chores: remove unnecessary files from branch

Author: ecarrenolozano

notebooks/chebi_mix_ontology.ipynb

@@ -8,9 +8,9 @@
    "outputs": [],
    "source": [
     "import logging\n",
-    "import pandas as pd\n",
-    "from ontograph.client import ClientOntology, ClientCatalog\n",
-    "from ontograph.utils import translate_ids"
+    "\n",
+    "from ontograph.utils import translate_ids\n",
+    "from ontograph.client import ClientOntology"
    ]
   },
   {
@@ -30,8 +30,8 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "PATH_ONTOLOGY_FILE = \"../data/out/swiss_lipids_ontology.obo\" \n",
-    "PATH_MAPPING_FILE = \"../data/out/swiss_lipids_mapping_ids.csv\""
+    "PATH_ONTOLOGY_FILE = '../data/out/swiss_lipids_ontology.obo'\n",
+    "PATH_MAPPING_FILE = '../data/out/swiss_lipids_mapping_ids.csv'"
    ]
   },
   {
@@ -134,9 +134,9 @@
    "outputs": [],
    "source": [
     "swiss_onto.load_mapping(filepath=PATH_MAPPING_FILE,\n",
-    "                          delimiter=\"\\t\",\n",
+    "                          delimiter='\\t',\n",
     "                          #target_column=\"chebi_id\",\n",
-    "                          target_column=\"swiss_lipid_id\",\n",
+    "                          target_column='swiss_lipid_id',\n",
     "                          )"
    ]
   },
@@ -149,11 +149,11 @@
    "source": [
     "test_ids_diverse = [\n",
     "    'CHEBI:70995',      # chebi\n",
-    "    \"SLM:000508824\",    # swiss lipids\n",
-    "    \"HMDB00032\",        # hmdb\n",
-    "    \"LMGP01030010\",     # lipid maps\n",
-    "    \"MNXM2990\",         # metanetx\n",
-    "    \"CHEBI:88888\"       # fake chebi id\n",
+    "    'SLM:000508824',    # swiss lipids\n",
+    "    'HMDB00032',        # hmdb\n",
+    "    'LMGP01030010',     # lipid maps\n",
+    "    'MNXM2990',         # metanetx\n",
+    "    'CHEBI:88888'       # fake chebi id\n",
     "]\n",
     "\n",
     "test_ids_swiss_lipids = ['SLM:000048885','SLM:000508824','SLM:000000042','SLM:000048885','SLM:000000288']"
@@ -184,9 +184,9 @@
    "outputs": [],
    "source": [
     "for term in swiss_onto.get_terms(terms_translated):\n",
-    "    print(f\"\\n{term}\")\n",
+    "    print(f'\\n{term}')\n",
     "    for property in term.annotations:\n",
-    "        print(f\"\\t{property.property}: {property.literal}\")\n"
+    "        print(f'\\t{property.property}: {property.literal}')\n"
    ]
   },
   {
@@ -197,9 +197,9 @@
    "outputs": [],
    "source": [
     "for term in swiss_onto.get_terms(test_ids_diverse):\n",
-    "    print(f\"\\n{term}\")\n",
+    "    print(f'\\n{term}')\n",
     "    for property in term.annotations:\n",
-    "        print(f\"\\t{property.property}: {property.literal}\")"
+    "        print(f'\\t{property.property}: {property.literal}')"
    ]
   },
   {