cyclecycle

import json

def load_json(path):
    with open(path, encoding='utf-8') as f:
        return json.load(f)

cyclecycle

import gzip
import jsonlines  # pip install jsonlines

def load_jsonlines(path):
    is_gzip = path[-2:] == 'gz'
    if is_gzip:
        with gzip.open(path, 'rb') as f:
            reader = jsonlines.Reader(f)
            for obj in reader:
                yield obj

cyclecycle

from itertools import groupby

def groupby_(obj, key=None, to_lists=True):
    sorted_ = sorted(obj, key=key)
    grouped = groupby(sorted_, key)
    if to_lists:
        grouped = {k: list(g) for k, g in grouped}
    return grouped
  
  unique_theme_key = lambda mapping: (mapping['theme']['name']), mapping['theme']['group'])

cyclecycle

'use strict';


//---------//
// Imports //
//---------//

const Koa = require('koa')
  , sqliteToRest = require('sqlite-to-rest')
  , cors = require('@koa/cors');

cyclecycle

{
  "sent_i": 3,
  "start_idx": 273,
  "text": "Overstimulation of mTOR by its ligands, amino acids, sugars, and/or growth factors leads to physiological disorders, including cancer and neurodegenerative diseases",
  "tokens": [
    {
      "dep_": "nsubj",
      "dep_i": 12,
      "i": 0,
      "idx": 0,

cyclecycle

match 
    $triggering_relationship (triggering: $triggering, triggered: $triggered) isa triggering-relationship;
    $triggering has name "B. fragilis" has valence "UP";
    $triggered has name "cancer" has valence "UP";
get
    $triggering_relationship;

cyclecycle

match 
    $triggering_relationship (triggering: $triggering, triggered: $triggered) isa triggering-relationship;
    $triggered has name "reactive oxygen species" has valence "UP";
get
    $triggering_relationship;

cyclecycle

match 
    $triggering_relationship (triggering: $triggering, triggered: $triggered) isa triggering-relationship;
    $triggering has name "B. fragilis" has valence "UP";
get
    $triggering_relationship;

cyclecycle

triggering-cascade sub rule
    when {
        $rel (triggering: $triggering, triggered: $triggered) isa triggering-relationship;
        $rel2 (triggering: $triggered, triggered: $triggered2) isa triggering-relationship;
    }
    then {
        (triggering: $triggering, triggered: $triggered2) isa triggering-relationship;
    };

cyclecycle

match 
    $triggering_relationship (triggering: $triggering, triggered: $triggered) isa triggering-relationship;
    $triggering has name "B. fragilis";
    $triggered has name "spermine oxidase";
get
    $triggering_relationship;