RDFS_NN_3.ipynb

{
 "cells": [
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# Load TBOX and prepare for encoding"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 20,
   "metadata": {},
   "outputs": [],
   "source": [
    "import pandas as pd\n",
    "import numpy as np"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 21,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": "(305, 3)"
     },
     "execution_count": 21,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "tbox_file = \"data/updated/ub.nt\"\n",
    "col_names=[\"subject\", \"predicate\", \"object\"]\n",
    "#df2 = pd.read_csv(tbox_file, delimiter=' ', names=col_names)\n",
    "df_tbox = pd.read_csv(tbox_file, delimiter = ' ')\n",
    "#df2['object'] = df2['object'].apply(lambda x: x.rstrip('.'))\n",
    "df_tbox = df_tbox.drop(df_tbox.columns[3], axis = 1)\n",
    "df_tbox.columns = col_names\n",
    "df_tbox.shape"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 22,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": "                                             subject  \\\n0   <http://swat.cse.lehigh.edu/onto/univ-bench.owl>   \n1   <http://swat.cse.lehigh.edu/onto/univ-bench.owl>   \n2   <http://swat.cse.lehigh.edu/onto/univ-bench.owl>   \n3  <http://swat.cse.lehigh.edu/onto/univ-bench.ow...   \n4  <http://swat.cse.lehigh.edu/onto/univ-bench.ow...   \n\n                                           predicate  \\\n0     <http://www.w3.org/2000/01/rdf-schema#comment>   \n1       <http://www.w3.org/2000/01/rdf-schema#label>   \n2        <http://www.w3.org/2002/07/owl#versionInfo>   \n3  <http://www.w3.org/1999/02/22-rdf-syntax-ns#type>   \n4       <http://www.w3.org/2000/01/rdf-schema#label>   \n\n                                       object  \n0  An university ontology for benchmark tests  \n1                         Univ-bench Ontology  \n2  univ-bench-ontology-owl, ver April 1, 2004  \n3       <http://www.w3.org/2002/07/owl#Class>  \n4                 administrative staff worker  ",
      "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>subject</th>\n      <th>predicate</th>\n      <th>object</th>\n    </tr>\n  </thead>\n  <tbody>\n    <tr>\n      <th>0</th>\n      <td>&lt;http://swat.cse.lehigh.edu/onto/univ-bench.owl&gt;</td>\n      <td>&lt;http://www.w3.org/2000/01/rdf-schema#comment&gt;</td>\n      <td>An university ontology for benchmark tests</td>\n    </tr>\n    <tr>\n      <th>1</th>\n      <td>&lt;http://swat.cse.lehigh.edu/onto/univ-bench.owl&gt;</td>\n      <td>&lt;http://www.w3.org/2000/01/rdf-schema#label&gt;</td>\n      <td>Univ-bench Ontology</td>\n    </tr>\n    <tr>\n      <th>2</th>\n      <td>&lt;http://swat.cse.lehigh.edu/onto/univ-bench.owl&gt;</td>\n      <td>&lt;http://www.w3.org/2002/07/owl#versionInfo&gt;</td>\n      <td>univ-bench-ontology-owl, ver April 1, 2004</td>\n    </tr>\n    <tr>\n      <th>3</th>\n      <td>&lt;http://swat.cse.lehigh.edu/onto/univ-bench.ow...</td>\n      <td>&lt;http://www.w3.org/1999/02/22-rdf-syntax-ns#type&gt;</td>\n      <td>&lt;http://www.w3.org/2002/07/owl#Class&gt;</td>\n    </tr>\n    <tr>\n      <th>4</th>\n      <td>&lt;http://swat.cse.lehigh.edu/onto/univ-bench.ow...</td>\n      <td>&lt;http://www.w3.org/2000/01/rdf-schema#label&gt;</td>\n      <td>administrative staff worker</td>\n    </tr>\n  </tbody>\n</table>\n</div>"
     },
     "execution_count": 22,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_tbox.head(5)"
   ]
  },
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "## Data loaded, separating \"Properties\", \"Classes\" and \"Subproperties (Property groups\""
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 23,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": "array(['<http://www.w3.org/2002/07/owl#Class>',\n       '<http://www.w3.org/2002/07/owl#Restriction>',\n       '<http://www.w3.org/2002/07/owl#ObjectProperty>',\n       '<http://www.w3.org/2002/07/owl#DatatypeProperty>',\n       '<http://www.w3.org/2002/07/owl#TransitiveProperty>'], dtype=object)"
     },
     "execution_count": 23,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_tbox_types = df_tbox[df_tbox.predicate.str.contains('#type')]\n",
    "df_tbox_types.object.unique()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 24,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": "array(['<http://swat.cse.lehigh.edu/onto/univ-bench.owl#AdministrativeStaff>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Article>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#AssistantProfessor>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#AssociateProfessor>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Book>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Chair>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Person>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Department>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#ClericalStaff>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#College>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#ConferencePaper>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Course>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Dean>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Director>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Program>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Employee>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Organization>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Faculty>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#FullProfessor>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#GraduateCourse>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#GraduateStudent>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Institute>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#JournalArticle>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Lecturer>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Manual>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#PostDoc>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Professor>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Publication>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Research>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#ResearchAssistant>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#ResearchGroup>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Schedule>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Software>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Specification>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Student>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#SystemsStaff>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#TeachingAssistant>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#TechnicalReport>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#UndergraduateStudent>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#University>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#UnofficialPublication>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#VisitingProfessor>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Work>'],\n      dtype=object)"
     },
     "execution_count": 24,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_tbox_classes = df_tbox[df_tbox.object.str.contains('#Class')].subject.unique()\n",
    "df_tbox_classes"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 25,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": "190    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n194    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n198    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n202    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n205    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n210    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n215    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n218    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n223    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n226    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n230    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n235    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n239    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n242    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n244    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n246    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n250    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n254    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n257    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n261    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n263    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n267    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n271    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n274    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n278    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n280    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n284    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n288    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n291    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n294    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n297    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n302    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\nName: subject, dtype: object"
     },
     "execution_count": 25,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_tbox_properties = df_tbox_types[df_tbox_types.object.str.contains(\"Property\")].subject\n",
    "df_tbox_properties"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 26,
   "metadata": {},
   "outputs": [],
   "source": [
    "df_tbox_subProperties = df_tbox[df_tbox.predicate.str.contains(\"subPropertyOf\")].subject\n",
    "df_tbox_subProperties2 = df_tbox[df_tbox.predicate.str.contains(\"subPropertyOf\")].object"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 27,
   "metadata": {},
   "outputs": [],
   "source": [
    "#df_tbox_subProperties = np.ndarray.tolist(df_tbox_subProperties.append(df_tbox_subProperties2).unique())\n",
    "df_tbox_subProperties = df_tbox_subProperties.append(df_tbox_subProperties2).unique()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 28,
   "metadata": {},
   "outputs": [],
   "source": [
    "df_subproperty_uris = df_tbox[df_tbox['object'].isin(df_tbox_subProperties)].object.unique()\n",
    "df_subproperty_uris2 = df_tbox[df_tbox['subject'].isin(df_tbox_subProperties)].subject.unique()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 29,
   "metadata": {},
   "outputs": [],
   "source": [
    "#df_subproperty_uris\n",
    "df_subproperty_uris_list = df_subproperty_uris.tolist()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 30,
   "metadata": {},
   "outputs": [],
   "source": [
    "#df_subproperty_uris2\n",
    "df_subproperty_uris2_list = df_subproperty_uris2.tolist()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 31,
   "metadata": {},
   "outputs": [],
   "source": [
    "subproperty_uris = np.append(df_subproperty_uris, df_subproperty_uris2)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 32,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": "array(['<http://swat.cse.lehigh.edu/onto/univ-bench.owl#headOf>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#worksFor>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#degreeFrom>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#memberOf>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#degreeFrom>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#doctoralDegreeFrom>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#headOf>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#mastersDegreeFrom>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#memberOf>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#undergraduateDegreeFrom>',\n       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#worksFor>'],\n      dtype=object)"
     },
     "execution_count": 32,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "subproperty_uris"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 33,
   "metadata": {},
   "outputs": [],
   "source": [
    "import networkx as nx"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 34,
   "outputs": [],
   "source": [
    "G = nx.Graph()"
   ],
   "metadata": {
    "collapsed": false
   }
  },
  {
   "cell_type": "code",
   "execution_count": 35,
   "metadata": {},
   "outputs": [],
   "source": [
    "df_tbox_subproperties = df_tbox[(df_tbox['subject'].isin(subproperty_uris)) & (df_tbox['object'].isin(subproperty_uris))]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 36,
   "metadata": {},
   "outputs": [],
   "source": [
    "G = nx.from_pandas_edgelist(df_tbox_subproperties, source='subject', target='object', create_using=nx.Graph())\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 37,
   "metadata": {},
   "outputs": [],
   "source": [
    "property_uris = df_tbox_properties.unique()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 46,
   "outputs": [],
   "source": [
    "property_uris = ['http://www.w3.org/1999/02/22-rdf-syntax-ns#type', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#advisor', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#affiliateOf', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#affiliatedOrganizationOf', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#age', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#degreeFrom', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#doctoralDegreeFrom', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#emailAddress', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#hasAlumnus', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#headOf', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#listedCourse', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#mastersDegreeFrom', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#member', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#memberOf', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#name', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#orgPublication', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationAuthor', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationDate', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationResearch', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchInterest', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchProject', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#softwareDocumentation', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#softwareVersion', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#subOrganizationOf', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#takesCourse', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#teacherOf', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#teachingAssistantOf', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#telephone', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#tenured', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#title', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#undergraduateDegreeFrom', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#worksFor', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#_1', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#first', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#object', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#rest', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#subject', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#value', 'http://www.w3.org/2000/01/rdf-schema#comment', 'http://www.w3.org/2000/01/rdf-schema#domain', 'http://www.w3.org/2000/01/rdf-schema#isDefinedBy', 'http://www.w3.org/2000/01/rdf-schema#label', 'http://www.w3.org/2000/01/rdf-schema#member', 'http://www.w3.org/2000/01/rdf-schema#range', 'http://www.w3.org/2000/01/rdf-schema#seeAlso', 'http://www.w3.org/2000/01/rdf-schema#subClassOf', 'http://www.w3.org/2000/01/rdf-schema#subPropertyOf', 'http://www.w3.org/2002/07/owl#imports', 'http://www.w3.org/2002/07/owl#intersectionOf', 'http://www.w3.org/2002/07/owl#inverseOf', 'http://www.w3.org/2002/07/owl#onProperty', 'http://www.w3.org/2002/07/owl#someValuesFrom', 'http://www.w3.org/2002/07/owl#versionInfo']"
   ],
   "metadata": {
    "collapsed": false
   }
  },
  {
   "cell_type": "code",
   "execution_count": 47,
   "metadata": {},
   "outputs": [],
   "source": [
    "G.add_nodes_from(property_uris)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 48,
   "metadata": {},
   "outputs": [],
   "source": [
    "properties_connected_components = {}\n",
    "index = 0\n",
    "for c in nx.connected_components(G):\n",
    "    for p in c:\n",
    "        properties_connected_components[p] = index\n",
    "    index += 1"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 49,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": "{'<http://swat.cse.lehigh.edu/onto/univ-bench.owl#mastersDegreeFrom>': 0,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#doctoralDegreeFrom>': 0,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#undergraduateDegreeFrom>': 0,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#degreeFrom>': 0,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#worksFor>': 1,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#headOf>': 1,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#memberOf>': 1,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#advisor>': 2,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#affiliatedOrganizationOf>': 3,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#affiliateOf>': 4,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#age>': 5,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#emailAddress>': 6,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#hasAlumnus>': 7,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#listedCourse>': 8,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#member>': 9,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#name>': 10,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#officeNumber>': 11,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#orgPublication>': 12,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationAuthor>': 13,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationDate>': 14,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationResearch>': 15,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchInterest>': 16,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchProject>': 17,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#softwareDocumentation>': 18,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#softwareVersion>': 19,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#subOrganizationOf>': 20,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#takesCourse>': 21,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#teacherOf>': 22,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#teachingAssistantOf>': 23,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#telephone>': 24,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#tenured>': 25,\n '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#title>': 26,\n 'http://www.w3.org/1999/02/22-rdf-syntax-ns#type': 27,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#advisor': 28,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#affiliateOf': 29,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#affiliatedOrganizationOf': 30,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#age': 31,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#degreeFrom': 32,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#doctoralDegreeFrom': 33,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#emailAddress': 34,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#hasAlumnus': 35,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#headOf': 36,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#listedCourse': 37,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#mastersDegreeFrom': 38,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#member': 39,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#memberOf': 40,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#name': 41,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#orgPublication': 42,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationAuthor': 43,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationDate': 44,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationResearch': 45,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchInterest': 46,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchProject': 47,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#softwareDocumentation': 48,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#softwareVersion': 49,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#subOrganizationOf': 50,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#takesCourse': 51,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#teacherOf': 52,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#teachingAssistantOf': 53,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#telephone': 54,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#tenured': 55,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#title': 56,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#undergraduateDegreeFrom': 57,\n 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#worksFor': 58,\n 'http://www.w3.org/1999/02/22-rdf-syntax-ns#_1': 59,\n 'http://www.w3.org/1999/02/22-rdf-syntax-ns#first': 60,\n 'http://www.w3.org/1999/02/22-rdf-syntax-ns#object': 61,\n 'http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate': 62,\n 'http://www.w3.org/1999/02/22-rdf-syntax-ns#rest': 63,\n 'http://www.w3.org/1999/02/22-rdf-syntax-ns#subject': 64,\n 'http://www.w3.org/1999/02/22-rdf-syntax-ns#value': 65,\n 'http://www.w3.org/2000/01/rdf-schema#comment': 66,\n 'http://www.w3.org/2000/01/rdf-schema#domain': 67,\n 'http://www.w3.org/2000/01/rdf-schema#isDefinedBy': 68,\n 'http://www.w3.org/2000/01/rdf-schema#label': 69,\n 'http://www.w3.org/2000/01/rdf-schema#member': 70,\n 'http://www.w3.org/2000/01/rdf-schema#range': 71,\n 'http://www.w3.org/2000/01/rdf-schema#seeAlso': 72,\n 'http://www.w3.org/2000/01/rdf-schema#subClassOf': 73,\n 'http://www.w3.org/2000/01/rdf-schema#subPropertyOf': 74,\n 'http://www.w3.org/2002/07/owl#imports': 75,\n 'http://www.w3.org/2002/07/owl#intersectionOf': 76,\n 'http://www.w3.org/2002/07/owl#inverseOf': 77,\n 'http://www.w3.org/2002/07/owl#onProperty': 78,\n 'http://www.w3.org/2002/07/owl#someValuesFrom': 79,\n 'http://www.w3.org/2002/07/owl#versionInfo': 80}"
     },
     "execution_count": 49,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "properties_connected_components"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 22,
   "metadata": {},
   "outputs": [],
   "source": [
    "subject_id_map = {}\n",
    "object_id_map = {}\n",
    "resource_id = 1\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 23,
   "metadata": {},
   "outputs": [],
   "source": [
    "def get_resource_id(resource, resource_id_map):\n",
    "    if resource not in resource_id_map:\n",
    "        resource_id_map[resource] = len(resource_id_map) + 1\n",
    "    return resource_id_map[resource]\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 24,
   "metadata": {},
   "outputs": [],
   "source": [
    "encoded_df = pd.DataFrame(columns=[\"subject_id\", \"predicate_group_id\", \"object_id\"])\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 25,
   "metadata": {},
   "outputs": [],
   "source": [
    "for _, row in df_tbox.iterrows():\n",
    "    subject, predicate, obj = row[\"subject\"], row[\"predicate\"], row[\"object\"]\n",
    "\n",
    "    subject_id = get_resource_id(subject, subject_id_map)\n",
    "    predicate_group_id = properties_connected_components.get(predicate, None)\n",
    "    object_id = get_resource_id(obj, object_id_map)\n",
    "\n",
    "    if predicate_group_id is None:\n",
    "        predicate_group_id = len(properties_connected_components)\n",
    "        properties_connected_components[predicate] = predicate_group_id\n",
    "\n",
    "    encoded_df = encoded_df.append({\"subject_id\": subject_id, \"predicate_group_id\": predicate_group_id, \"object_id\": object_id}, ignore_index=True)\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 26,
   "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>subject_id</th>\n",
       "      <th>predicate_group_id</th>\n",
       "      <th>object_id</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>1</td>\n",
       "      <td>32</td>\n",
       "      <td>1</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>1</td>\n",
       "      <td>33</td>\n",
       "      <td>2</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>1</td>\n",
       "      <td>34</td>\n",
       "      <td>3</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>2</td>\n",
       "      <td>35</td>\n",
       "      <td>4</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>2</td>\n",
       "      <td>33</td>\n",
       "      <td>5</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>300</th>\n",
       "      <td>94</td>\n",
       "      <td>43</td>\n",
       "      <td>95</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>301</th>\n",
       "      <td>94</td>\n",
       "      <td>45</td>\n",
       "      <td>98</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>302</th>\n",
       "      <td>95</td>\n",
       "      <td>35</td>\n",
       "      <td>89</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>303</th>\n",
       "      <td>95</td>\n",
       "      <td>33</td>\n",
       "      <td>130</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>304</th>\n",
       "      <td>95</td>\n",
       "      <td>45</td>\n",
       "      <td>131</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>305 rows × 3 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "    subject_id predicate_group_id object_id\n",
       "0            1                 32         1\n",
       "1            1                 33         2\n",
       "2            1                 34         3\n",
       "3            2                 35         4\n",
       "4            2                 33         5\n",
       "..         ...                ...       ...\n",
       "300         94                 43        95\n",
       "301         94                 45        98\n",
       "302         95                 35        89\n",
       "303         95                 33       130\n",
       "304         95                 45       131\n",
       "\n",
       "[305 rows x 3 columns]"
      ]
     },
     "execution_count": 26,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "encoded_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 27,
   "metadata": {},
   "outputs": [],
   "source": [
    "unique_properties = df_tbox[\"predicate\"].unique()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 28,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "array(['<http://www.w3.org/2000/01/rdf-schema#comment>',\n",
       "       '<http://www.w3.org/2000/01/rdf-schema#label>',\n",
       "       '<http://www.w3.org/2002/07/owl#versionInfo>',\n",
       "       '<http://www.w3.org/1999/02/22-rdf-syntax-ns#type>',\n",
       "       '<http://www.w3.org/2000/01/rdf-schema#subClassOf>',\n",
       "       '<http://www.w3.org/2002/07/owl#intersectionOf>',\n",
       "       '<http://www.w3.org/1999/02/22-rdf-syntax-ns#first>',\n",
       "       '<http://www.w3.org/1999/02/22-rdf-syntax-ns#rest>',\n",
       "       '<http://www.w3.org/2002/07/owl#onProperty>',\n",
       "       '<http://www.w3.org/2002/07/owl#someValuesFrom>',\n",
       "       '<http://www.w3.org/2000/01/rdf-schema#domain>',\n",
       "       '<http://www.w3.org/2000/01/rdf-schema#range>',\n",
       "       '<http://www.w3.org/2002/07/owl#inverseOf>',\n",
       "       '<http://www.w3.org/2000/01/rdf-schema#subPropertyOf>'],\n",
       "      dtype=object)"
      ]
     },
     "execution_count": 28,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "unique_properties"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 29,
   "metadata": {},
   "outputs": [],
   "source": [
    "property_uri = unique_properties[1]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 30,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "array(['<http://swat.cse.lehigh.edu/onto/univ-bench.owl#AdministrativeStaff>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Article>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#AssistantProfessor>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#AssociateProfessor>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Book>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Chair>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Person>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Department>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#ClericalStaff>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#College>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#ConferencePaper>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Course>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Dean>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Director>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Program>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Employee>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Organization>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Faculty>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#FullProfessor>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#GraduateCourse>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#GraduateStudent>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Institute>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#JournalArticle>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Lecturer>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Manual>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#PostDoc>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Professor>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Publication>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Research>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#ResearchAssistant>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#ResearchGroup>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Schedule>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Software>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Specification>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Student>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#SystemsStaff>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#TeachingAssistant>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#TechnicalReport>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#UndergraduateStudent>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#University>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#UnofficialPublication>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#VisitingProfessor>',\n",
       "       '<http://swat.cse.lehigh.edu/onto/univ-bench.owl#Work>'],\n",
       "      dtype=object)"
      ]
     },
     "execution_count": 30,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "df_tbox_classes"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 31,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "190    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "194    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "198    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "202    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "205    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "210    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "215    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "218    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "223    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "226    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "230    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "235    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "239    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "242    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "244    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "246    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "250    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "254    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "257    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "261    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "263    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "267    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "271    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "274    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "278    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "280    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "284    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "288    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "291    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "294    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "297    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "302    <http://swat.cse.lehigh.edu/onto/univ-bench.ow...\n",
       "Name: subject, dtype: object"
      ]
     },
     "execution_count": 31,
     "metadata": {},
     "output_type": "execute_result"
    }
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    "classes = ['http://swat.cse.lehigh.edu/onto/univ-bench.owl#AdministrativeStaff', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Article', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#AssistantProfessor', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#AssociateProfessor', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Book', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Chair', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#ClericalStaff', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#College', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#ConferencePaper', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Course', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Dean', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Department', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Director', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Employee', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Faculty', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#FullProfessor', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#GraduateCourse', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#GraduateStudent', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Institute', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#JournalArticle', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Lecturer', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Manual', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Organization', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Person', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#PostDoc', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Professor', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Program', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Publication', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Research', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#ResearchAssistant', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#ResearchGroup', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Schedule', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Software', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Specification', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Student', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#SystemsStaff', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#TeachingAssistant', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#TechnicalReport', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#UndergraduateStudent', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#University', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#UnofficialPublication', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#VisitingProfessor', 'http://swat.cse.lehigh.edu/onto/univ-bench.owl#Work', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#Alt', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#Bag', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#List', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#Property', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#Seq', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#Statement', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#XMLLiteral', 'http://www.w3.org/2000/01/rdf-schema#Class', 'http://www.w3.org/2000/01/rdf-schema#Container', 'http://www.w3.org/2000/01/rdf-schema#ContainerMembershipProperty', 'http://www.w3.org/2000/01/rdf-schema#Datatype', 'http://www.w3.org/2000/01/rdf-schema#Literal', 'http://www.w3.org/2000/01/rdf-schema#Resource', 'http://www.w3.org/2001/XMLSchema#nonNegativeInteger', 'http://www.w3.org/2001/XMLSchema#string']"
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   "execution_count": 58,
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   "outputs": [],
   "source": [
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(-592, -2), (-593, -2), (-594, -2), (-595, -2), (-596, -2), (-597, -2), (-598, -2), (-599, -2), (-600, -2), (-601, -2), (-602, -2), (-603, -2), (-604, -2), (-605, -2), (-606, -2), (-607, -2), (-608, -2), (-609, -2), (-610, -2), (-611, -2), (-612, -2), (-613, -2), (-614, -2), (-615, -2), (-616, -2), (-617, -2), (-618, -2), (-619, -2), (-620, -2), (-621, -2), (-622, -2), (-623, -2), (-624, -2), (-625, -2), (-626, -2), (-627, -2), (-628, -2), (-629, -2), (-630, -2), (-631, -2), (-632, -2), (-633, -2), (-634, -2), (-635, -2), (-636, -2), (-637, -2), (-638, -2), (-639, -2), (-640, -2), (-641, -2), (-642, -2), (-643, -2), (-644, -2), (-645, -2), (-646, -2), (-647, -2), (-648, -2), (-649, -2), (-650, -2), (-651, -2), (-652, -2), (-653, -2), (-654, -2), (-655, -2), (-656, -2), (-657, -2), (-658, -2), (-659, -2), (-660, -2), (-661, -2), (-662, -2), (-663, -2), (-664, -2), (-665, -2), (-666, -2), (-667, -2), (-668, -2), (-669, -2), (-670, -2), (-671, -2), (-672, -2), (-673, -2), (-674, -2), (-675, -2), (-676, -2), (-677, -2), (-678, -2), (-679, -2), (-680, -2)]\n",
      "4: [(-1, None)]\n",
      "5: [(-1, -3), (-681, -2), (-682, -2), (-683, -2), (-684, -2), (-685, -2), (-686, -2), (-687, -2), (-688, -2), (-689, -2), (-690, -2)]\n",
      "6: [(-691, -2), (-692, -2), (-693, -2), (-694, -2), (-695, -2), (-696, -2), (-697, -2), (-698, -2), (-699, -2), (-700, -2), (-701, -2), (-702, -2), (-703, -2), (-704, -2), (-705, -2), (-706, -2), (-707, -2), (-708, -2), (-709, -2), (-710, -2), (-711, -2), (-712, -2), (-713, -2), (-714, -2), (-715, -2), (-716, -2), (-717, -2), (-718, -2), (-719, -2), (-720, -2), (-721, -2), (-2, -2), (-722, -2), (-723, -2), (-724, -2), (-725, -2), (-726, -2), (-727, -2), (-728, -2), (-729, -2), (-730, -2)]\n"
     ]
    }
   ],
   "source": [
    "from rdflib import Graph, Literal, Namespace, URIRef\n",
    "import os, codecs\n",
    "from rdflib.namespace import RDF, RDFS\n",
    "from rdflib import URIRef\n",
    "\n",
    "# Create a simple RDF graph with the given data\n",
    "graph = Graph()\n",
    "\n",
    "univ_bench = Namespace(\"http://swat.cse.lehigh.edu/onto/univ-bench.owl#\")\n",
    "\n",
    "input_file = os.path.abspath(\"/home/mart/git/NMT4RDFS/data/lubm1_intact/graphs_with_descriptions/HTTP_www.Department0.University0.edu.nt\")\n",
    "input_file2 = os.path.abspath(\"/home/mart/git/NMT4RDFS/data/lubm1_intact/graphs_with_descriptions/HTTP_www.Department0.University0.edu_AssistantProfessor0.nt\")\n",
    "graph.parse(data=codecs.open(input_file, encoding=\"UTF-8\").read(), format=\"nt\")\n",
    "\n",
    "\n",
    "# Get the unique properties from the graph\n",
    "unique_properties = {p for s, p, o in graph}\n",
    "\n",
    "# Filter the external_property_list to keep only the properties present in unique_properties\n",
    "filtered_property_list = [property for property in external_property_list if URIRef(property) in unique_properties]\n",
    "\n",
    "# Create a mapping for property IDs based on their position (rank) in the filtered list\n",
    "property_id_map = {URIRef(property): index + 1 for index, property in enumerate(filtered_property_list)}\n",
    "\n",
    "# Sort the triples based on subject, property, and object\n",
    "sorted_triples = sorted(graph, key=lambda x: (property_id_map.get(x[1], float('inf')), x[0], x[2]))\n",
    "import collections\n",
    "\n",
    "def encode_triples(sorted_triples, property_id_map):\n",
    "    subject_id_counter = -1\n",
    "    object_id_counter = -1\n",
    "    subject_id_map = {}\n",
    "    object_id_map = {}\n",
    "\n",
    "    encoding = collections.defaultdict(list)\n",
    "\n",
    "    for s, p, o in sorted_triples:\n",
    "        # Assign subject ID\n",
    "        if s not in subject_id_map and s not in property_id_map:\n",
    "            subject_id_map[s] = subject_id_counter\n",
    "            subject_id_counter -= 1\n",
    "\n",
    "        # Assign object ID\n",
    "        if o not in object_id_map and o not in property_id_map and not isinstance(o, Literal):\n",
    "            object_id_map[o] = object_id_counter\n",
    "            object_id_counter -= 1\n",
    "\n",
    "        # Get property ID, subject ID, and object ID\n",
    "        property_id = property_id_map[p]\n",
    "        subject_id = subject_id_map.get(s, None)\n",
    "        object_id = object_id_map.get(o, None)\n",
    "\n",
    "        # Add to encoding\n",
    "        encoding[property_id].append((subject_id, object_id))\n",
    "        print(s, p, o)\n",
    "        print(subject_id, property_id, object_id)\n",
    "\n",
    "    return encoding\n",
    "\n",
    "lubm_encoding = encode_triples(sorted_triples, property_id_map)\n",
    "\n",
    "for k, v in lubm_encoding.items():\n",
    "    print(f\"{k}: {v}\")\n"
   ],
   "metadata": {
    "collapsed": false
   }
  },
  {
   "cell_type": "code",
   "execution_count": 145,
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "1: [(-1, -1)]\n",
      "2: [(-2, -2), (-3, -2), (-4, -2), (-5, -2), (-6, -2), (-7, -2), (-8, -2), (-9, -2), (-10, -2), (-11, -2), (-12, -2), (-13, -2), (-14, -2), (-15, -2), (-16, -2)]\n",
      "3: [(-1, -3)]\n",
      "4: [(-1, None)]\n",
      "5: [(-1, -4)]\n",
      "6: [(-1, None)]\n",
      "7: [(-17, -2), (-18, -2), (-19, -2), (-20, -2), (-21, -2), (-22, -2)]\n",
      "8: [(-1, None)]\n",
      "9: [(-1, -5), (-1, -6), (-1, -7), (-1, -8)]\n",
      "10: [(-1, None)]\n",
      "11: [(-1, -9)]\n",
      "12: [(-1, -10)]\n"
     ]
    }
   ],
   "source": [
    "for key in sorted(lubm_encoding):\n",
    "    print(f'{key}: {lubm_encoding[key]}')\n"
   ],
   "metadata": {
    "collapsed": false
   }
  },
  {
   "cell_type": "code",
   "execution_count": 146,
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Property ID Map:\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#type: 1\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#advisor: 2\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#doctoralDegreeFrom: 3\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#emailAddress: 4\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#mastersDegreeFrom: 5\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#name: 6\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationAuthor: 7\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchInterest: 8\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#teacherOf: 9\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#telephone: 10\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#undergraduateDegreeFrom: 11\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#worksFor: 12\n",
      "\n",
      "External Property List:\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#type\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#advisor\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#affiliateOf\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#affiliatedOrganizationOf\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#age\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#degreeFrom\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#doctoralDegreeFrom\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#emailAddress\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#hasAlumnus\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#headOf\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#listedCourse\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#mastersDegreeFrom\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#member\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#memberOf\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#name\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#orgPublication\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationAuthor\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationDate\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#publicationResearch\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchInterest\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#researchProject\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#softwareDocumentation\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#softwareVersion\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#subOrganizationOf\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#takesCourse\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#teacherOf\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#teachingAssistantOf\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#telephone\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#tenured\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#title\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#undergraduateDegreeFrom\n",
      "http://swat.cse.lehigh.edu/onto/univ-bench.owl#worksFor\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#_1\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#first\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#object\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#rest\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject\n",
      "http://www.w3.org/1999/02/22-rdf-syntax-ns#value\n",
      "http://www.w3.org/2000/01/rdf-schema#comment\n",
      "http://www.w3.org/2000/01/rdf-schema#domain\n",
      "http://www.w3.org/2000/01/rdf-schema#isDefinedBy\n",
      "http://www.w3.org/2000/01/rdf-schema#label\n",
      "http://www.w3.org/2000/01/rdf-schema#member\n",
      "http://www.w3.org/2000/01/rdf-schema#range\n",
      "http://www.w3.org/2000/01/rdf-schema#seeAlso\n",
      "http://www.w3.org/2000/01/rdf-schema#subClassOf\n",
      "http://www.w3.org/2000/01/rdf-schema#subPropertyOf\n",
      "http://www.w3.org/2002/07/owl#imports\n",
      "http://www.w3.org/2002/07/owl#intersectionOf\n",
      "http://www.w3.org/2002/07/owl#inverseOf\n",
      "http://www.w3.org/2002/07/owl#onProperty\n",
      "http://www.w3.org/2002/07/owl#someValuesFrom\n",
      "http://www.w3.org/2002/07/owl#versionInfo\n"
     ]
    }
   ],
   "source": [
    "print(\"Property ID Map:\")\n",
    "for k, v in property_id_map.items():\n",
    "    print(f\"{k}: {v}\")\n",
    "\n",
    "print(\"\\nExternal Property List:\")\n",
    "for item in external_property_list:\n",
    "    print(item)"
   ],
   "metadata": {
    "collapsed": false
   }
  },
  {
   "cell_type": "code",
   "execution_count": 155,
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "(1, 2, 3)\n",
      "(4, 5, 1)\n",
      "(1, 6, 7)\n",
      "(8, 5, 1)\n",
      "(9, 10, 1)\n",
      "(11, 5, 1)\n",
      "(1, 12, 13)\n",
      "(1, 14, 15)\n",
      "(16, 10, 1)\n",
      "(1, 17, 18)\n",
      "(19, 5, 1)\n",
      "(20, 5, 1)\n",
      "(21, 10, 1)\n",
      "(22, 5, 1)\n",
      "(1, 6, 23)\n",
      "(24, 5, 1)\n",
      "(25, 5, 1)\n",
      "(26, 10, 1)\n",
      "(27, 10, 1)\n",
      "(28, 5, 1)\n",
      "(29, 5, 1)\n",
      "(1, 30, 31)\n",
      "(1, 6, 32)\n",
      "(1, 33, 34)\n",
      "(35, 5, 1)\n",
      "(1, 36, 37)\n",
      "(38, 5, 1)\n",
      "(1, 39, 40)\n",
      "(41, 5, 1)\n",
      "(1, 6, 42)\n",
      "(43, 10, 1)\n",
      "(44, 5, 1)\n",
      "(1, 45, 46)\n",
      "(47, 5, 1)\n"
     ]
    }
   ],
   "source": [
    "import os\n",
    "from rdflib import Graph, Namespace\n",
    "\n",
    "univ_bench = Namespace(\"http://swat.cse.lehigh.edu/onto/univ-bench.owl#\")\n",
    "input_file = os.path.abspath(\"/home/mart/git/NMT4RDFS/data/lubm1_intact/graphs_with_descriptions/HTTP_www.Department0.University0.edu_AssistantProfessor0.nt\")\n",
    "\n",
    "# Read RDF triples from file\n",
    "g = Graph()\n",
    "g.parse(input_file, format=\"nt\")\n",
    "\n",
    "# Function to encode URIs to unique positive integers\n",
    "def encode_uri(uri, uri_to_int):\n",
    "    if uri not in uri_to_int:\n",
    "        uri_to_int[uri] = len(uri_to_int) + 1\n",
    "    return uri_to_int[uri]\n",
    "\n",
    "# Encode each URI in the triples\n",
    "uri_to_int = {}\n",
    "encoded_triples = []\n",
    "\n",
    "for s, p, o in g:\n",
    "    encoded_s = encode_uri(s, uri_to_int)\n",
    "    encoded_p = encode_uri(p, uri_to_int)\n",
    "    encoded_o = encode_uri(o, uri_to_int)\n",
    "    encoded_triples.append((encoded_s, encoded_p, encoded_o))\n",
    "\n",
    "# Print encoded triples\n",
    "for triple in encoded_triples:\n",
    "    print(triple)\n",
    "\n",
    "with open('encoded_triples.txt', 'w') as f:\n",
    "    for triple in encoded_triples:\n",
    "        f.write(f\"{triple[0]} {triple[2]} {triple[1]}\\n\")"
   ],
   "metadata": {
    "collapsed": false
   }
  },
  {
   "cell_type": "code",
   "execution_count": 167,
   "outputs": [],
   "source": [
    "lubm_encoding = {1: [(-1, 3)], 7: [(-1, -2), (-3, -2), (-4, -2), (-5, -2), (-6, -2), (-7, -2), (-8, -2), (-9, -2), (-10, -2), (-11, -2), (-12, -2), (-13, -2), (-14, -2), (-15, -2), (-16, -2)], 8: [(-1, -2)], 9: [(-1, -2)], 10: [(-1, -3)], 4: [(-1, -2)], 11: [(-1, -2), (-3, -2), (-4, -2), (-5, -2), (-6, -2), (-7, -2)], 12: [(-1, -2)], 13: [(-1, -2), (-1, -3), (-1, -4), (-1, -5)], 14: [(-1, -2)], 15: [(-1, -4)], 6: [(-1, -2)]}"
   ],
   "metadata": {
    "collapsed": false
   }
  },
  {
   "cell_type": "code",
   "execution_count": 172,
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "-1 3 1\n",
      "-1 -2 7\n",
      "-3 -2 7\n",
      "-4 -2 7\n",
      "-5 -2 7\n",
      "-6 -2 7\n",
      "-7 -2 7\n",
      "-8 -2 7\n",
      "-9 -2 7\n",
      "-10 -2 7\n",
      "-11 -2 7\n",
      "-12 -2 7\n",
      "-13 -2 7\n",
      "-14 -2 7\n",
      "-15 -2 7\n",
      "-16 -2 7\n",
      "-1 -2 8\n",
      "-1 -2 9\n",
      "-1 -3 10\n",
      "-1 -2 4\n",
      "-1 -2 11\n",
      "-3 -2 11\n",
      "-4 -2 11\n",
      "-5 -2 11\n",
      "-6 -2 11\n",
      "-7 -2 11\n",
      "-1 -2 12\n",
      "-1 -2 13\n",
      "-1 -3 13\n",
      "-1 -4 13\n",
      "-1 -5 13\n",
      "-1 -2 14\n",
      "-1 -4 15\n",
      "-1 -2 6\n"
     ]
    }
   ],
   "source": [
    "for key in lubm_encoding.keys():\n",
    "    for tuple in lubm_encoding[key]:\n",
    "        print(tuple[0], tuple[1], key)"
   ],
   "metadata": {
    "collapsed": false
   }
  },
  {
   "cell_type": "markdown",
   "source": [],
   "metadata": {
    "collapsed": false
   }
  }
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