Update submissions to parse using the backfill queue.

comments_2_parquet.sh

@@ -1,5 +1,9 @@
+## needs to be run by hand since i don't have a nice way of waiting on a parallel-sql job to complete 
+
 #!/usr/bin/env bash
 
+
+
 echo "#!/usr/bin/bash" > job_script.sh
 echo "source $(pwd)/../bin/activate" >> job_script.sh
 echo "python3 $(pwd)/comments_2_parquet_part1.py" >> job_script.sh

submissions_2_parquet.sh

@@ -1,10 +1,8 @@
+## this should be run manually since we don't have a nice way to wait on parallel_sql jobs
+
 #!/usr/bin/env bash
 
-echo "!#/usr/bin/bash" > job_script.sh
+./parse_submissions.sh
-echo "source $(pwd)/../bin/activate" >> job_script.sh
-echo "python3 $(pwd)/submissions_2_parquet_part1.py" >> job_script.sh
-
-srun -p comdata -A comdata --nodes=1 --mem=120G --time=48:00:00 job_script.sh
 
 start_spark_and_run.sh 1 $(pwd)/submissions_2_parquet_part2.py
 

submissions_2_parquet_part1.py

@@ -4,7 +4,6 @@
 # 1. from gz to arrow parquet (this script) 
 # 2. from arrow parquet to spark parquet (submissions_2_parquet_part2.py)
 
-import json
 from datetime import datetime
 from multiprocessing import Pool
 from itertools import islice
@@ -12,19 +11,23 @@ from helper import find_dumps, open_fileset
 import pandas as pd
 import pyarrow as pa
 import pyarrow.parquet as pq
+import simdjson
+import fire
+import os
 
+parser = simdjson.Parser()
 
 def parse_submission(post, names = None):
     if names is None:
         names = ['id','author','subreddit','title','created_utc','permalink','url','domain','score','ups','downs','over_18','has_media','selftext','retrieved_on','num_comments','gilded','edited','time_edited','subreddit_type','subreddit_id','subreddit_subscribers','name','is_self','stickied','quarantine','error']
 
     try:
-        post = json.loads(post)
+        post = parser.parse(post)
-    except (json.decoder.JSONDecodeError, UnicodeDecodeError) as e:
+    except (ValueError) as e:
         #        print(e)
         #        print(post)
         row = [None for _ in names]
-        row[-1] = "json.decoder.JSONDecodeError|{0}|{1}".format(e,post)
+        row[-1] = "Error parsing json|{0}|{1}".format(e,post)
         return tuple(row)
 
     row = []
@@ -55,55 +58,61 @@ def parse_submission(post, names = None):
             row.append(post[name])
     return tuple(row)
 
-dumpdir = "/gscratch/comdata/raw_data/reddit_dumps/submissions"
+def parse_dump(partition):
 
-files = list(find_dumps(dumpdir))
+    N=10000
+    stream = open_fileset([f"/gscratch/comdata/raw_data/reddit_dumps/submissions/{partition}"])
+    rows = map(parse_submission,stream)
+    schema = pa.schema([
+        pa.field('id', pa.string(),nullable=True),
+        pa.field('author', pa.string(),nullable=True),
+        pa.field('subreddit', pa.string(),nullable=True),
+        pa.field('title', pa.string(),nullable=True),
+        pa.field('created_utc', pa.timestamp('ms'),nullable=True),
+        pa.field('permalink', pa.string(),nullable=True),
+        pa.field('url', pa.string(),nullable=True),
+        pa.field('domain', pa.string(),nullable=True),
+        pa.field('score', pa.int64(),nullable=True),
+        pa.field('ups', pa.int64(),nullable=True),
+        pa.field('downs', pa.int64(),nullable=True),
+        pa.field('over_18', pa.bool_(),nullable=True),
+        pa.field('has_media',pa.bool_(),nullable=True),
+        pa.field('selftext',pa.string(),nullable=True),
+        pa.field('retrieved_on', pa.timestamp('ms'),nullable=True),
+        pa.field('num_comments', pa.int64(),nullable=True),
+        pa.field('gilded',pa.int64(),nullable=True),
+        pa.field('edited',pa.bool_(),nullable=True),
+        pa.field('time_edited',pa.timestamp('ms'),nullable=True),
+        pa.field('subreddit_type',pa.string(),nullable=True),
+        pa.field('subreddit_id',pa.string(),nullable=True),
+        pa.field('subreddit_subscribers',pa.int64(),nullable=True),
+        pa.field('name',pa.string(),nullable=True),
+        pa.field('is_self',pa.bool_(),nullable=True),
+        pa.field('stickied',pa.bool_(),nullable=True),
+        pa.field('quarantine',pa.bool_(),nullable=True),
+        pa.field('error',pa.string(),nullable=True)])
 
-pool = Pool(28)
+    if not os.path.exists("/gscratch/comdata/output/temp/reddit_submissions.parquet/"):
+        os.mkdir("/gscratch/comdata/output/temp/reddit_submissions.parquet/")
 
-stream = open_fileset(files)
+    with pq.ParquetWriter(f"/gscratch/comdata/output/temp/reddit_submissions.parquet/{partition}",schema=schema,compression='snappy',flavor='spark') as writer:
+        while True:
+            chunk = islice(rows,N)
+            pddf = pd.DataFrame(chunk, columns=schema.names)
+            table = pa.Table.from_pandas(pddf,schema=schema)
+            if table.shape[0] == 0:
+                break
+            writer.write_table(table)
 
-N = 100000
+        writer.close()
 
-rows = pool.imap_unordered(parse_submission, stream, chunksize=int(N/28))
+def gen_task_list(dumpdir="/gscratch/comdata/raw_data/reddit_dumps/submissions"):
-
+    files = list(find_dumps(dumpdir,base_pattern="RS_20*.*"))
-schema = pa.schema([
+    with open("parse_submissions_task_list",'w') as of:
-    pa.field('id', pa.string(),nullable=True),
+        for fpath in files:
-    pa.field('author', pa.string(),nullable=True),
+            partition = os.path.split(fpath)[1]
-    pa.field('subreddit', pa.string(),nullable=True),
+            of.write(f'python3 submissions_2_parquet_part1.py parse_dump {partition}\n')
-    pa.field('title', pa.string(),nullable=True),
-    pa.field('created_utc', pa.timestamp('ms'),nullable=True),
-    pa.field('permalink', pa.string(),nullable=True),
-    pa.field('url', pa.string(),nullable=True),
-    pa.field('domain', pa.string(),nullable=True),
-    pa.field('score', pa.int64(),nullable=True),
-    pa.field('ups', pa.int64(),nullable=True),
-    pa.field('downs', pa.int64(),nullable=True),
-    pa.field('over_18', pa.bool_(),nullable=True),
-    pa.field('has_media',pa.bool_(),nullable=True),
-    pa.field('selftext',pa.string(),nullable=True),
-    pa.field('retrieved_on', pa.timestamp('ms'),nullable=True),
-    pa.field('num_comments', pa.int64(),nullable=True),
-    pa.field('gilded',pa.int64(),nullable=True),
-    pa.field('edited',pa.bool_(),nullable=True),
-    pa.field('time_edited',pa.timestamp('ms'),nullable=True),
-    pa.field('subreddit_type',pa.string(),nullable=True),
-    pa.field('subreddit_id',pa.string(),nullable=True),
-    pa.field('subreddit_subscribers',pa.int64(),nullable=True),
-    pa.field('name',pa.string(),nullable=True),
-    pa.field('is_self',pa.bool_(),nullable=True),
-    pa.field('stickied',pa.bool_(),nullable=True),
-    pa.field('quarantine',pa.bool_(),nullable=True),
-    pa.field('error',pa.string(),nullable=True)])
-
-with  pq.ParquetWriter("/gscratch/comdata/output/reddit_submissions.parquet_temp",schema=schema,compression='snappy',flavor='spark') as writer:
-    while True:
-        chunk = islice(rows,N)
-        pddf = pd.DataFrame(chunk, columns=schema.names)
-        table = pa.Table.from_pandas(pddf,schema=schema)
-        if table.shape[0] == 0:
-            break
-        writer.write_table(table)
-
-    writer.close()
 
+if __name__ == "__main__":
+    fire.Fire({'parse_dump':parse_dump,
+              'gen_task_list':gen_task_list})

submissions_2_parquet_part2.py

@@ -17,7 +17,7 @@ conf = conf.set('spark.sql.crossJoin.enabled',"true")
 conf = conf.set('spark.debug.maxToStringFields',200)
 sqlContext = pyspark.SQLContext(sc)
 
-df = spark.read.parquet("/gscratch/comdata/output/reddit_submissions_by_subreddit.parquet")
+df = spark.read.parquet("/gscratch/comdata/output/temp/reddit_submissions.parquet/")
 
 df = df.withColumn("subreddit_2", f.lower(f.col('subreddit')))
 df = df.drop('subreddit')
@@ -32,13 +32,11 @@ df = df.withColumn("subreddit_hash",f.sha2(f.col("subreddit"), 256)[0:3])
 df = df.repartition("subreddit")
 df2 = df.sort(["subreddit","CreatedAt","id"],ascending=True)
 df2 = df.sortWithinPartitions(["subreddit","CreatedAt","id"],ascending=True)
-df2.write.parquet("/gscratch/comdata/output/reddit_submissions_by_subreddit.parquet2", mode='overwrite',compression='snappy')
+df2.write.parquet("/gscratch/comdata/output/temp/reddit_submissions_by_subreddit.parquet2", mode='overwrite',compression='snappy')
 
 
 # # we also want to have parquet files sorted by author then reddit. 
 df = df.repartition("author")
 df3 = df.sort(["author","CreatedAt","id"],ascending=True)
 df3 = df.sortWithinPartitions(["author","CreatedAt","id"],ascending=True)
-df3.write.parquet("/gscratch/comdata/output/reddit_submissions_by_author.parquet2", mode='overwrite',compression='snappy')
+df3.write.parquet("/gscratch/comdata/output/temp/reddit_submissions_by_author.parquet2", mode='overwrite',compression='snappy')
-
-os.remove("/gscratch/comdata/output/reddit_submissions.parquet_temp")