andrea.mannocci
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registries_analysis
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minor changes to fix relative paths

This commit is contained in:
miconis 2022-02-17 10:23:06 +01:00
parent 3353c08405
commit efdbc76181
2 changed files with 15 additions and 18 deletions
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23
src/deduplication/ds_to_json.py
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@ -27,24 +27,19 @@ def testValidJSON(x):
except:
return False
conf = SparkConf().setAppName('fairshare').setMaster('local[*]')
conf = SparkConf().setAppName('Create JSON Dump').setMaster('local[*]')
sc = SparkContext(conf=conf)
spark = SparkSession.builder.config(conf=conf).getOrCreate()
deleteDir("datasources")
# RAW DUMPS PATH
fairsharing_path = "../../data/raw/fairsharing_dump_api_02_2022.json"
opendoar_path = "../../data/raw/openDoar.tsv"
re3data_path = "../../data/raw/re3data.tsv"
roar_path = "../../data/raw/export_roar_CSV.csv"
fairsharing_path = "../data/raw/fairsharing_dump_api_02_2022.json"
opendoar_path = "../data/raw/openDoar.tsv"
re3data_path = "../data/raw/re3data.tsv"
roar_path = "../data/raw/export_roar_CSV.csv"
output_path = "../../data/interim/datasources"
# #FAIRSHARING V1.0
# #FILE STRUCTURE: Full name of record | Short name | FAIRsharing URL | Homepage URL of the resource | Country Field | Subjects
# fairsharing = sc.textFile("/Users/miconis/Desktop/Fairsharing dedup/registries_analysis/data/raw/FAIRsharingDBrec_summary20210304.csv")
# fairsharing = fairsharing.filter(lambda x: " FAIRsharing URL " not in x.split("|")).map(lambda x: dict(fullname=x.split("|")[0], shortname=x.split("|")[1], fairshare_url=x.split("|")[2], homepage_url=x.split("|")[3], country=x.split("|")[4], subjects=x.split("|")[5]))
# fairsharing = fairsharing.map(lambda x: dict(id=x['fairshare_url'], originalId=x['fairshare_url'], websiteurl=x['homepage_url'], name=x['fullname'], alternativeNames=[x['shortname']], collectedfrom="FAIRsharing"))
#
# print "FAIRSHARING:" + str(fairsharing.count())
deleteDir(output_path)
#FAIRSHARING (file structure: )
fairsharing = sc.textFile(fairsharing_path).filter(testValidJSON).map(json.loads)
@ -73,4 +68,4 @@ print "ROAR:" + str(roar.count())
all_ds = fairsharing.union(opendoar).union(re3data).union(roar)
all_ds.map(json.dumps).saveAsTextFile("datasources")
all_ds.map(json.dumps).saveAsTextFile(output_path)

10
src/deduplication/mergerels_to_csv.py
View File

@ -21,11 +21,13 @@ def relToRe3data(x):
rel.append((re3data, id))
return rel
conf = SparkConf().setAppName('FAIRsharing').setMaster('local[*]')
conf = SparkConf().setAppName('Create Dedup CSV').setMaster('local[*]')
sc = SparkContext(conf=conf)
spark = SparkSession.builder.config(conf=conf).getOrCreate()
datasources = sc.textFile("datasources").map(json.loads)
input_path = "../../data/interim/datasources"
datasources = sc.textFile(input_path).map(json.loads)
print("TOTAL DS", datasources.count())
print("ROAR", datasources.filter(lambda x: "roar" in x['collectedfrom']).count())
@ -44,9 +46,9 @@ joinRes = joinRes.map(lambda x: dict(dedup_id=x[1][0], duplicate_id=x[0], origin
#CREATE CSV FILE (file structure: dedup_id; duplicate_id; original_id; name; collectedfrom
csv_name = "ds_dedup_" + str(datetime.now()).split(".")[0].replace(" ", "_").replace(":", ".") + ".csv"
f = open(csv_name, "w")
f = open("../../data/processed/" + csv_name, "w")
f.write("dedup_id;duplicate_id;original_id;name;collectedfrom\n")
for row in joinRes.collect():
line = row['dedup_id'] + ";" + row['duplicate_id'] + ";" + row['original_id'] + ";\"" + row['name'] + "\";" + row['collectedfrom'] + "\n"
f.write(line.encode("utf-8"))
f.close()
f.close()