Compare content IDs from Media Cargo (all downloaded images).

notebooks/ToL_license_check.ipynb

@@ -29,7 +29,7 @@
      "name": "stderr",
      "output_type": "stream",
      "text": [
-      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_74901/4112647395.py:1: DtypeWarning: Columns (5,6,7,14,15) have mixed types. Specify dtype option on import or set low_memory=False.\n",
+      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_59620/4112647395.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"
      ]
     }
@@ -290,7 +290,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 5,
+   "execution_count": 3,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -309,7 +309,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 6,
+   "execution_count": 4,
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    "source": [
@@ -527,7 +527,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 9,
+   "execution_count": 5,
    "metadata": {},
    "outputs": [
     {
@@ -536,7 +536,7 @@
        "Index(['treeoflife_id', 'eol_content_id', 'eol_page_id'], dtype='object')"
       ]
      },
-     "execution_count": 9,
+     "execution_count": 5,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -548,7 +548,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 10,
+   "execution_count": 22,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -659,14 +659,14 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 13,
+   "execution_count": 6,
    "metadata": {},
    "outputs": [
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
-      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_74901/2809897267.py:1: DtypeWarning: Columns (5) have mixed types. Specify dtype option on import or set low_memory=False.\n",
+      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_59620/2809897267.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"
      ]
     },
@@ -724,7 +724,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 16,
+   "execution_count": 7,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -733,7 +733,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 20,
+   "execution_count": 23,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -958,128 +958,9 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 23,
+   "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",
-       "      <th>EOL page ID</th>\n",
-       "      <th>Medium Source URL</th>\n",
-       "      <th>EOL Full-Size Copy URL</th>\n",
-       "      <th>License Name</th>\n",
-       "      <th>Copyright Owner</th>\n",
-       "    </tr>\n",
-       "  </thead>\n",
-       "  <tbody>\n",
-       "    <tr>\n",
-       "      <th>126</th>\n",
-       "      <td>4b56e165-c4d5-49f9-a321-ac9474d099f3</td>\n",
-       "      <td>2753529.0</td>\n",
-       "      <td>1225965.0</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>174</th>\n",
-       "      <td>421678a0-c8ec-43c8-815c-fc5888835068</td>\n",
-       "      <td>16288.0</td>\n",
-       "      <td>45514264.0</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>177</th>\n",
-       "      <td>be81bd8c-16a7-4911-8279-431245d67195</td>\n",
-       "      <td>2730639.0</td>\n",
-       "      <td>1034220.0</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>259</th>\n",
-       "      <td>fc765c82-84e6-437e-b9a5-1c7601c5be81</td>\n",
-       "      <td>2717906.0</td>\n",
-       "      <td>1052077.0</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "    </tr>\n",
-       "    <tr>\n",
-       "      <th>322</th>\n",
-       "      <td>8c1e6878-47ac-4f7b-8475-73e71c0e99c3</td>\n",
-       "      <td>2836995.0</td>\n",
-       "      <td>957074.0</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "      <td>NaN</td>\n",
-       "    </tr>\n",
-       "  </tbody>\n",
-       "</table>\n",
-       "</div>"
-      ],
-      "text/plain": [
-       "                            treeoflife_id  eol_content_id  eol_page_id   \n",
-       "126  4b56e165-c4d5-49f9-a321-ac9474d099f3       2753529.0    1225965.0  \\\n",
-       "174  421678a0-c8ec-43c8-815c-fc5888835068         16288.0   45514264.0   \n",
-       "177  be81bd8c-16a7-4911-8279-431245d67195       2730639.0    1034220.0   \n",
-       "259  fc765c82-84e6-437e-b9a5-1c7601c5be81       2717906.0    1052077.0   \n",
-       "322  8c1e6878-47ac-4f7b-8475-73e71c0e99c3       2836995.0     957074.0   \n",
-       "\n",
-       "     EOL page ID Medium Source URL EOL Full-Size Copy URL License Name   \n",
-       "126          NaN               NaN                    NaN          NaN  \\\n",
-       "174          NaN               NaN                    NaN          NaN   \n",
-       "177          NaN               NaN                    NaN          NaN   \n",
-       "259          NaN               NaN                    NaN          NaN   \n",
-       "322          NaN               NaN                    NaN          NaN   \n",
-       "\n",
-       "    Copyright Owner  \n",
-       "126             NaN  \n",
-       "174             NaN  \n",
-       "177             NaN  \n",
-       "259             NaN  \n",
-       "322             NaN  "
-      ]
-     },
-     "execution_count": 23,
-     "metadata": {},
-     "output_type": "execute_result"
-    }
-   ],
+   "outputs": [],
    "source": [
     "eol_missing_content_ids = eol_df_media.loc[eol_df_media[\"Medium Source URL\"].isna()]\n",
     "eol_missing_content_ids.head()"
@@ -1205,7 +1086,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 29,
+   "execution_count": 9,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -1216,7 +1097,7 @@
   },
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@@ -1228,7 +1109,7 @@
   },
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@@ -1237,7 +1118,7 @@
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     {
@@ -1320,7 +1201,7 @@
   },
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@@ -1331,7 +1212,7 @@
   },
   {
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-   "execution_count": 39,
+   "execution_count": 14,
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@@ -1341,7 +1222,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 36,
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    "source": [
@@ -1350,7 +1231,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 37,
+   "execution_count": 16,
    "metadata": {},
    "outputs": [
     {
@@ -1375,7 +1256,7 @@
        "dtype: int64"
       ]
      },
-     "execution_count": 37,
+     "execution_count": 16,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -1688,7 +1569,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 38,
+   "execution_count": 17,
    "metadata": {},
    "outputs": [
     {
@@ -1713,7 +1594,7 @@
        "dtype: int64"
       ]
      },
-     "execution_count": 38,
+     "execution_count": 17,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -1929,6 +1810,284 @@
     "eol_cat_df_taxa_media.loc[eol_cat_df_taxa_media[\"Medium Source URL\"].isna()].sample(4)"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "## Compare Media Cargo\n",
+    "Media cargo is all images we downloaded from EOL 29 July 2023, so should match to `predicted-catalog`."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 19,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "RangeIndex: 6724838 entries, 0 to 6724837\n",
+      "Data columns (total 3 columns):\n",
+      " #   Column          Non-Null Count    Dtype \n",
+      "---  ------          --------------    ----- \n",
+      " 0   EOL content ID  6724838 non-null  int64 \n",
+      " 1   EOL page ID     6724838 non-null  int64 \n",
+      " 2   URL Type        6724838 non-null  object\n",
+      "dtypes: int64(2), object(1)\n",
+      "memory usage: 153.9+ MB\n"
+     ]
+    }
+   ],
+   "source": [
+    "cargo = pd.read_csv(\"../data/eol_media_cargo_names.csv\")\n",
+    "cargo.info(show_counts = True)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 20,
+   "metadata": {},
+   "outputs": [
+    {
+     "data": {
+      "text/plain": [
+       "EOL content ID    6724838\n",
+       "EOL page ID        580866\n",
+       "URL Type                1\n",
+       "dtype: int64"
+      ]
+     },
+     "execution_count": 20,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "cargo.nunique()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 21,
+   "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>EOL content ID</th>\n",
+       "      <th>EOL page ID</th>\n",
+       "      <th>URL Type</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>0</th>\n",
+       "      <td>29538374</td>\n",
+       "      <td>65414274</td>\n",
+       "      <td>eol-full-size-copy</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>1</th>\n",
+       "      <td>27793900</td>\n",
+       "      <td>888015</td>\n",
+       "      <td>eol-full-size-copy</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>2</th>\n",
+       "      <td>29121641</td>\n",
+       "      <td>5618956</td>\n",
+       "      <td>eol-full-size-copy</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>3</th>\n",
+       "      <td>27596176</td>\n",
+       "      <td>607817</td>\n",
+       "      <td>eol-full-size-copy</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>4</th>\n",
+       "      <td>20300703</td>\n",
+       "      <td>267922</td>\n",
+       "      <td>eol-full-size-copy</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "   EOL content ID  EOL page ID            URL Type\n",
+       "0        29538374     65414274  eol-full-size-copy\n",
+       "1        27793900       888015  eol-full-size-copy\n",
+       "2        29121641      5618956  eol-full-size-copy\n",
+       "3        27596176       607817  eol-full-size-copy\n",
+       "4        20300703       267922  eol-full-size-copy"
+      ]
+     },
+     "execution_count": 21,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "cargo.head()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 24,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "cargo.rename(columns = {\"EOL content ID\": \"eol_content_id\"}, inplace = True)\n",
+    "eol_df_cargo = pd.merge(eol_license_df, cargo, how = \"left\", on = \"eol_content_id\")"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 25,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "RangeIndex: 6277374 entries, 0 to 6277373\n",
+      "Data columns (total 5 columns):\n",
+      " #   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     6276741 non-null  float64\n",
+      " 4   URL Type        6276741 non-null  object \n",
+      "dtypes: float64(3), object(2)\n",
+      "memory usage: 239.5+ MB\n"
+     ]
+    }
+   ],
+   "source": [
+    "eol_df_cargo.info(show_counts = True)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "There seem to be 633 images here that aren't listed in the media cargo.\n",
+    "\n",
+    "What about in catalog?"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 27,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "RangeIndex: 6250420 entries, 0 to 6250419\n",
+      "Data columns (total 5 columns):\n",
+      " #   Column          Non-Null Count    Dtype  \n",
+      "---  ------          --------------    -----  \n",
+      " 0   treeoflife_id   6250420 non-null  object \n",
+      " 1   eol_content_id  6250420 non-null  float64\n",
+      " 2   eol_page_id     6250420 non-null  float64\n",
+      " 3   EOL page ID     6249787 non-null  float64\n",
+      " 4   URL Type        6249787 non-null  object \n",
+      "dtypes: float64(3), object(2)\n",
+      "memory usage: 238.4+ MB\n"
+     ]
+    }
+   ],
+   "source": [
+    "eol_cat_cargo = pd.merge(eol_cat_df[eol_license_cols], cargo, how = \"left\", on = \"eol_content_id\")\n",
+    "eol_cat_cargo.info(show_counts = True)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "Still missing 633 images...so we know it's not part of the Rare Species dataset, but is TreeOfLife-10M..."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 26,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "RangeIndex: 6574224 entries, 0 to 6574223\n",
+      "Data columns (total 8 columns):\n",
+      " #   Column                  Non-Null Count    Dtype  \n",
+      "---  ------                  --------------    -----  \n",
+      " 0   eol_content_id          6574224 non-null  int64  \n",
+      " 1   EOL page ID_x           6547356 non-null  float64\n",
+      " 2   URL Type                6547356 non-null  object \n",
+      " 3   EOL page ID_y           6574224 non-null  int64  \n",
+      " 4   Medium Source URL       6574222 non-null  object \n",
+      " 5   EOL Full-Size Copy URL  6574224 non-null  object \n",
+      " 6   License Name            6574224 non-null  object \n",
+      " 7   Copyright Owner         5942181 non-null  object \n",
+      "dtypes: float64(1), int64(2), object(5)\n",
+      "memory usage: 401.3+ MB\n"
+     ]
+    }
+   ],
+   "source": [
+    "media_in_cargo = pd.merge(cargo, media, how = \"right\", on = \"eol_content_id\")\n",
+    "media_in_cargo.info(show_counts = True)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "But there are 26,868 images in media manifest that are not in cargo (or at least the content ID's aren't), despite the media cargo having 154K more images listed."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  },
   {
    "cell_type": "markdown",
    "metadata": {},

notebooks/ToL_license_check.py

@@ -217,6 +217,50 @@ eol_cat_df_taxa_media.loc[eol_cat_df_taxa_media["Medium Source URL"].isna()].inf
 # %%
 eol_cat_df_taxa_media.loc[eol_cat_df_taxa_media["Medium Source URL"].isna()].sample(4)
 
+# %% [markdown]
+# ## Compare Media Cargo
+# Media cargo is all images we downloaded from EOL 29 July 2023, so should match to `predicted-catalog`.
+
+# %%
+cargo = pd.read_csv("../data/eol_media_cargo_names.csv")
+cargo.info(show_counts = True)
+
+# %%
+cargo.nunique()
+
+# %%
+cargo.head()
+
+# %%
+cargo.rename(columns = {"EOL content ID": "eol_content_id"}, inplace = True)
+eol_df_cargo = pd.merge(eol_license_df, cargo, how = "left", on = "eol_content_id")
+
+# %%
+eol_df_cargo.info(show_counts = True)
+
+# %% [markdown]
+# There seem to be 633 images here that aren't listed in the media cargo.
+#
+# What about in catalog?
+
+# %%
+eol_cat_cargo = pd.merge(eol_cat_df[eol_license_cols], cargo, how = "left", on = "eol_content_id")
+eol_cat_cargo.info(show_counts = True)
+
+# %% [markdown]
+# Still missing 633 images...so we know it's not part of the Rare Species dataset, but is TreeOfLife-10M...
+
+# %%
+media_in_cargo = pd.merge(cargo, media, how = "right", on = "eol_content_id")
+media_in_cargo.info(show_counts = True)
+
+# %% [markdown]
+# But there are 26,868 images in media manifest that are not in cargo (or at least the content ID's aren't), despite the media cargo having 154K more images listed.
+
+# %%
+
+# %%
+
 # %% [markdown]
 # ## Check EOL License file(s) 
 #