Add license urls to rare species full manifest and deduplicate it

eol_realign/notebooks/links_rs_duplicates.ipynb

@@ -1503,13 +1503,13 @@
     {
      "data": {
       "text/plain": [
-       "7641      21639306_1055460_eol-full-size-copy.jpg\n",
-       "3186      21232824_1033999_eol-full-size-copy.jpg\n",
-       "9772     28219369_45276311_eol-full-size-copy.jpg\n",
-       "8800     21001015_46581467_eol-full-size-copy.jpg\n",
-       "1724     29548217_47043290_eol-full-size-copy.jpg\n",
-       "11405    12308195_45513587_eol-full-size-copy.jpg\n",
-       "4801      29986916_1177988_eol-full-size-copy.jpg\n",
+       "7228     30077892_46559947_eol-full-size-copy.jpg\n",
+       "10774    29485438_46559780_eol-full-size-copy.jpg\n",
+       "60         28672110_795859_eol-full-size-copy.jpg\n",
+       "1640     12835827_46454284_eol-full-size-copy.jpg\n",
+       "536      22066842_45511093_eol-full-size-copy.jpg\n",
+       "5669       20495364_205910_eol-full-size-copy.jpg\n",
+       "3543     13992854_45518912_eol-full-size-copy.jpg\n",
        "Name: file_name, dtype: object"
       ]
      },
@@ -1783,7 +1783,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 16,
+   "execution_count": 13,
    "metadata": {},
    "outputs": [
     {
@@ -1856,7 +1856,7 @@
        "1  Thomas J. Walker/Singing Insects of North America  "
       ]
      },
-     "execution_count": 16,
+     "execution_count": 13,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -1877,7 +1877,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 17,
+   "execution_count": 14,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -1893,7 +1893,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 18,
+   "execution_count": 15,
    "metadata": {},
    "outputs": [
     {
@@ -1910,7 +1910,7 @@
        "dtype: int64"
       ]
      },
-     "execution_count": 18,
+     "execution_count": 15,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -1932,7 +1932,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 19,
+   "execution_count": 16,
    "metadata": {},
    "outputs": [
     {
@@ -1941,7 +1941,7 @@
        "400"
       ]
      },
-     "execution_count": 19,
+     "execution_count": 16,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -1953,7 +1953,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 22,
+   "execution_count": 17,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -1967,7 +1967,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 26,
+   "execution_count": 18,
    "metadata": {},
    "outputs": [
     {
@@ -1994,7 +1994,7 @@
        "dtype: int64"
       ]
      },
-     "execution_count": 26,
+     "execution_count": 18,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2006,14 +2006,14 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 27,
+   "execution_count": 19,
    "metadata": {},
    "outputs": [
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
-      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_96431/4189562674.py:6: SettingWithCopyWarning: \n",
+      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_11036/4189562674.py:6: SettingWithCopyWarning: \n",
       "A value is trying to be set on a copy of a slice from a DataFrame.\n",
       "Try using .loc[row_indexer,col_indexer] = value instead\n",
       "\n",
@@ -2046,7 +2046,7 @@
        "dtype: int64"
       ]
      },
-     "execution_count": 27,
+     "execution_count": 19,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2063,7 +2063,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 28,
+   "execution_count": 20,
    "metadata": {},
    "outputs": [
     {
@@ -2080,7 +2080,7 @@
        " 'copyright_owner']"
       ]
      },
-     "execution_count": 28,
+     "execution_count": 20,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2092,7 +2092,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 29,
+   "execution_count": 21,
    "metadata": {},
    "outputs": [
     {
@@ -2104,7 +2104,7 @@
        "      dtype='object')"
       ]
      },
-     "execution_count": 29,
+     "execution_count": 21,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2129,7 +2129,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 30,
+   "execution_count": 22,
    "metadata": {},
    "outputs": [
     {
@@ -2266,7 +2266,7 @@
        "4  User:Winnerhominid    30025399_333429  "
       ]
      },
-     "execution_count": 30,
+     "execution_count": 22,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2278,7 +2278,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 31,
+   "execution_count": 23,
    "metadata": {},
    "outputs": [
     {
@@ -2296,7 +2296,7 @@
        "dtype: int64"
       ]
      },
-     "execution_count": 31,
+     "execution_count": 23,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2308,7 +2308,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 32,
+   "execution_count": 24,
    "metadata": {},
    "outputs": [
     {
@@ -2317,7 +2317,7 @@
        "(25515, 9)"
       ]
      },
-     "execution_count": 32,
+     "execution_count": 24,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2328,7 +2328,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 33,
+   "execution_count": 25,
    "metadata": {},
    "outputs": [
     {
@@ -2337,7 +2337,7 @@
        "25515"
       ]
      },
-     "execution_count": 33,
+     "execution_count": 25,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2356,7 +2356,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 34,
+   "execution_count": 26,
    "metadata": {},
    "outputs": [
     {
@@ -2402,7 +2402,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 36,
+   "execution_count": 27,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -2411,7 +2411,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 37,
+   "execution_count": 28,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -2475,7 +2475,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 38,
+   "execution_count": 29,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -2486,14 +2486,30 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 39,
+   "execution_count": 30,
    "metadata": {},
    "outputs": [
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
-      "100%|██████████| 3445/3445 [01:23<00:00, 41.25it/s]\n"
+      "  0%|          | 0/3188 [00:00<?, ?it/s]/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_11036/1896888662.py:25: SettingWithCopyWarning: \n",
+      "A value is trying to be set on a copy of a slice from a DataFrame.\n",
+      "Try using .loc[row_indexer,col_indexer] = value instead\n",
+      "\n",
+      "See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy\n",
+      "  manifest.loc[manifest[\"combined_id\"] == comb_id, \"title\"] = title\n",
+      "100%|██████████| 3188/3188 [01:03<00:00, 50.47it/s]\n",
+      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_11036/1896888662.py:36: SettingWithCopyWarning: \n",
+      "A value is trying to be set on a copy of a slice from a DataFrame\n",
+      "\n",
+      "See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy\n",
+      "  manifest[\"copyright_owner\"].fillna(\"not provided\", inplace=True)\n",
+      "/var/folders/nv/f0fq1p1n1_3b11x579py_0q80000gq/T/ipykernel_11036/1896888662.py:37: SettingWithCopyWarning: \n",
+      "A value is trying to be set on a copy of a slice from a DataFrame\n",
+      "\n",
+      "See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy\n",
+      "  manifest[\"title\"].fillna(\"not provided\", inplace=True)\n"
      ]
     },
     {
@@ -2503,34 +2519,34 @@
       "Licenses still missing Copyright Owners: \n",
       " Series([], Name: count, dtype: int64)\n",
       "<class 'pandas.core.frame.DataFrame'>\n",
-      "RangeIndex: 25515 entries, 0 to 25514\n",
+      "Index: 22146 entries, 0 to 25513\n",
       "Data columns (total 11 columns):\n",
       " #   Column                  Non-Null Count  Dtype \n",
       "---  ------                  --------------  ----- \n",
-      " 0   filename                25515 non-null  object\n",
-      " 1   md5                     25515 non-null  object\n",
-      " 2   combined_id             25515 non-null  object\n",
-      " 3   eol_content_id          25515 non-null  int64 \n",
-      " 4   eol_page_id             25515 non-null  int64 \n",
-      " 5   medium_source_url       25515 non-null  object\n",
-      " 6   eol_full_size_copy_url  25515 non-null  object\n",
-      " 7   license_name            25515 non-null  object\n",
-      " 8   copyright_owner         25515 non-null  object\n",
-      " 9   duplicate_img           25515 non-null  bool  \n",
-      " 10  title                   25515 non-null  object\n",
+      " 0   filename                22146 non-null  object\n",
+      " 1   md5                     22146 non-null  object\n",
+      " 2   combined_id             22146 non-null  object\n",
+      " 3   eol_content_id          22146 non-null  int64 \n",
+      " 4   eol_page_id             22146 non-null  int64 \n",
+      " 5   medium_source_url       22146 non-null  object\n",
+      " 6   eol_full_size_copy_url  22146 non-null  object\n",
+      " 7   license_name            22146 non-null  object\n",
+      " 8   copyright_owner         22146 non-null  object\n",
+      " 9   duplicate_img           22146 non-null  bool  \n",
+      " 10  title                   22146 non-null  object\n",
       "dtypes: bool(1), int64(2), object(8)\n",
-      "memory usage: 2.0+ MB\n"
+      "memory usage: 1.9+ MB\n"
      ]
     }
    ],
    "source": [
-    "complete_rs_manifest = update_owners(rs_full_manifest, owner_df)\n",
+    "complete_rs_manifest = update_owners(rs_full_manifest_unique, owner_df)\n",
     "complete_rs_manifest.info(show_counts = True)"
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 41,
+   "execution_count": 31,
    "metadata": {},
    "outputs": [
     {
@@ -2539,7 +2555,7 @@
        "(0, 11)"
       ]
      },
-     "execution_count": 41,
+     "execution_count": 31,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2550,7 +2566,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 42,
+   "execution_count": 32,
    "metadata": {},
    "outputs": [
     {
@@ -2589,100 +2605,100 @@
        "  </thead>\n",
        "  <tbody>\n",
        "    <tr>\n",
-       "      <th>8370</th>\n",
-       "      <td>20495363_205910_eol-full-size-copy.jpg</td>\n",
-       "      <td>02518241540a9b717a098a0f35f853c9</td>\n",
-       "      <td>20495363_205910</td>\n",
-       "      <td>20495363</td>\n",
-       "      <td>205910</td>\n",
-       "      <td>https://inaturalist-open-data.s3.amazonaws.com...</td>\n",
-       "      <td>https://content.eol.org/data/media/7d/a4/a9/18...</td>\n",
-       "      <td>cc-by-nc-4.0</td>\n",
-       "      <td>Daniel Walchak</td>\n",
+       "      <th>1371</th>\n",
+       "      <td>30052484_308387_eol-full-size-copy.jpg</td>\n",
+       "      <td>39bea196c9335a93a937327f04e58729</td>\n",
+       "      <td>30052484_308387</td>\n",
+       "      <td>30052484</td>\n",
+       "      <td>308387</td>\n",
+       "      <td>https://upload.wikimedia.org/wikipedia/commons...</td>\n",
+       "      <td>https://content.eol.org/data/media/64/58/c6/50...</td>\n",
+       "      <td>cc-by-sa-3.0</td>\n",
+       "      <td>['BotMultichillT']</td>\n",
        "      <td>False</td>\n",
-       "      <td>not provided</td>\n",
+       "      <td>['Okapia johnstoni5.jpg']</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>11874</th>\n",
-       "      <td>22248380_45512569_eol-full-size-copy.jpg</td>\n",
-       "      <td>4eede758a376ce5e92836482e7efc85f</td>\n",
-       "      <td>22248380_45512569</td>\n",
-       "      <td>22248380</td>\n",
-       "      <td>45512569</td>\n",
-       "      <td>https://inaturalist-open-data.s3.amazonaws.com...</td>\n",
-       "      <td>https://content.eol.org/data/media/60/0f/4f/18...</td>\n",
-       "      <td>cc-by-nc-4.0</td>\n",
-       "      <td>Pete Woodall</td>\n",
+       "      <th>2524</th>\n",
+       "      <td>29389820_1179513_eol-full-size-copy.jpg</td>\n",
+       "      <td>ad70ce70b54302f80a78035e52c5552c</td>\n",
+       "      <td>29389820_1179513</td>\n",
+       "      <td>29389820</td>\n",
+       "      <td>1179513</td>\n",
+       "      <td>https://upload.wikimedia.org/wikipedia/commons...</td>\n",
+       "      <td>https://content.eol.org/data/media/67/ce/e1/50...</td>\n",
+       "      <td>cc-by-sa-3.0</td>\n",
+       "      <td>Vera Buhl</td>\n",
        "      <td>False</td>\n",
        "      <td>not provided</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>1886</th>\n",
-       "      <td>28214510_1065290_eol-full-size-copy.jpg</td>\n",
-       "      <td>c3ebf53a240a9652974ee157f0fd36ce</td>\n",
-       "      <td>28214510_1065290</td>\n",
-       "      <td>28214510</td>\n",
-       "      <td>1065290</td>\n",
-       "      <td>http://n2t.net/ark:/65665/m3932608a2-1400-41ca...</td>\n",
-       "      <td>https://content.eol.org/data/media/17/bc/fb/53...</td>\n",
+       "      <th>4327</th>\n",
+       "      <td>28221214_45276460_eol-full-size-copy.jpg</td>\n",
+       "      <td>d0188bee1b8e37f0e590221e37aeb8bf</td>\n",
+       "      <td>28221214_45276460</td>\n",
+       "      <td>28221214</td>\n",
+       "      <td>45276460</td>\n",
+       "      <td>http://n2t.net/ark:/65665/m3ae98ac6e-dd63-48bf...</td>\n",
+       "      <td>https://content.eol.org/data/media/15/8b/b0/53...</td>\n",
        "      <td>cc-0-1.0</td>\n",
-       "      <td>['Smithsonian Institution, NMNH, Entomology | ...</td>\n",
+       "      <td>['Smithsonian Institution, NMNH, Invertebrate ...</td>\n",
        "      <td>False</td>\n",
-       "      <td>['USNMENT01005704']</td>\n",
+       "      <td>['IZ COE 86556 whole colony top view']</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>5155</th>\n",
-       "      <td>22920640_337659_eol-full-size-copy.jpg</td>\n",
-       "      <td>ea2e5d758ae30cd262dc4b3ae28fdc2a</td>\n",
-       "      <td>22920640_337659</td>\n",
-       "      <td>22920640</td>\n",
-       "      <td>337659</td>\n",
-       "      <td>https://inaturalist-open-data.s3.amazonaws.com...</td>\n",
-       "      <td>https://content.eol.org/data/media/7e/3a/51/18...</td>\n",
-       "      <td>cc-by-nc-4.0</td>\n",
-       "      <td>Frédéric Dupont</td>\n",
+       "      <th>14687</th>\n",
+       "      <td>14681519_403723_eol-full-size-copy.jpg</td>\n",
+       "      <td>d1851dd3f010c509f719e044b8826dc9</td>\n",
+       "      <td>14681519_403723</td>\n",
+       "      <td>14681519</td>\n",
+       "      <td>403723</td>\n",
+       "      <td>https://www.antweb.org/images/casent0901314/ca...</td>\n",
+       "      <td>https://content.eol.org/data/media/bf/35/96/16...</td>\n",
+       "      <td>cc-by-nc-sa-4.0</td>\n",
+       "      <td>California Academy of Sciences</td>\n",
        "      <td>False</td>\n",
        "      <td>not provided</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>11553</th>\n",
-       "      <td>28935292_45509477_eol-full-size-copy.jpg</td>\n",
-       "      <td>fcbda3cc5b689a3f9c226b764922f259</td>\n",
-       "      <td>28935292_45509477</td>\n",
-       "      <td>28935292</td>\n",
-       "      <td>45509477</td>\n",
+       "      <th>5319</th>\n",
+       "      <td>29844429_45511531_eol-full-size-copy.jpg</td>\n",
+       "      <td>0ea23bac2d7369f18bf14a78abf3e3e7</td>\n",
+       "      <td>29844429_45511531</td>\n",
+       "      <td>29844429</td>\n",
+       "      <td>45511531</td>\n",
        "      <td>https://upload.wikimedia.org/wikipedia/commons...</td>\n",
-       "      <td>https://content.eol.org/data/media/61/dd/01/50...</td>\n",
-       "      <td>cc-by-3.0</td>\n",
-       "      <td>Andy Reago &amp; Chrissy McClarren</td>\n",
+       "      <td>https://content.eol.org/data/media/5f/35/51/50...</td>\n",
+       "      <td>cc-by-sa-3.0</td>\n",
+       "      <td>Alastair Rae</td>\n",
        "      <td>False</td>\n",
        "      <td>not provided</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>14850</th>\n",
-       "      <td>29865978_4472389_eol-full-size-copy.jpg</td>\n",
-       "      <td>69c023667d2af01be30e7b25cf3d7d8f</td>\n",
-       "      <td>29865978_4472389</td>\n",
-       "      <td>29865978</td>\n",
-       "      <td>4472389</td>\n",
+       "      <th>10776</th>\n",
+       "      <td>28913280_330971_eol-full-size-copy.jpg</td>\n",
+       "      <td>f585a0ebce3aec60d30fb545ceedfe46</td>\n",
+       "      <td>28913280_330971</td>\n",
+       "      <td>28913280</td>\n",
+       "      <td>330971</td>\n",
        "      <td>https://upload.wikimedia.org/wikipedia/commons...</td>\n",
-       "      <td>https://content.eol.org/data/media/58/5d/86/50...</td>\n",
-       "      <td>cc-by-3.0</td>\n",
-       "      <td>Bart vanDorp</td>\n",
+       "      <td>https://content.eol.org/data/media/5f/ad/6c/50...</td>\n",
+       "      <td>cc-by-sa-3.0</td>\n",
+       "      <td>Stéphanie Bret</td>\n",
        "      <td>False</td>\n",
        "      <td>not provided</td>\n",
        "    </tr>\n",
        "    <tr>\n",
-       "      <th>10126</th>\n",
-       "      <td>28676500_1057160_eol-full-size-copy.jpg</td>\n",
-       "      <td>1a2058c0d416022a61788dda5d2f6096</td>\n",
-       "      <td>28676500_1057160</td>\n",
-       "      <td>28676500</td>\n",
-       "      <td>1057160</td>\n",
-       "      <td>http://mczbase.mcz.harvard.edu/specimen_images...</td>\n",
-       "      <td>https://content.eol.org/data/media/c7/e8/b0/26...</td>\n",
-       "      <td>cc-by-nc-sa-3.0</td>\n",
-       "      <td>Museum of Comparative Zoology, Harvard University</td>\n",
+       "      <th>22845</th>\n",
+       "      <td>14053938_336170_eol-full-size-copy.jpg</td>\n",
+       "      <td>2a652f57ca3b7dd4e7ad73ab6aef57fd</td>\n",
+       "      <td>14053938_336170</td>\n",
+       "      <td>14053938</td>\n",
+       "      <td>336170</td>\n",
+       "      <td>https://live.staticflickr.com/6045/6274545363_...</td>\n",
+       "      <td>https://content.eol.org/data/media/d8/8f/86/54...</td>\n",
+       "      <td>cc-by</td>\n",
+       "      <td>Brian Gratwicke</td>\n",
        "      <td>False</td>\n",
        "      <td>not provided</td>\n",
        "    </tr>\n",
@@ -2692,61 +2708,61 @@
       ],
       "text/plain": [
        "                                       filename  \\\n",
-       "8370     20495363_205910_eol-full-size-copy.jpg   \n",
-       "11874  22248380_45512569_eol-full-size-copy.jpg   \n",
-       "1886    28214510_1065290_eol-full-size-copy.jpg   \n",
-       "5155     22920640_337659_eol-full-size-copy.jpg   \n",
-       "11553  28935292_45509477_eol-full-size-copy.jpg   \n",
-       "14850   29865978_4472389_eol-full-size-copy.jpg   \n",
-       "10126   28676500_1057160_eol-full-size-copy.jpg   \n",
+       "1371     30052484_308387_eol-full-size-copy.jpg   \n",
+       "2524    29389820_1179513_eol-full-size-copy.jpg   \n",
+       "4327   28221214_45276460_eol-full-size-copy.jpg   \n",
+       "14687    14681519_403723_eol-full-size-copy.jpg   \n",
+       "5319   29844429_45511531_eol-full-size-copy.jpg   \n",
+       "10776    28913280_330971_eol-full-size-copy.jpg   \n",
+       "22845    14053938_336170_eol-full-size-copy.jpg   \n",
        "\n",
        "                                    md5        combined_id  eol_content_id  \\\n",
-       "8370   02518241540a9b717a098a0f35f853c9    20495363_205910        20495363   \n",
-       "11874  4eede758a376ce5e92836482e7efc85f  22248380_45512569        22248380   \n",
-       "1886   c3ebf53a240a9652974ee157f0fd36ce   28214510_1065290        28214510   \n",
-       "5155   ea2e5d758ae30cd262dc4b3ae28fdc2a    22920640_337659        22920640   \n",
-       "11553  fcbda3cc5b689a3f9c226b764922f259  28935292_45509477        28935292   \n",
-       "14850  69c023667d2af01be30e7b25cf3d7d8f   29865978_4472389        29865978   \n",
-       "10126  1a2058c0d416022a61788dda5d2f6096   28676500_1057160        28676500   \n",
+       "1371   39bea196c9335a93a937327f04e58729    30052484_308387        30052484   \n",
+       "2524   ad70ce70b54302f80a78035e52c5552c   29389820_1179513        29389820   \n",
+       "4327   d0188bee1b8e37f0e590221e37aeb8bf  28221214_45276460        28221214   \n",
+       "14687  d1851dd3f010c509f719e044b8826dc9    14681519_403723        14681519   \n",
+       "5319   0ea23bac2d7369f18bf14a78abf3e3e7  29844429_45511531        29844429   \n",
+       "10776  f585a0ebce3aec60d30fb545ceedfe46    28913280_330971        28913280   \n",
+       "22845  2a652f57ca3b7dd4e7ad73ab6aef57fd    14053938_336170        14053938   \n",
        "\n",
        "       eol_page_id                                  medium_source_url  \\\n",
-       "8370        205910  https://inaturalist-open-data.s3.amazonaws.com...   \n",
-       "11874     45512569  https://inaturalist-open-data.s3.amazonaws.com...   \n",
-       "1886       1065290  http://n2t.net/ark:/65665/m3932608a2-1400-41ca...   \n",
-       "5155        337659  https://inaturalist-open-data.s3.amazonaws.com...   \n",
-       "11553     45509477  https://upload.wikimedia.org/wikipedia/commons...   \n",
-       "14850      4472389  https://upload.wikimedia.org/wikipedia/commons...   \n",
-       "10126      1057160  http://mczbase.mcz.harvard.edu/specimen_images...   \n",
+       "1371        308387  https://upload.wikimedia.org/wikipedia/commons...   \n",
+       "2524       1179513  https://upload.wikimedia.org/wikipedia/commons...   \n",
+       "4327      45276460  http://n2t.net/ark:/65665/m3ae98ac6e-dd63-48bf...   \n",
+       "14687       403723  https://www.antweb.org/images/casent0901314/ca...   \n",
+       "5319      45511531  https://upload.wikimedia.org/wikipedia/commons...   \n",
+       "10776       330971  https://upload.wikimedia.org/wikipedia/commons...   \n",
+       "22845       336170  https://live.staticflickr.com/6045/6274545363_...   \n",
        "\n",
        "                                  eol_full_size_copy_url     license_name  \\\n",
-       "8370   https://content.eol.org/data/media/7d/a4/a9/18...     cc-by-nc-4.0   \n",
-       "11874  https://content.eol.org/data/media/60/0f/4f/18...     cc-by-nc-4.0   \n",
-       "1886   https://content.eol.org/data/media/17/bc/fb/53...         cc-0-1.0   \n",
-       "5155   https://content.eol.org/data/media/7e/3a/51/18...     cc-by-nc-4.0   \n",
-       "11553  https://content.eol.org/data/media/61/dd/01/50...        cc-by-3.0   \n",
-       "14850  https://content.eol.org/data/media/58/5d/86/50...        cc-by-3.0   \n",
-       "10126  https://content.eol.org/data/media/c7/e8/b0/26...  cc-by-nc-sa-3.0   \n",
+       "1371   https://content.eol.org/data/media/64/58/c6/50...     cc-by-sa-3.0   \n",
+       "2524   https://content.eol.org/data/media/67/ce/e1/50...     cc-by-sa-3.0   \n",
+       "4327   https://content.eol.org/data/media/15/8b/b0/53...         cc-0-1.0   \n",
+       "14687  https://content.eol.org/data/media/bf/35/96/16...  cc-by-nc-sa-4.0   \n",
+       "5319   https://content.eol.org/data/media/5f/35/51/50...     cc-by-sa-3.0   \n",
+       "10776  https://content.eol.org/data/media/5f/ad/6c/50...     cc-by-sa-3.0   \n",
+       "22845  https://content.eol.org/data/media/d8/8f/86/54...            cc-by   \n",
        "\n",
        "                                         copyright_owner  duplicate_img  \\\n",
-       "8370                                      Daniel Walchak          False   \n",
-       "11874                                       Pete Woodall          False   \n",
-       "1886   ['Smithsonian Institution, NMNH, Entomology | ...          False   \n",
-       "5155                                     Frédéric Dupont          False   \n",
-       "11553                     Andy Reago & Chrissy McClarren          False   \n",
-       "14850                                       Bart vanDorp          False   \n",
-       "10126  Museum of Comparative Zoology, Harvard University          False   \n",
+       "1371                                  ['BotMultichillT']          False   \n",
+       "2524                                           Vera Buhl          False   \n",
+       "4327   ['Smithsonian Institution, NMNH, Invertebrate ...          False   \n",
+       "14687                     California Academy of Sciences          False   \n",
+       "5319                                        Alastair Rae          False   \n",
+       "10776                                     Stéphanie Bret          False   \n",
+       "22845                                    Brian Gratwicke          False   \n",
        "\n",
-       "                     title  \n",
-       "8370          not provided  \n",
-       "11874         not provided  \n",
-       "1886   ['USNMENT01005704']  \n",
-       "5155          not provided  \n",
-       "11553         not provided  \n",
-       "14850         not provided  \n",
-       "10126         not provided  "
+       "                                        title  \n",
+       "1371                ['Okapia johnstoni5.jpg']  \n",
+       "2524                             not provided  \n",
+       "4327   ['IZ COE 86556 whole colony top view']  \n",
+       "14687                            not provided  \n",
+       "5319                             not provided  \n",
+       "10776                            not provided  \n",
+       "22845                            not provided  "
       ]
      },
-     "execution_count": 42,
+     "execution_count": 32,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2757,16 +2773,16 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 43,
+   "execution_count": 33,
    "metadata": {},
    "outputs": [
     {
      "data": {
       "text/plain": [
-       "(22049, 11)"
+       "(18958, 11)"
       ]
      },
-     "execution_count": 43,
+     "execution_count": 33,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2784,7 +2800,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 44,
+   "execution_count": 34,
    "metadata": {},
    "outputs": [
     {
@@ -2873,7 +2889,7 @@
        "1                                  hickeldypickleldy  not provided  "
       ]
      },
-     "execution_count": 44,
+     "execution_count": 34,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -2884,9 +2900,133 @@
     "complete_rs_manifest.head(2)"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "### Add License URL Column for Completeness"
+   ]
+  },
   {
    "cell_type": "code",
-   "execution_count": 45,
+   "execution_count": 37,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "CC_URL = \"https://creativecommons.org/\"\n",
+    "\n",
+    "\n",
+    "def get_license_url(license_version):\n",
+    "    \"\"\"\n",
+    "    Function to generate the appropriate Creative Commons URL for a given license.\n",
+    "    All licenses in the media manifest are \"cc-XX\", a variation on \"publicdomain\", or \"No known copyright restrictions\".\n",
+    "\n",
+    "    Parameters:\n",
+    "    -----------\n",
+    "    license_version - String. License (eg., \"cc-by-nc 3.0\").\n",
+    "\n",
+    "    Returns:\n",
+    "    --------\n",
+    "    license_url - String. Creative Commons URL associated with the license_version.\n",
+    "\n",
+    "    \"\"\"\n",
+    "    # First check for version number and isolate it\n",
+    "    if \".\" in license_version:\n",
+    "        version = license_version.split(sep=\"-\")[-1]\n",
+    "        license_name = license_version.split(sep=\"-\" + version)[0]\n",
+    "    else:\n",
+    "        # No version specified, so default to latest version (4.0)\n",
+    "        license_name = license_version\n",
+    "        version = \"4.0\"\n",
+    "    # Check which type of license\n",
+    "    if license_name[:5] == \"cc-by\":\n",
+    "        by_x = license_name.split(sep=\"cc-\")[1]\n",
+    "        license_url = CC_URL + \"licenses/\" + by_x + \"/\" + version\n",
+    "    elif (license_name[:4] == \"cc-0\") or (\"public\" in license_name):\n",
+    "        license_url = CC_URL + \"publicdomain/zero/1.0\"\n",
+    "    else:\n",
+    "        # \"No known copyright restrictions\"\n",
+    "        license_url = None\n",
+    "    return license_url\n"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 38,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "license_col = \"license_name\"\n",
+    "complete_rs_manifest[\"license_link\"] = complete_rs_manifest[license_col].apply(get_license_url)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 39,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "<class 'pandas.core.frame.DataFrame'>\n",
+      "Index: 22146 entries, 0 to 25513\n",
+      "Data columns (total 11 columns):\n",
+      " #   Column                  Non-Null Count  Dtype \n",
+      "---  ------                  --------------  ----- \n",
+      " 0   filename                22146 non-null  object\n",
+      " 1   md5                     22146 non-null  object\n",
+      " 2   combined_id             22146 non-null  object\n",
+      " 3   eol_content_id          22146 non-null  int64 \n",
+      " 4   eol_page_id             22146 non-null  int64 \n",
+      " 5   medium_source_url       22146 non-null  object\n",
+      " 6   eol_full_size_copy_url  22146 non-null  object\n",
+      " 7   license_name            22146 non-null  object\n",
+      " 8   copyright_owner         22146 non-null  object\n",
+      " 9   title                   22146 non-null  object\n",
+      " 10  license_link            22103 non-null  object\n",
+      "dtypes: int64(2), object(9)\n",
+      "memory usage: 2.0+ MB\n"
+     ]
+    }
+   ],
+   "source": [
+    "complete_rs_manifest.info(show_counts=True)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 40,
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "Licenses with no URL: \n",
+      " license_name\n",
+      "No known copyright restrictions    43\n",
+      "Name: count, dtype: int64\n"
+     ]
+    }
+   ],
+   "source": [
+    "print(\n",
+    "        \"Licenses with no URL: \\n\",\n",
+    "        complete_rs_manifest.loc[complete_rs_manifest[\"license_link\"].isna(), license_col].value_counts(),\n",
+    "    )"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "As expected, we're good to save this full Rare Species manifest now."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 41,
    "metadata": {},
    "outputs": [],
    "source": [

eol_realign/notebooks/links_rs_duplicates.py

@@ -452,7 +452,7 @@ owner_df = pd.read_csv("../data/media_manifest_missing_licenses_jul26_owners.csv
 
 
 # %%
-complete_rs_manifest = update_owners(rs_full_manifest, owner_df)
+complete_rs_manifest = update_owners(rs_full_manifest_unique, owner_df)
 complete_rs_manifest.info(show_counts = True)
 
 # %%
@@ -472,6 +472,64 @@ cols = [col for col in list(complete_rs_manifest.columns) if col != "duplicate_i
 complete_rs_manifest = complete_rs_manifest[cols]
 complete_rs_manifest.head(2)
 
+# %% [markdown]
+# ### Add License URL Column for Completeness
+
+# %%
+CC_URL = "https://creativecommons.org/"
+
+
+def get_license_url(license_version):
+    """
+    Function to generate the appropriate Creative Commons URL for a given license.
+    All licenses in the media manifest are "cc-XX", a variation on "publicdomain", or "No known copyright restrictions".
+
+    Parameters:
+    -----------
+    license_version - String. License (eg., "cc-by-nc 3.0").
+
+    Returns:
+    --------
+    license_url - String. Creative Commons URL associated with the license_version.
+
+    """
+    # First check for version number and isolate it
+    if "." in license_version:
+        version = license_version.split(sep="-")[-1]
+        license_name = license_version.split(sep="-" + version)[0]
+    else:
+        # No version specified, so default to latest version (4.0)
+        license_name = license_version
+        version = "4.0"
+    # Check which type of license
+    if license_name[:5] == "cc-by":
+        by_x = license_name.split(sep="cc-")[1]
+        license_url = CC_URL + "licenses/" + by_x + "/" + version
+    elif (license_name[:4] == "cc-0") or ("public" in license_name):
+        license_url = CC_URL + "publicdomain/zero/1.0"
+    else:
+        # "No known copyright restrictions"
+        license_url = None
+    return license_url
+
+
+
+# %%
+license_col = "license_name"
+complete_rs_manifest["license_link"] = complete_rs_manifest[license_col].apply(get_license_url)
+
+# %%
+complete_rs_manifest.info(show_counts=True)
+
+# %%
+print(
+        "Licenses with no URL: \n",
+        complete_rs_manifest.loc[complete_rs_manifest["license_link"].isna(), license_col].value_counts(),
+    )
+
+# %% [markdown]
+# As expected, we're good to save this full Rare Species manifest now.
+
 # %%
 complete_rs_manifest.to_csv("../data/rarespecies_full_manifest.csv", index = False)