X-Git-Url: https://code.communitydata.science/cdsc_reddit.git/blobdiff_plain/f20365c07e93ae71b95af314f869fcdcfb58100f..541e125b28dbca5c06d2160a5cd59ce112657b2a:/similarities/weekly_cosine_similarities.py diff --git a/similarities/weekly_cosine_similarities.py b/similarities/weekly_cosine_similarities.py old mode 100644 new mode 100755 index 044ee75..6ce30b8 --- a/similarities/weekly_cosine_similarities.py +++ b/similarities/weekly_cosine_similarities.py @@ -1,81 +1,143 @@ +#!/usr/bin/env python3 from pyspark.sql import functions as f from pyspark.sql import SparkSession from pyspark.sql import Window import numpy as np import pyarrow +import pyarrow.dataset as ds import pandas as pd import fire -from itertools import islice +from itertools import islice, chain from pathlib import Path -from similarities_helper import * +from similarities_helper import pull_tfidf, column_similarities, write_weekly_similarities, lsi_column_similarities +from scipy.sparse import csr_matrix from multiprocessing import Pool, cpu_count +from functools import partial -def _week_similarities(tempdir, term_colname, week): - print(f"loading matrix: {week}") - mat = read_tfidf_matrix_weekly(tempdir.name, term_colname, week) - print('computing similarities') - sims = column_similarities(mat) - del mat +infile = "/gscratch/comdata/output/reddit_similarity/tfidf_weekly/comment_authors_10k.parquet" +tfidf_path = "/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/tfidf/comment_authors_compex.parquet" +min_df=None +included_subreddits="/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/included_subreddits.txt" +max_df = None +topN=100 +term_colname='author' +# outfile = '/gscratch/comdata/output/reddit_similarity/weekly/comment_authors_test.parquet' +# included_subreddits=None - names = subreddit_names.loc[subreddit_names.week == week] - sims = pd.DataFrame(sims.todense()) +def _week_similarities(week, simfunc, tfidf_path, term_colname, min_df, max_df, included_subreddits, topN, outdir:Path, subreddit_names, nterms): + term = term_colname + term_id = term + '_id' + term_id_new = term + '_id_new' + print(f"loading matrix: {week}") - sims = sims.rename({i: sr for i, sr in enumerate(names.subreddit.values)}, axis=1) - sims['_subreddit'] = names.subreddit.values + entries = pull_tfidf(infile = tfidf_path, + term_colname=term_colname, + min_df=min_df, + max_df=max_df, + included_subreddits=included_subreddits, + topN=topN, + week=week, + rescale_idf=False) + + tfidf_colname='tf_idf' + # if the max subreddit id we found is less than the number of subreddit names then we have to fill in 0s + mat = csr_matrix((entries[tfidf_colname],(entries[term_id_new]-1, entries.subreddit_id_new-1)),shape=(nterms,subreddit_names.shape[0])) - write_weekly_similarities(outfile, sims, week, names) + print('computing similarities') + sims = simfunc(mat) + del mat + sims = pd.DataFrame(sims) + sims = sims.rename({i: sr for i, sr in enumerate(subreddit_names.subreddit.values)}, axis=1) + sims['_subreddit'] = subreddit_names.subreddit.values + outfile = str(Path(outdir) / str(week)) + write_weekly_similarities(outfile, sims, week, subreddit_names) -#tfidf = spark.read.parquet('/gscratch/comdata/users/nathante/subreddit_tfidf_weekly.parquet') -def cosine_similarities_weekly(tfidf_path, outfile, term_colname, min_df = None, included_subreddits = None, topN = 500): - spark = SparkSession.builder.getOrCreate() - conf = spark.sparkContext.getConf() - print(outfile) - tfidf = spark.read.parquet(tfidf_path) - - if included_subreddits is None: - included_subreddits = select_topN_subreddits(topN) - else: - included_subreddits = set(open(included_subreddits)) +def pull_weeks(batch): + return set(batch.to_pandas()['week']) - print(f"computing weekly similarities for {len(included_subreddits)} subreddits") +# This requires a prefit LSI model, since we shouldn't fit different LSI models for every week. +def cosine_similarities_weekly_lsi(n_components=100, lsi_model=None, *args, **kwargs): + term_colname= kwargs.get('term_colname') + #lsi_model = "/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/similarity/comment_terms_compex_LSI/1000_term_LSIMOD.pkl" - print("creating temporary parquet with matrix indicies") - tempdir = prep_tfidf_entries_weekly(tfidf, term_colname, min_df, max_df=None, included_subreddits=included_subreddits) + # simfunc = partial(lsi_column_similarities,n_components=n_components,n_iter=n_iter,random_state=random_state,algorithm='randomized',lsi_model_load=lsi_model) - tfidf = spark.read.parquet(tempdir.name) + simfunc = partial(lsi_column_similarities,n_components=n_components,n_iter=kwargs.get('n_iter'),random_state=kwargs.get('random_state'),algorithm=kwargs.get('algorithm'),lsi_model_load=lsi_model) - # the ids can change each week. - subreddit_names = tfidf.select(['subreddit','subreddit_id_new','week']).distinct().toPandas() - subreddit_names = subreddit_names.sort_values("subreddit_id_new") - subreddit_names['subreddit_id_new'] = subreddit_names['subreddit_id_new'] - 1 - spark.stop() + return cosine_similarities_weekly(*args, simfunc=simfunc, **kwargs) - weeks = sorted(list(subreddit_names.week.drop_duplicates())) +#tfidf = spark.read.parquet('/gscratch/comdata/users/nathante/subreddit_tfidf_weekly.parquet') +def cosine_similarities_weekly(tfidf_path, outfile, term_colname, min_df = None, max_df=None, included_subreddits = None, topN = 500, simfunc=column_similarities): + print(outfile) # do this step in parallel if we have the memory for it. # should be doable with pool.map - def week_similarities_helper(week): - _week_similarities(tempdir, term_colname, week) + spark = SparkSession.builder.getOrCreate() + df = spark.read.parquet(tfidf_path) + + # load subreddits + topN + + subreddit_names = df.select(['subreddit','subreddit_id']).distinct().toPandas() + subreddit_names = subreddit_names.sort_values("subreddit_id") + nterms = df.select(f.max(f.col(term_colname + "_id")).alias('max')).collect()[0].max + weeks = df.select(f.col("week")).distinct().toPandas().week.values + spark.stop() + + print(f"computing weekly similarities") + week_similarities_helper = partial(_week_similarities,simfunc=simfunc, tfidf_path=tfidf_path, term_colname=term_colname, outdir=outfile, min_df=min_df,max_df=max_df,included_subreddits=included_subreddits,topN=topN, subreddit_names=subreddit_names,nterms=nterms) + + pool = Pool(cpu_count()) + + list(pool.imap(week_similarities_helper,weeks)) + pool.close() + # with Pool(cpu_count()) as pool: # maybe it can be done with 40 cores on the huge machine? - with Pool(cpu_count()) as pool: # maybe it can be done with 40 cores on the huge machine? - list(pool.map(week_similarities_helper,weeks)) -def author_cosine_similarities_weekly(outfile, min_df=2 , included_subreddits=None, topN=500): - return cosine_similarities_weekly('/gscratch/comdata/output/reddit_similarity/tfidf_weekly/comment_authors.parquet', +def author_cosine_similarities_weekly(outfile, infile='/gscratch/comdata/output/reddit_similarity/tfidf_weekly/comment_authors_test.parquet', min_df=2, max_df=None, included_subreddits=None, topN=500): + return cosine_similarities_weekly(infile, outfile, 'author', min_df, + max_df, included_subreddits, topN) -def term_cosine_similarities_weekly(outfile, min_df=None, included_subreddits=None, topN=500): - return cosine_similarities_weekly('/gscratch/comdata/output/reddit_similarity/tfidf_weekly/comment_terms.parquet', - outfile, - 'term', - min_df, - included_subreddits, - topN) +def term_cosine_similarities_weekly(outfile, infile='/gscratch/comdata/output/reddit_similarity/tfidf_weekly/comment_terms.parquet', min_df=None, max_df=None, included_subreddits=None, topN=None): + return cosine_similarities_weekly(infile, + outfile, + 'term', + min_df, + max_df, + included_subreddits, + topN) + + +def author_cosine_similarities_weekly_lsi(outfile, infile = '/gscratch/comdata/output/reddit_similarity/tfidf_weekly/comment_authors_test.parquet', min_df=2, max_df=None, included_subreddits=None, topN=None,n_components=100,lsi_model=None): + return cosine_similarities_weekly_lsi(infile, + outfile, + 'author', + min_df, + max_df, + included_subreddits, + topN, + n_components=n_components, + lsi_model=lsi_model) + + +def term_cosine_similarities_weekly_lsi(outfile, infile = '/gscratch/comdata/output/reddit_similarity/tfidf_weekly/comment_terms.parquet', min_df=None, max_df=None, included_subreddits=None, topN=500,n_components=100,lsi_model=None): + return cosine_similarities_weekly_lsi(infile, + outfile, + 'term', + min_df, + max_df, + included_subreddits, + topN, + n_components=n_components, + lsi_model=lsi_model) if __name__ == "__main__": fire.Fire({'authors':author_cosine_similarities_weekly, - 'terms':term_cosine_similarities_weekly}) + 'terms':term_cosine_similarities_weekly, + 'authors-lsi':author_cosine_similarities_weekly_lsi, + 'terms-lsi':term_cosine_similarities_weekly + })