<filename>src/drugcentral.py
#!/usr/bin/env python3

import io
import csv
from model.network import Network
from model.drug import Drug
from model.disease import Disease
from model.edge import Edge

network = Network()
with io.open('../data/DrugCentral/drugcentral_mappings.csv', 'r', encoding='utf-8', newline='') as f:
    reader = csv.reader(f, delimiter=',', quotechar='"')
    next(reader, None)
    for row in reader:
        ids = ['DrugCentral:%s' % row[0], 'DrugBank:%s' % row[1]]
        if row[2]:
            ids.append('RxNorm:%s' % row[2])
        network.add_node(Drug(ids, [row[3]]))

with io.open('../data/DrugCentral/drugcentral_indications.csv', 'r', encoding='utf-8', newline='') as f:
    reader = csv.reader(f, delimiter=',', quotechar='"')
    next(reader, None)
    for row in reader:
        disease = Disease(['SnoMedCT:%s' % row[2], 'UMLS:%s' % row[3]], [row[1]])
        network.add_node(disease)
        drug = network.get_node_by_id('DrugBank:%s' % row[0], 'Drug')
        e = Edge(drug, disease, 'INDICATES', {'source': 'DrugCentral'})
        network.add_edge(e)

with io.open('../data/DrugCentral/drugcentral_contraindications.csv', 'r', encoding='utf-8', newline='') as f:
    reader = csv.reader(f, delimiter=',', quotechar='"')
    next(reader, None)
    for row in reader:
        disease = Disease(['SnoMedCT:%s' % row[2], 'UMLS:%s' % row[3]], [row[1]])
        network.add_node(disease)
        drug = network.get_node_by_id('DrugBank:%s' % row[0], 'Drug')
        e = Edge(drug, disease, 'CONTRAINDICATES', {'source': 'DrugCentral'})
        network.add_edge(e)

network.save('../data/DrugCentral/graph.json')

<filename>src/drugcentral.py
#!/usr/bin/env python3

import io
import csv
from model.network import Network
from model.drug import Drug
from model.disease import Disease
from model.edge import Edge

network = Network()
with io.open('../data/DrugCentral/drugcentral_mappings.csv', 'r', encoding='utf-8', newline='') as f:
    reader = csv.reader(f, delimiter=',', quotechar='"')
    next(reader, None)
    for row in reader:
        ids = ['DrugCentral:%s' % row[0], 'DrugBank:%s' % row[1]]
        if row[2]:
            ids.append('RxNorm:%s' % row[2])
        network.add_node(Drug(ids, [row[3]]))

with io.open('../data/DrugCentral/drugcentral_indications.csv', 'r', encoding='utf-8', newline='') as f:
    reader = csv.reader(f, delimiter=',', quotechar='"')
    next(reader, None)
    for row in reader:
        disease = Disease(['SnoMedCT:%s' % row[2], 'UMLS:%s' % row[3]], [row[1]])
        network.add_node(disease)
        drug = network.get_node_by_id('DrugBank:%s' % row[0], 'Drug')
        e = Edge(drug, disease, 'INDICATES', {'source': 'DrugCentral'})
        network.add_edge(e)

with io.open('../data/DrugCentral/drugcentral_contraindications.csv', 'r', encoding='utf-8', newline='') as f:
    reader = csv.reader(f, delimiter=',', quotechar='"')
    next(reader, None)
    for row in reader:
        disease = Disease(['SnoMedCT:%s' % row[2], 'UMLS:%s' % row[3]], [row[1]])
        network.add_node(disease)
        drug = network.get_node_by_id('DrugBank:%s' % row[0], 'Drug')
        e = Edge(drug, disease, 'CONTRAINDICATES', {'source': 'DrugCentral'})
        network.add_edge(e)

network.save('../data/DrugCentral/graph.json')

#!/usr/bin/env python3