X-Git-Url: https://code.communitydata.science/cdsc_reddit.git/blobdiff_plain/b4dd9acbd8e499d87714413b8260240341ebf7d7..55b75ea6fcf421e95f4fe6b180dcec6e64676619:/similarities/weekly_cosine_similarities.py?ds=sidebyside diff --git a/similarities/weekly_cosine_similarities.py b/similarities/weekly_cosine_similarities.py old mode 100644 new mode 100755 index 4d496f0..45327c7 --- a/similarities/weekly_cosine_similarities.py +++ b/similarities/weekly_cosine_similarities.py @@ -1,73 +1,149 @@ +#!/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 +import pickle +# tfidf_path = "/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/similarity_weekly/comment_authors_tfidf.parquet" +# #tfidf_path = "/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data//comment_authors_compex.parquet" +# min_df=2 +# 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 +outfile="/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/similarity_weekly/comment_authors.parquet"; infile="/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/tfidf_weekly/comment_authors_tfidf.parquet"; included_subreddits="/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/included_subreddits.txt"; lsi_model="/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/similarity/comment_authors_compex_LSI/2000_authors_LSIMOD.pkl"; n_components=1500; algorithm="randomized"; term_colname='author'; tfidf_path=infile; random_state=1968; -#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) +# static_tfidf = "/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/tfidf/comment_authors_compex.parquet" +# dftest = spark.read.parquet(static_tfidf) + +def _week_similarities(week, simfunc, tfidf_path, term_colname, included_subreddits, outdir:Path, subreddit_names, nterms, topN=None, min_df=None, max_df=None): + term = term_colname + term_id = term + '_id' + term_id_new = term + '_id_new' + print(f"loading matrix: {week}") + + entries = pull_tfidf(infile = tfidf_path, + term_colname=term_colname, + included_subreddits=included_subreddits, + topN=topN, + week=week.isoformat(), + rescale_idf=False) - if included_subreddits is None: - included_subreddits = select_topN_subreddits(topN) - else: - included_subreddits = set(open(included_subreddits)) + 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])) + print('computing similarities') + print(simfunc) + sims = simfunc(mat) + del mat + sims = next(sims)[0] + 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) - print(f"computing weekly similarities for {len(included_subreddits)} subreddits") +def pull_weeks(batch): + return set(batch.to_pandas()['week']) - print("creating temporary parquet with matrix indicies") - tempdir = prep_tfidf_entries_weekly(tfidf, term_colname, min_df, included_subreddits) +# This requires a prefit LSI model, since we shouldn't fit different LSI models for every week. +def cosine_similarities_weekly_lsi(*args, n_components=100, lsi_model=None, **kwargs): + print(args) + print(kwargs) + term_colname= kwargs.get('term_colname') + # lsi_model = "/gscratch/comdata/users/nathante/competitive_exclusion_reddit/data/similarity/comment_authors_compex_LSI/1000_author_LSIMOD.pkl" - tfidf = spark.read.parquet(tempdir.name) + lsi_model = pickle.load(open(lsi_model,'rb')) + #simfunc = partial(lsi_column_similarities,n_components=n_components,random_state=random_state,algorithm='randomized',lsi_model=lsi_model) + simfunc = partial(lsi_column_similarities,n_components=n_components,random_state=kwargs.get('random_state'),lsi_model=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())) - for week in weeks: - print(f"loading matrix: {week}") - mat = read_tfidf_matrix_weekly(tempdir.name, term_colname, week) - print('computing similarities') - sims = column_similarities(mat) - del mat +#tfidf = spark.read.parquet('/gscratch/comdata/users/nathante/subreddit_tfidf_weekly.parquet') +def cosine_similarities_weekly(tfidf_path, outfile, term_colname, included_subreddits = None, topN = None, simfunc=column_similarities, min_df=None,max_df=None): + print(outfile) + # do this step in parallel if we have the memory for it. + # should be doable with pool.map + + spark = SparkSession.builder.getOrCreate() + df = spark.read.parquet(tfidf_path) - names = subreddit_names.loc[subreddit_names.week == week] - sims = pd.DataFrame(sims.todense()) + # 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() - sims = sims.rename({i: sr for i, sr in enumerate(names.subreddit.values)}, axis=1) - sims['subreddit'] = names.subreddit.values + 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=None, subreddit_names=subreddit_names,nterms=nterms) - write_weekly_similarities(outfile, sims, week, names) + for week in weeks: + week_similarities_helper(week) + # 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? -def author_cosine_similarities_weekly(outfile, min_df=None , 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) + topN, + min_df=2 +) -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', included_subreddits=None, n_components=100,lsi_model=None): + return cosine_similarities_weekly_lsi(infile, + outfile, + 'author', + included_subreddits=included_subreddits, + 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', included_subreddits=None, n_components=100,lsi_model=None): + return cosine_similarities_weekly_lsi(infile, + outfile, + 'term', + included_subreddits=included_subreddits, + n_components=n_components, + lsi_model=lsi_model, + ) if __name__ == "__main__": - fire.Fire({'author':author_cosine_similarities_weekly, - 'term':term_cosine_similarities_weekly}) + fire.Fire({'authors':author_cosine_similarities_weekly, + 'terms':term_cosine_similarities_weekly, + 'authors-lsi':author_cosine_similarities_weekly_lsi, + 'terms-lsi':term_cosine_similarities_weekly_lsi + }) +