           6163903 non-null  object\n",
+      " 1   eol_content_id          6163903 non-null  int64 \n",
+      " 2   eol_page_id             6163903 non-null  int64 \n",
+      " 3   Medium Source URL       6163903 non-null  object\n",
+      " 4   EOL Full-Size Copy URL  6163903 non-null  object\n",
+      " 5   License Name            6163903 non-null  object\n",
+      " 6   Copyright Owner         5549428 non-null  object\n",
+      "dtypes: int64(2), object(5)\n",
+      "memory usage: 329.2+ MB\n"
+     ]
+    }
+   ],
+   "source": [
+    "eol_df_media_cp = pd.merge(eol_license_df, media, how = \"inner\", left_on = merge_cols, right_on = merge_cols)\n",
+    "eol_df_media_cp.info(show_counts = True)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "Okay, so we do have a mis-match of about 113K images where the content IDs and page IDs don't both match."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 32,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "eol_df_media_cp.to_csv(\"../data/eol_files/eol_cp_match_media.csv\", index = False)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 33,
+   "metadata": {},
+   "outputs": [
+    {
+     "data": {
+      "text/plain": [
+       "['f2f0aa29-e87b-469c-bf5b-51a3611ab001',\n",
+       " '5faa4f55-32e9-4872-953d-567e5d232e52',\n",
+       " '2282f2bf-2b52-4522-b588-dd6f356d5fd6',\n",
+       " '76b57c36-2181-4e6d-a5c4-b40e22a09449',\n",
+       " 'f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2']"
+      ]
+     },
+     "execution_count": 33,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "tol_ids_in_media = list(eol_df_media_cp.treeoflife_id)\n",
+    "tol_ids_in_media[:5]"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 34,
+   "metadata": {},
+   "outputs": [
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>treeoflife_id</th>\n",
+       "      <th>eol_content_id</th>\n",
+       "      <th>eol_page_id</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>0</th>\n",
+       "      <td>f2f0aa29-e87b-469c-bf5b-51a3611ab001</td>\n",
+       "      <td>22131926</td>\n",
+       "      <td>269504</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>1</th>\n",
+       "      <td>5faa4f55-32e9-4872-953d-567e5d232e52</td>\n",
+       "      <td>22291283</td>\n",
+       "      <td>6101931</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>2</th>\n",
+       "      <td>2282f2bf-2b52-4522-b588-dd6f356d5fd6</td>\n",
+       "      <td>21802775</td>\n",
+       "      <td>45513632</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>3</th>\n",
+       "      <td>76b57c36-2181-4e6d-a5c4-b40e22a09449</td>\n",
+       "      <td>12784812</td>\n",
+       "      <td>51655800</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>4</th>\n",
+       "      <td>f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2</td>\n",
+       "      <td>29713643</td>\n",
+       "      <td>45515896</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "                          treeoflife_id  eol_content_id  eol_page_id\n",
+       "0  f2f0aa29-e87b-469c-bf5b-51a3611ab001        22131926       269504\n",
+       "1  5faa4f55-32e9-4872-953d-567e5d232e52        22291283      6101931\n",
+       "2  2282f2bf-2b52-4522-b588-dd6f356d5fd6        21802775     45513632\n",
+       "3  76b57c36-2181-4e6d-a5c4-b40e22a09449        12784812     51655800\n",
+       "4  f57d3ab6-2cf5-484b-a590-e2a3d49a3ca2        29713643     45515896"
+      ]
+     },
      "execution_count": 34,
      "metadata": {},
      "output_type": "execute_result"
     }
    ],
    "source": [
-    "eol_df_media.loc[eol_df_media[\"Medium Source URL\"].isna()].nunique()"
+    "eol_license_df.head()"
    ]
   },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "The missing info is distributed across 9,762 pages."
+    "Let's save a copy of the EOL section with content and page IDs that are mismatched."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 35,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "Index: 113471 entries, 126 to 6277290\n",
+      "Data columns (total 3 columns):\n",
+      " #   Column          Non-Null Count   Dtype \n",
+      "---  ------          --------------   ----- \n",
+      " 0   treeoflife_id   113471 non-null  object\n",
+      " 1   eol_content_id  113471 non-null  int64 \n",
+      " 2   eol_page_id     113471 non-null  int64 \n",
+      "dtypes: int64(2), object(1)\n",
+      "memory usage: 3.5+ MB\n"
+     ]
+    }
+   ],
+   "source": [
+    "eol_df_missing_media = eol_license_df.loc[~eol_license_df.treeoflife_id.isin(tol_ids_in_media)]\n",
+    "eol_df_missing_media.info(show_counts = True)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 36,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "eol_df_missing_media.to_csv(\"../data/eol_files/eol_cp_not_media.csv\", index = False)"
    ]
   },
   {
@@ -1209,7 +1406,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "cat_df = pd.read_csv(\"../data/catalog.csv\", dtype = {\"eol_content_id\": \"int64\", \"eol_page_id\": \"int64\"}, low_memory = False)\n",
+    "cat_df = pd.read_csv(\"../data/catalog.csv\", low_memory = False)\n",
     "# Remove duplicates in train_small\n",
     "cat_df = cat_df.loc[cat_df.split != 'train_small']"
    ]

notebooks/ToL_license_check.py

@@ -24,7 +24,7 @@ sns.set(rc = {'figure.figsize': (10,10)})
 # Load in full images to ease process.
 
 # %%
-df = pd.read_csv("../data/predicted-catalog.csv", dtype = {"eol_content_id": "int64", "eol_page_id": "int64"}, low_memory = False)
+df = pd.read_csv("../data/predicted-catalog.csv", low_memory = False)
 
 # %%
 df.head()
@@ -81,9 +81,22 @@ eol_license_df.head()
 media = pd.read_csv("../data/media_manifest (july 26).csv", dtype = {"EOL content ID": "int64", "EOL page ID": "int64"}, low_memory = False)
 media.info(show_counts = True)
 
+# %%
+# Read eol license df back in with type int64 for ID columns
+eol_license_df = pd.read_csv("../data/eol_files/eol_licenses.csv", 
+                             dtype = {"eol_content_id": "int64", "eol_page_id": "int64"}, 
+                             low_memory = False)
+
 # %%
 eol_license_df.shape
 
+# %%
+eol_df = eol_df.astype({"eol_content_id": "int64", "eol_page_id": "int64"})
+eol_df.info()
+
+# %%
+eol_license_df = eol_df[eol_license_cols]
+
 # %% [markdown]
 # Notice that we have about 300K more entries in the media manifest, which is about expected from the [comparison of predicted-catalog to the original full list](https://huggingface.co/datasets/imageomics/ToL-EDA/blob/main/notebooks/ToL_predicted-catalog_EDA.ipynb).
 
@@ -97,16 +110,54 @@ eol_df_media = pd.merge(eol_license_df, media, how = "left", on = "eol_content_i
 eol_df_media.info(show_counts = True)
 
 # %% [markdown]
-# Clearly we have about 113K images whose content ID's are not in the media manifest, and thus we're missing the URL and license info.
+# We have about 620K images missing copyright owner.
 
 # %%
 eol_df_media.head()
 
 # %%
-eol_df_media.loc[eol_df_media["Medium Source URL"].isna()].nunique()
+eol_df_media.loc[eol_df_media["Copyright Owner"].isna()].nunique()
 
 # %% [markdown]
-# The missing info is distributed across 9,762 pages.
+# The missing info is distributed across 116,609 pages.
+#
+# There also seems to be a discrepancy in the number of page IDs between these. This lead to duplicated records...definitely something's off.
+
+# %% [markdown]
+# Check consistency of merge when matching both `eol_content_id` and `eol_page_id`.
+
+# %%
+media.rename(columns = {"EOL page ID": "eol_page_id"}, inplace = True)
+
+# %%
+merge_cols = ["eol_content_id", "eol_page_id"]
+
+# %%
+eol_df_media_cp = pd.merge(eol_license_df, media, how = "inner", left_on = merge_cols, right_on = merge_cols)
+eol_df_media_cp.info(show_counts = True)
+
+# %% [markdown]
+# Okay, so we do have a mis-match of about 113K images where the content IDs and page IDs don't both match.
+
+# %%
+eol_df_media_cp.to_csv("../data/eol_files/eol_cp_match_media.csv", index = False)
+
+# %%
+tol_ids_in_media = list(eol_df_media_cp.treeoflife_id)
+tol_ids_in_media[:5]
+
+# %%
+eol_license_df.head()
+
+# %% [markdown]
+# Let's save a copy of the EOL section with content and page IDs that are mismatched.
+
+# %%
+eol_df_missing_media = eol_license_df.loc[~eol_license_df.treeoflife_id.isin(tol_ids_in_media)]
+eol_df_missing_media.info(show_counts = True)
+
+# %%
+eol_df_missing_media.to_csv("../data/eol_files/eol_cp_not_media.csv", index = False)
 
 # %% [markdown]
 # ### Save Record of Missing Content IDs & Compare to Older Media Manifest
@@ -143,7 +194,7 @@ eol_df_media_old.info(show_counts = True)
 # Let's see if these are all images in TreeOfLife-10M, or a mix between it and Rare Species.
 
 # %%
-cat_df = pd.read_csv("../data/catalog.csv", dtype = {"eol_content_id": "int64", "eol_page_id": "int64"}, low_memory = False)
+cat_df = pd.read_csv("../data/catalog.csv", low_memory = False)
 # Remove duplicates in train_small
 cat_df = cat_df.loc[cat_df.split != 'train_small']