neuro_words.ipynb

{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 14,
   "metadata": {
    "collapsed": false,
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "import sys, Quandl,nltk, csv, urllib2, codecs, simplejson, decimal, string, json\n",
    "import numpy as np\n",
    "from pprint import pprint as pp\n",
    "from nltk.corpus import movie_reviews\n",
    "from sklearn.feature_extraction.text import TfidfVectorizer\n",
    "from sklearn.naive_bayes import MultinomialNB\n",
    "from textblob import TextBlob\n",
    "from pymongo import MongoClient\n",
    "import pandas as pd\n",
    "from operator import itemgetter\n",
    "import matplotlib.pyplot as plt\n",
    "import json\n",
    "from IPython.display import display_pretty, display_html, display_jpeg, display_png, display_json, display_latex, display_svg\n",
    "%matplotlib inline"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "client = MongoClient()\n",
    "db = client.dsbc\n",
    "# nw = db.neuro_words\n",
    "# nwfeq = db.nwfeq\n",
    "# nwfeq2 = db.nwfeq2\n",
    "nwf = db.nwf\n",
    "\n",
    "# nw.delete_many({\"$where\":\"this.content.length < 100\"})\n",
    "# nw.delete_many({\"$where\":\"typeof(this.content) != 'string'\"})\n",
    "\n",
    "# contents = nw.find({},{\"content\":1, \"_id\":0})\n",
    "# content_vals = [i['content'] for i in contents]\n",
    "\n",
    "# len(content_vals)\n",
    "with open('result.json') as data_file:    \n",
    "    data = json.load(data_file)\n",
    "\n",
    "# for rev in reviews:\n",
    "#     hmm.save(rev)\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "# nwfeq.remove({})\n",
    "# nwfeq2.remove({})\n",
    "nwf.remove({})\n",
    "\n",
    "for key, val in data.items():\n",
    "#     if index == 10:\n",
    "#         break\n",
    "    bregion = key.split(\" | \")[1]\n",
    "    scale = key.split(\" | \")[0]\n",
    "    my_hash = {\"bregion\": bregion, \"scale\": scale, \"co-occ_count\": val}\n",
    "    nwf.save(my_hash)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 22,
   "metadata": {
    "collapsed": false,
    "scrolled": false
   },
   "outputs": [
    {
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       " {u'_id': ObjectId('556ce8e0ea638733b7ffec1f'),\n",
       "  u'bregion': u'medial frontal gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec00'),\n",
       "  u'bregion': u'lingual gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wechsler test of adult reading'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffebeb'),\n",
       "  u'bregion': u'thalamus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'yale-brown obsessive compulsive scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffebc4'),\n",
       "  u'bregion': u'lenticular nucleus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'choice reaction time'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffebaa'),\n",
       "  u'bregion': u'supplementary motor area',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'conners continuous'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeba2'),\n",
       "  u'bregion': u'parietal lobule',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'judgment of line orientation'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb8e'),\n",
       "  u'bregion': u'cuneus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'social responsiveness scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb8b'),\n",
       "  u'bregion': u'cingulate cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'adhd rating'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb8a'),\n",
       "  u'bregion': u'angular gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'trail making test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb7d'),\n",
       "  u'bregion': u'parietal region',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb79'),\n",
       "  u'bregion': u'hippocampus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'hooper'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb68'),\n",
       "  u'bregion': u'thalamus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'manifest anxiety scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb41'),\n",
       "  u'bregion': u'parahippocampal gyri',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'clock drawing'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb3d'),\n",
       "  u'bregion': u'supramarginal gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'clock drawing'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb34'),\n",
       "  u'bregion': u'orbital gyri',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'mattis'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb31'),\n",
       "  u'bregion': u'thalamencephalon',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'asperger'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb04'),\n",
       "  u'bregion': u'angular gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'mattis'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeafb'),\n",
       "  u'bregion': u'corpus callosum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'severe impairment battery'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeaf2'),\n",
       "  u'bregion': u'thalamic nuclei',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeae5'),\n",
       "  u'bregion': u'olfactory tract',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeae4'),\n",
       "  u'bregion': u'motor cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'asperger'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeab6'),\n",
       "  u'bregion': u'primary visual cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'brief test of attention'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeab5'),\n",
       "  u'bregion': u'precuneus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeab4'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'bayley'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeaa8'),\n",
       "  u'bregion': u'posterior cingulate gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'barratt'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea99'),\n",
       "  u'bregion': u'subiculum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'childhood trauma questionnaire'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea7e'),\n",
       "  u'bregion': u'subthalamic nucleus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'benton facial'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea57'),\n",
       "  u'bregion': u'corpus callosum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'brief symptom inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea56'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'hopkins verbal learning test-r'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea4e'),\n",
       "  u'bregion': u'limbic system',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wisconsin card sorting test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea3f'),\n",
       "  u'bregion': u'somatosensory cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'grip strength'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea34'),\n",
       "  u'bregion': u'hippocampal gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wms-iii'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea2f'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'western aphasia battery'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea21'),\n",
       "  u'bregion': u'corpus callosum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wisc-iv'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea1f'),\n",
       "  u'bregion': u'anterior cingulate gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'clock drawing'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea15'),\n",
       "  u'bregion': u'posterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'quality of life inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea0a'),\n",
       "  u'bregion': u'thalamus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'go-no-go'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9ff'),\n",
       "  u'bregion': u'temporal cortices',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'adhd rating'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9f3'),\n",
       "  u'bregion': u'parietal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'word memory test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9f0'),\n",
       "  u'bregion': u'wernicke area',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'strands'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9ef'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'grooved pegboard'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9e8'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wrat-3'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9e7'),\n",
       "  u'bregion': u'thalamic nuclei',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9db'),\n",
       "  u'bregion': u'premotor areas',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'stroop color'},\n",
       " ...]"
      ]
     },
     "execution_count": 22,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "# cursor = nwfeq2.find({'scale': {\"$ne\" : \"quest\"}}).sort([(\"co-occ_count\", -1)])\n",
    "# cursor = nwf.find({\"bregion\":{\"$ne\" : \"\"}}, {\"scale\":{\"$ne\" : \"\"}}).sort([(\"co-occ_count\", -1)])\n",
    "# cursor = nwf.find({ \"$and\": [ { \"scale\": { \"$ne\": \"\" } }, { \"bregion\": { \"$ne\": \"\" } } ] }).sort([(\"co-occ_count\", -1)])\n",
    "cursor = nwf.find({ \"$and\": [ { \"$where\": \"this.scale.length > 5\" }, { \"$where\": \"this.bregion.length > 5\" } ] }).sort([(\"co-occ_count\", -1)])\n",
    "list(cursor)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 21,
   "metadata": {
    "collapsed": false
   },
   "outputs": [
    {
     "data": {
      "text/plain": [
       "[{u'_id': ObjectId('556ce8e1ea638733b700008f'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 94,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9ca'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 88,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffee0f'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 79,\n",
       "  u'scale': u'wisconsin card sorting test'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffdd92'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 65,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e2ea638733b70011f9'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 65,\n",
       "  u'scale': u'wisconsin card sorting test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe2cc'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 58,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe4e0'),\n",
       "  u'bregion': u'frontal lobe',\n",
       "  u'co-occ_count': 50,\n",
       "  u'scale': u'wisconsin card sorting test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed87'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 45,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe295'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 44,\n",
       "  u'scale': u'beck depression inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe4fe'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 38,\n",
       "  u'scale': u'trail making'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7000222'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 35,\n",
       "  u'scale': u'beck depression inventory'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7000a66'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 35,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec23'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 34,\n",
       "  u'scale': u'stroop color'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffd50d'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 34,\n",
       "  u'scale': u'trail making test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe29d'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 33,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffdd4f'),\n",
       "  u'bregion': u'basal ganglia',\n",
       "  u'co-occ_count': 33,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffdad4'),\n",
       "  u'bregion': u'frontal lobe',\n",
       "  u'co-occ_count': 33,\n",
       "  u'scale': u'trail making'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7fff115'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 32,\n",
       "  u'scale': u'beck depression inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe73d'),\n",
       "  u'bregion': u'cingulate cortex',\n",
       "  u'co-occ_count': 31,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffd887'),\n",
       "  u'bregion': u'ventral striatum',\n",
       "  u'co-occ_count': 31,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7fffdcb'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 31,\n",
       "  u'scale': u'boston naming'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7000c4c'),\n",
       "  u'bregion': u'orbitofrontal cortex',\n",
       "  u'co-occ_count': 31,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe387'),\n",
       "  u'bregion': u'ventromedial prefrontal cortex',\n",
       "  u'co-occ_count': 31,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffde3b'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 30,\n",
       "  u'scale': u'trail making'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7fffc88'),\n",
       "  u'bregion': u'frontal lobe',\n",
       "  u'co-occ_count': 30,\n",
       "  u'scale': u'trail making test'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7fffefd'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 30,\n",
       "  u'scale': u'wechsler memory scale'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffda2f'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 29,\n",
       "  u'scale': u'boston naming test'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7fffb38'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 28,\n",
       "  u'scale': u'trail making test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe414'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 26,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffddc0'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 26,\n",
       "  u'scale': u'stroop color'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7fff57a'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 26,\n",
       "  u'scale': u'barratt'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffd5ef'),\n",
       "  u'bregion': u'midbrain',\n",
       "  u'co-occ_count': 23,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffe02f'),\n",
       "  u'bregion': u'hippocampus',\n",
       "  u'co-occ_count': 22,\n",
       "  u'scale': u'wechsler memory scale'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7fffc2d'),\n",
       "  u'bregion': u'anterior cingulate cortex',\n",
       "  u'co-occ_count': 22,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffef18'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 21,\n",
       "  u'scale': u'beck depression inventory'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffd7e1'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 21,\n",
       "  u'scale': u'trail making'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7fff2a2'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 21,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffdda2'),\n",
       "  u'bregion': u'orbitofrontal cortex',\n",
       "  u'co-occ_count': 20,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffda43'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 20,\n",
       "  u'scale': u'barratt'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7000df3'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 20,\n",
       "  u'scale': u'continuous performance test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7fff322'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 19,\n",
       "  u'scale': u'continuous performance test'},\n",
       " {u'_id': ObjectId('556ce8e1ea638733b7000a20'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 19,\n",
       "  u'scale': u'wechsler adult'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffece2'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 18,\n",
       "  u'scale': u'stroop color'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe707'),\n",
       "  u'bregion': u'motor cortex',\n",
       "  u'co-occ_count': 18,\n",
       "  u'scale': u'choice reaction time'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffdd9a'),\n",
       "  u'bregion': u'cingulate cortex',\n",
       "  u'co-occ_count': 18,\n",
       "  u'scale': u'beck depression inventory'},\n",
       " {u'_id': ObjectId('556ce8dfea638733b7ffd7b2'),\n",
       "  u'bregion': u'cingulate cortex',\n",
       "  u'co-occ_count': 18,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7fff1a0'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 18,\n",
       "  u'scale': u'trail making test'},\n",
       " {u'_id': ObjectId('556ce8e2ea638733b7001397'),\n",
       "  u'bregion': u'frontal lobe',\n",
       "  u'co-occ_count': 18,\n",
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       " {u'_id': ObjectId('556ce8e0ea638733b7ffee4f'),\n",
       "  u'bregion': u'corpus callosum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'california verbal learning test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffee47'),\n",
       "  u'bregion': u'orbitofrontal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'social adjustment scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffee45'),\n",
       "  u'bregion': u'cingulate cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'conners continuous'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffee3c'),\n",
       "  u'bregion': u'thalamus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'scl-90-r'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffee33'),\n",
       "  u'bregion': u'motor areas',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'stroop color-naming'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffee21'),\n",
       "  u'bregion': u'entorhinal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'bdi-ii'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffee10'),\n",
       "  u'bregion': u'parietal cortices',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'clock drawing'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffee05'),\n",
       "  u'bregion': u'amygdala',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'self-critical'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffedfa'),\n",
       "  u'bregion': u'posterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'adhd rating'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffedf2'),\n",
       "  u'bregion': u'supplementary eye fields',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'trail making'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffede9'),\n",
       "  u'bregion': u'gyrus rectus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'trail making test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeddc'),\n",
       "  u'bregion': u'orbitofrontal region',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'barratt'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffedd2'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'asperger syndrome'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffedbb'),\n",
       "  u'bregion': u'visual cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeda8'),\n",
       "  u'bregion': u'temporal lobes',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wisconsin card sorting test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeda4'),\n",
       "  u'bregion': u'cingulate cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'asperger syndrome'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed63'),\n",
       "  u'bregion': u'gyrus hippocampus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck depression inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed45'),\n",
       "  u'bregion': u'auditory area',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck depression inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed3a'),\n",
       "  u'bregion': u'parietal lobule',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wisconsin card sorting test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed39'),\n",
       "  u'bregion': u'motor area',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'y-bocs'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed2b'),\n",
       "  u'bregion': u'hippocampus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wais-iii'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed2a'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'quality of life inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed21'),\n",
       "  u'bregion': u'hippocampal gyri',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wechsler adult'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffed08'),\n",
       "  u'bregion': u'cingulate gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'brief symptom inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffecfb'),\n",
       "  u'bregion': u'cingulate cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wechsler memory scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffecd9'),\n",
       "  u'bregion': u'temporal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'barratt'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffecd4'),\n",
       "  u'bregion': u'orbitofrontal region',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'stroop color'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffecc2'),\n",
       "  u'bregion': u'posterior parietal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec7a'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'bender gestalt'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec6e'),\n",
       "  u'bregion': u'cerebral cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'hopkins verbal learning test-r'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec60'),\n",
       "  u'bregion': u'dentate gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wechsler memory scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec58'),\n",
       "  u'bregion': u'frontal lobe',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck anxiety'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec51'),\n",
       "  u'bregion': u'parietal lobe',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'tea-ch'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec4c'),\n",
       "  u'bregion': u'frontal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'seashore'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec42'),\n",
       "  u'bregion': u'cerebral hemispheres',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wechsler adult'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec2b'),\n",
       "  u'bregion': u'globus pallidus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wais-iii'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec21'),\n",
       "  u'bregion': u'hippocampal formation',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck depression inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec1f'),\n",
       "  u'bregion': u'medial frontal gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffec00'),\n",
       "  u'bregion': u'lingual gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wechsler test of adult reading'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffebeb'),\n",
       "  u'bregion': u'thalamus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'yale-brown obsessive compulsive scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffebc4'),\n",
       "  u'bregion': u'lenticular nucleus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'choice reaction time'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffebaa'),\n",
       "  u'bregion': u'supplementary motor area',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'conners continuous'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeba2'),\n",
       "  u'bregion': u'parietal lobule',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'judgment of line orientation'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb8e'),\n",
       "  u'bregion': u'cuneus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'social responsiveness scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb8b'),\n",
       "  u'bregion': u'cingulate cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'adhd rating'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb8a'),\n",
       "  u'bregion': u'angular gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'trail making test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb7d'),\n",
       "  u'bregion': u'parietal region',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb79'),\n",
       "  u'bregion': u'hippocampus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'hooper'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb68'),\n",
       "  u'bregion': u'thalamus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'manifest anxiety scale'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb41'),\n",
       "  u'bregion': u'parahippocampal gyri',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'clock drawing'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb3d'),\n",
       "  u'bregion': u'supramarginal gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'clock drawing'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb34'),\n",
       "  u'bregion': u'orbital gyri',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'mattis'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb31'),\n",
       "  u'bregion': u'thalamencephalon',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'asperger'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeb04'),\n",
       "  u'bregion': u'angular gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'mattis'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeafb'),\n",
       "  u'bregion': u'corpus callosum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'severe impairment battery'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeaf2'),\n",
       "  u'bregion': u'thalamic nuclei',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'beck depression'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeae5'),\n",
       "  u'bregion': u'olfactory tract',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeae4'),\n",
       "  u'bregion': u'motor cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'asperger'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeab6'),\n",
       "  u'bregion': u'primary visual cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'brief test of attention'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeab5'),\n",
       "  u'bregion': u'precuneus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'iowa gambling task'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeab4'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'bayley'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffeaa8'),\n",
       "  u'bregion': u'posterior cingulate gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'barratt'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea99'),\n",
       "  u'bregion': u'subiculum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'childhood trauma questionnaire'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea7e'),\n",
       "  u'bregion': u'subthalamic nucleus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'benton facial'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea57'),\n",
       "  u'bregion': u'corpus callosum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'brief symptom inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea56'),\n",
       "  u'bregion': u'temporal lobe',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'hopkins verbal learning test-r'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea4e'),\n",
       "  u'bregion': u'limbic system',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wisconsin card sorting test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea3f'),\n",
       "  u'bregion': u'somatosensory cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'grip strength'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea34'),\n",
       "  u'bregion': u'hippocampal gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wms-iii'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea2f'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'western aphasia battery'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea21'),\n",
       "  u'bregion': u'corpus callosum',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wisc-iv'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea1f'),\n",
       "  u'bregion': u'anterior cingulate gyrus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'clock drawing'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea15'),\n",
       "  u'bregion': u'posterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'quality of life inventory'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffea0a'),\n",
       "  u'bregion': u'thalamus',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'go-no-go'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9ff'),\n",
       "  u'bregion': u'temporal cortices',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'adhd rating'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9f3'),\n",
       "  u'bregion': u'parietal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'word memory test'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9f0'),\n",
       "  u'bregion': u'wernicke area',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'strands'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9ef'),\n",
       "  u'bregion': u'anterior cingulate',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'grooved pegboard'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9e8'),\n",
       "  u'bregion': u'prefrontal cortex',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'wrat-3'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9e7'),\n",
       "  u'bregion': u'thalamic nuclei',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'reinforcement learning'},\n",
       " {u'_id': ObjectId('556ce8e0ea638733b7ffe9db'),\n",
       "  u'bregion': u'premotor areas',\n",
       "  u'co-occ_count': 1,\n",
       "  u'scale': u'stroop color'},\n",
       " ...]"
      ]
     },
     "execution_count": 21,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "# cursor = nwfeq2.find({'scale': {\"$ne\" : \"quest\"}}).sort([(\"co-occ_count\", -1)])\n",
    "# cursor = nwf.find({\"bregion\":{\"$ne\" : \"\"}}, {\"scale\":{\"$ne\" : \"\"}}).sort([(\"co-occ_count\", -1)])\n",
    "# cursor = nwf.find({ \"$and\": [ { \"scale\": { \"$ne\": \"\" } }, { \"bregion\": { \"$ne\": \"\" } } ] }).sort([(\"co-occ_count\", -1)])\n",
    "cursor = nwf.find({ \"$and\": [ { \"$where\": \"this.scale.length > 5\" }, { \"$where\": \"this.bregion.length > 5\" } ] }).sort([(\"co-occ_count\", -1)])\n",
    "\n",
    "list(cursor)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 11,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "# cursor_grouped = nwfeq2.aggregate(\n",
    "#    [\n",
    "#      { \"$group\" : { \"_id\" : \"$co-occur_count\", \"nwfeq2\": { \"$push\": \"$scale\" } } }\n",
    "#    ]\n",
    "# )\n",
    "# list(cursor_grouped)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "# vectorizer = TfidfVectorizer(stop_words=\"english\", lowercase=False, encoding=u'utf-8')\n",
    "# doc_vectors = vectorizer.fit_transform(content_vals)\n",
    "# idf = vectorizer._tfidf.idf_\n",
    "# idf_dic = dict(zip(vectorizer.get_feature_names(), idf))\n",
    "# def format_brain(fname):\n",
    "#     my_file = open(fname, \"r\")\n",
    "#     read_file = my_file.read()\n",
    "#     my_file.close()\n",
    "#     return list(set(read_file.translate(string.maketrans(\"\",\"\"), string.punctuation).lower().split(\"\\n\")))\n",
    "\n",
    "# def format_scale(fname):\n",
    "#     my_file = open(fname, \"r\")\n",
    "#     lines = list(set(my_file.read().split(\"\\r\")))\n",
    "#     return [line.split(',')[0] for line in lines]\n",
    "\n",
    "# bterms = format_brain(\"mesh_brain3.txt\")\n",
    "# sterms = format_scale(\"mmy_index.txt\")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "# nw2 = db.neuro_words2\n",
    "# nw2.delete_many({\"$where\":\"this.content.length < 100\"})\n",
    "# nw2.delete_many({\"$where\":\"typeof(this.content) != 'string'\"})\n",
    "# thing = nw.find({},{\"scales\":1, \"_id\":0})\n",
    "# list(thing)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": true
   },
   "outputs": [],
   "source": []
  }
 ],
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   "codemirror_mode": {
    "name": "ipython",
    "version": 2
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   "file_extension": ".py",
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