def train(allHex,labels,hashFiles,sc,sqlc,path):
bytesFiles = hashFiles.map(lambda x: "gs://uga-dsp/project2/data/bytes/"+ x+".bytes")
def fun(accum,x):
return accum+','+x
bytesFileString = bytesFiles.reduce(fun)
rdd1= sc.wholeTextFiles(bytesFileString,20)
bytesRdd = rdd1.map(lambda x: x[1].split()).map(lambda x: [word for word in x if word in allHex.value]).zipWithIndex().map(lambda x: (x[1],x[0]))
ngramFrame = sqlc.createDataFrame(bytesRdd,["did","1grams"])
twoGram = NGram(n=2, inputCol="1grams", outputCol="2grams")
ngramFrame = twoGram.transform(ngramFrame)
featuresDF = ngramFrame.rdd.map(lambda x: Row(did=x['docId'],docFeatures=x['1grams']+x['2grams'])).toDF()
cv = CountVectorizer(inputCol="docFeatures", outputCol="features",vocabSize=1000)
featureFitModel = cv.fit(ngramFrame)
featuresCV = featureFitModel.transform(ngramFrame)
labelRdd = labels.zipWithIndex().map(lambda x: (x[1],x[0]))
labelFrame = labelRdd.toDF(["did","label"])
trainData = ngramFrame.featuresCV(labelFrame,"did")
trainData.persist(StorageLevel(True, True, False, False, 1))
saveData(trainData,path)
trainData.show()
returm featureFitModel
def shringles(x, fileName):
# tokenize and ngrams
tokenizer = RegexTokenizer(inputCol="value",
outputCol="words",
pattern="\\W")
ngrams = NGram(n=x, inputCol="words", outputCol="kshringles")
shringleList.append(ngrams.transform(tokenizer.transform(read(fileName))))
def test(allHex,hashFiles,sc,sqlc,path,featureFitModel):
bytesFiles = hashFiles.map(lambda x: "gs://uga-dsp/project2/data/bytes/"+ x+".bytes")
def fun(accum,x):
return accum+','+x
bytesFileString = bytesFiles.reduce(fun)
rdd1= sc.wholeTextFiles(bytesFileString,20)
bytesRdd = rdd1.map(lambda x: x[1].split()).map(lambda x: [str(int(word,16)) for word in x if word in allHex.value]).zipWithIndex().map(lambda x: (x[1],x[0]))
Vec= bytesRdd.map(lambda x: (x[0],createVector(x[1])))
sparseVec = Vec.map(lambda x: (x[0],SparseVector(256,numpy.nonzero(x[1])[0],x[1][x[1]>0])))
ngramFrame = sqlc.createDataFrame(sparseVec,["did","1grams"])
twoGram = NGram(n=2, inputCol="1grams", outputCol="2grams")
ngramFrame = twoGram.transform(ngramFrame)
featuresDF = ngramFrame.rdd.map(lambda x: Row(did=x['docId'],docFeatures=x['1grams']+x['2grams'])).toDF()
featuresCV = featureFitModel.transform(ngramFrame)
testData = featuresCV.drop('docFeatures')
testData.persist(StorageLevel(True, True, False, False, 1))
saveData(ngramFrame,path)
testData.show()
def ngrram(dataframe, column, x):
tokens = Tokenizer(inputCol=column, outputCol='tokens')
nn = NGram(n=x, inputCol='tokens', outputCol='ngrams')
b = tokens.transform(dataframe)
a = nn.transform(b)
final = a.select(['tokens', 'ngrams']).show(4)
return final
def extract_featrues(self, train_rdd=None, test_rdd=None):
"""
train_rdd: type rdd, the raw rdd of train data (text content, label)
test_rdd: type rdd, the raw rdd of test data (text content, doc_id)
return: type data frame, a data frame where each record contains the extracred features
"""
print('****************************')
print('Feature Extraction: TF-IDF\n')
train_raw_df = train_rdd.map(lambda row:
(self.convert(row[0]), row[1])).toDF(
['words', 'label'])
test_raw_df = test_rdd.map(lambda row:
(self.convert(row[0]), row[1])).toDF(
['words', 'doc_id'])
ngram = NGram(n=2, inputCol="words", outputCol="ngrams")
train_ngram_df = ngram.transform(train_raw_df).drop('words')
test_ngram_df = ngram.transform(test_raw_df).drop('words')
hashing_tf = HashingTF(inputCol='ngrams', outputCol='raw_features')
train_raw_featured_data = hashing_tf.transform(train_ngram_df).drop(
'ngrams')
test_raw_featured_data = hashing_tf.transform(test_ngram_df).drop(
'ngrams')
idf = IDF(inputCol='raw_features', outputCol='features')
idf_model = idf.fit(train_raw_featured_data)
train_df = idf_model.transform(train_raw_featured_data).drop(
'raw_features')
test_df = idf_model.transform(test_raw_featured_data).drop(
'raw_features')
return (train_df, test_df)
def extract_collocations(records, num_collocations, collocation_window):
"""Extracts the most common collocations present in the records.
Params:
- records (pyspark.rdd.RDD): The tokenized and lemmatized records from the JSON file
- num_collocations (int): The number of collocations to show
- collocation_window (int): The text window within which to search for collocations.
Returns:
- best_collocations (list<tuple<str, int>>): The highest scored collocations present in the records, with their
frequency of occurrence in the dataset.
"""
# @see: https://spark.apache.org/docs/2.2.0/ml-features.html#n-gram
from pyspark.ml.feature import NGram
data_frame = records.map(lambda record: Row(record[constants.VALUE])).toDF(
['words'])
ngram_model = NGram(n=2, inputCol='words', outputCol='ngrams')
ngram_data_frame = ngram_model.transform(data_frame)
ngram_rdd = ngram_data_frame.select('ngrams').rdd
ngram_rdd = ngram_rdd.flatMap(lambda row: row['ngrams'])\
.map(lambda ngram: (ngram.encode('utf-8'), 1))\
.reduceByKey(add)\
.sortBy(lambda bigram_with_count: bigram_with_count[1], ascending=False)
rdd_show(ngram_rdd)
frequent_collocations = ngram_rdd.take(num_collocations)
return frequent_collocations
def build_pipeline(classifier='rf', max_depth=7):
"""
creates a pipeline of functionalities to be applied on the training set
"""
# Training: Tokenize, Removing stop words, calculating n-grams, calcuating frequencies
tokenizer = RegexTokenizer(inputCol="text",
outputCol="words",
pattern='\w{8}|\s')
remover = StopWordsRemover(inputCol='words',
outputCol='filtered',
stopWords=['??'])
ngram_2 = NGram(n=2, inputCol='filtered', outputCol='ngrams')
ngram_3 = NGram(n=3, inputCol='filtered', outputCol='ngrams')
hashingTF = HashingTF(inputCol="ngrams", outputCol="features")
word2vec = Word2Vec(inputCol='ngrams', outputCol='features')
if classifier == 'rf':
clf = RandomForestClassifier(maxDepth=max_depth)
stages = [tokenizer, remover, ngram_2, hashingTF, clf]
elif classifier == 'nb':
clf = NaiveBayes(smoothing=1)
stages = [tokenizer, remover, ngram_3, hashingTF, clf]
elif classifier == 'lr':
clf = LogisticRegression()
stages = [tokenizer, remover, ngram_2, word2vec, clf]
else:
raise ValueError("classifier must be 'rf', 'nb', or 'lr'.")
return stages
def Ngram_feature(N, feature_rdd):
'''
Extract and count N-gram. Leave top 1000 n-gram features if it's 2-gram or more.
Input:
feature_rdd : [(<hash1>,<feature1>), (<hash1>,<feature2>), ..., (<hashN>,<featureK>)]
Output:
freq_ngram_count_rdd : [((<hash>,<ngram feature>),cnt), ...]
'''
feature_rdd = feature_rdd.groupByKey().map(lambda x: (x[0],list(x[1])))
df = spark.createDataFrame(feature_rdd).toDF("file_names", "features")
ngram = NGram(n=N, inputCol="features", outputCol="ngrams")
ngramDataFrame = ngram.transform(df)
ngram_rdd = ngramDataFrame.rdd.map(tuple).map(lambda x: (x[0],x[2])).flatMapValues(lambda x: x)
ngram_count_rdd = ngram_rdd.map(lambda x: ((x),1)).reduceByKey(add)
freq_ngram_count_rdd = ngram_count_rdd
if not N == 1:
#[(<ngram feature>,cnt), ...]
topN_ngram_count_rdd = freq_ngram_count_rdd.map(lambda x: (x[0][1],x[1])).reduceByKey(add)
#[((<ngram feature>,cnt),index), ...]
topN_ngram_count_rdd = topN_ngram_count_rdd.sortBy(lambda x: x[1],ascending=False).zipWithIndex()
length = topN_ngram_count_rdd.count()
#top [(<ngram feature>,cntSum), ...]
topN_ngram_count_rdd = topN_ngram_count_rdd.filter(lambda x: x[1]<1000).map(lambda x: x[0])
#freq [(<ngram feature>,(<hash>,cnt)), ...]
freq_ngram_count_rdd = freq_ngram_count_rdd.map(lambda x: (x[0][1],(x[0][0],x[1])))
#[(<ngram feature>,(cntSum,(<hash>,cnt))), ...]
freq_ngram_count_rdd = topN_ngram_count_rdd.join(freq_ngram_count_rdd).map(lambda x: ((x[1][1][0],x[0]),x[1][1][1]))
return freq_ngram_count_rdd
def feature_engineering(class_balancedDf):
# N-Gram
ngram = NGram(n=2, inputCol="lemmatized", outputCol="ngrams")
ngramDataFrame = ngram.transform(class_balancedDf)
# Hashing TF
hashingTF = HashingTF(inputCol="ngrams",
outputCol="rawFeatures",
numFeatures=20)
featurizedData = hashingTF.transform(ngramDataFrame)
# IDF
idf = IDF(inputCol="rawFeatures", outputCol="features")
idfModel = idf.fit(featurizedData)
rescaledData = idfModel.transform(featurizedData)
# K-Means
kmeans = KMeans().setK(6).setSeed(1)
kmodel = kmeans.fit(rescaledData).transform(rescaledData)
#LDA
lda = LDA(k=10, maxIter=10)
ldamodel = lda.fit(kmodel).transform(kmodel)
# changing label column to int
data = ldamodel.withColumn(
"label", ldamodel.label.cast("Integer")).drop("prediction")
return data
def create_ngram(self, df, n, input_col, output_col='ngrams'):
"Generate N-Gram -> https://spark.apache.org/docs/2.2.0/ml-features.html#n-gram"
from pyspark.ml.feature import NGram
ngram = NGram(n=n, inputCol=input_col, outputCol=output_col)
ngram_df = ngram.transform(df)
return ngram_df
def test_ngram(self):
dataset = self.spark.createDataFrame([
Row(input=["a", "b", "c", "d", "e"])])
ngram0 = NGram(n=4, inputCol="input", outputCol="output")
self.assertEqual(ngram0.getN(), 4)
self.assertEqual(ngram0.getInputCol(), "input")
self.assertEqual(ngram0.getOutputCol(), "output")
transformedDF = ngram0.transform(dataset)
self.assertEqual(transformedDF.head().output, ["a b c d", "b c d e"])
def calculate_vectors(data, n=2, binary=False):
ngram = NGram(n=n, inputCol="sequence", outputCol="ngrams")
ngramDataFrame = ngram.transform(data)
ngrams = ngramDataFrame.select("ngrams")
cvectorizer = CountVectorizer(
inputCol="ngrams", outputCol="vec", binary=binary
)
model = cvectorizer.fit(ngrams)
return model.transform(ngrams).select("vec")
def opcode_ngram(df_opcode, N):
"""
Generates n-grams opcode by opcode data frame.
Returns n-grams opcode in RDD((filename, n-gram), total_counts)
"""
ngrams = NGram(n=N, inputCol="opcode", outputCol="ngrams")
df_ngrams = ngrams.transform(df_opcode)
rdd_ngrams = df_ngrams.select("filename", "ngrams").rdd.map(tuple).flatMapValues(lambda x: x)\
.map(lambda x: ((x[0], x[1]), 1)).reduceByKey(add)
return rdd_ngrams
def bytes_ngram(df_bytes, n):
"""
Generates n-grams bytes by bytes data frame.
Returns n-grams bytes in RDD((hash, n-gram), total_counts)
"""
ngrams = NGram(n=n, inputCol="bytes", outputCol="ngrams")
df_ngrams = ngrams.transform(df_bytes)
rdd_ngrams = df_ngrams.select("hash", "ngrams").rdd.map(tuple).flatMapValues(lambda x: x)\
.map(lambda x: ((x[0], x[1]), 1)).reduceByKey(add)
return rdd_ngrams
def make_ngrams (df, n=1):
df = df.withColumn('normalized_text', processing(F.col('text')))
tokenizer = Tokenizer(inputCol="normalized_text", outputCol="tokens")
tokenized = tokenizer.transform(df).drop('normalized_text')
ngram = NGram(n=n, inputCol="tokens", outputCol="n_gram")
n_gram_df = ngram.transform(tokenized)
n_gram_df = n_gram_df.withColumn('n_gram', F.explode('n_gram'))
n_gram_df = n_gram_df.filter(F.length('n_gram')>2)
return n_gram_df
def ngram(dataframe, in_col, out_col, n):
ngram = NGram(n=n, inputCol=in_col, outputCol=out_col)
dataframe = ngram.transform(dataframe)
# summarise top n-grams
dataframe\
.groupBy(out_col)\
.count()\
.sort(col("count").desc())\
.show()
return dataframe
def learn(self, text_df):
"""Spark transformation to learn the adjacent terms of a given ngram"""
ngram = NGram(n=self.n, inputCol='tokenized_text', outputCol='ngram')
ngram_df = ngram.transform(text_df)
# create the ngram to adjacent term mappings
ngram_list = ngram_df.select("ngram").rdd.map(lambda r: r['ngram']).collect()
self.ngram_model = ngram_df.rdd \
.map(lambda x: PreProcess.generate_adjacent_terms(x.asDict()['ngram'])) \
.flatMap(lambda xs: [x for x in xs]) \
.map(lambda y: (y[0], [y[1]])) \
.reduceByKey(lambda a, b: a + b).collect()
# create list of the keys in the model and store them
self.model_keys = self.ngram_model.map(lambda x: x[0]).collect()
def build_pipeline():
tokenizer = [Tokenizer(inputCol='tweet', outputCol='words')]
ngrams = [
NGram(n=i, inputCol='words', outputCol='{0}_grams'.format(i))
for i in range(1, 4)
]
cv = [
CountVectorizer(vocabSize=5460,
inputCol='{0}_grams'.format(i),
outputCol='{0}_tf'.format(i)) for i in range(1, 4)
]
idf = [
IDF(inputCol='{0}_tf'.format(i),
outputCol='{0}_tfidf'.format(i),
minDocFreq=5) for i in range(1, 4)
]
assembler = [
VectorAssembler(inputCols=['{0}_tfidf'.format(i) for i in range(1, 4)],
outputCol='features')
]
label_stringIdx = [StringIndexer(inputCol='sentiment', outputCol='label')]
lr = [LogisticRegression(maxIter=100)]
pipeline = Pipeline(stages=tokenizer + ngrams + cv + idf + assembler +
label_stringIdx + lr)
return pipeline
def create_tfidf_model(sentenceDataFrame, ngrams=1, minDocFreq=0):
tokenized = Tokenizer(inputCol="text",
outputCol="words").transoform(sentenceDataFrame)
ngramDataFrame = NGram(n=ngrams, inputCol="words",
outputCol="ngrams").transform(tokenized)
countVect = CountVectorizer(inputCol="ngrams", outputCol="rawFeatures")
countVectModel = countVect.fit(ngramDataFrame)
featurizedData = countVectModel.transform(ngramDataFrame)
idf = IDF(minDocFreq=minDocFreq,
inputCol="rawFeatures",
outputCol="features")
idfModel = idf.fit(featurizedData)
rescaledData = idfModel.transform(featurizedData)
rescaledData.select("label", "features")
normalizer = Normalizer(inputCol="features", outputCol='scores')
X = normalizer.transform(rescaledData)
return X
def LR_Model(train_dataframe, test_dataframe):
'''
Takes the argument as a train_dataframe, test_dataframe implements the
pipeline of RegexTokenizer, NGrams =3 , HashingTF, IDF and
LogisticRegression and predicts the label based on features of
test_dataframe.
The Pattern RegexTokenizer is set to "\\W|\b(00|CC)\b" because it removes
all nonwords that is extra spaces or punctuations, '??', '00' and 'CC' are
removed as these are most repeated words and accuracy is significantly
improved.
Args:
dataframe:
-The train_dataframe should consist of the columns, 'label'
and 'text'.
-The test_dataframe should consist of the column 'text'.
Returns:
DataFrame['prediction': double, given_order: bigint, label: string]
iff data read initially is a small dataset
else DataFrame['prediction': double, given_order: bigint]
data read initially is a big dataset
'''
train_dataframe = train_dataframe.repartition(96)\
.withColumn('label', train_dataframe['label'].cast(IntegerType()))
regexTokenizer = RegexTokenizer(inputCol="text", outputCol="words",
pattern="\\W|\b(00|CC)\b")
ngram = NGram(n=3, inputCol="words", outputCol="ngrams")
hashingTF = HashingTF(inputCol="ngrams", outputCol="TF")
idf = IDF(inputCol="TF", outputCol="features")
lr = LogisticRegression(maxIter=20, regParam=0.001)
pipeline = Pipeline(stages=[regexTokenizer, ngram, hashingTF, idf, lr])
model = pipeline.fit(train_dataframe)
predictions_df = model.transform(test_dataframe)
return predictions_df\
.drop('rawfeatures', 'n_grams', 'TF', 'text', 'words', 'features')
def ngramFeatureExtractors(n, inputCol=["text", "target"]):
tokenizer = [Tokenizer(inputCol="text", outputCol="words")]
ngrams = [
NGram(n=i, inputCol="words", outputCol="{0}_grams".format(i))
for i in range(1, n + 1)
]
count_vectorizer = [
CountVectorizer(vocabSize=5460,
inputCol="{0}_grams".format(i),
outputCol="{0}_tf".format(i)) for i in range(1, n + 1)
]
idf = [
IDF(inputCol="{0}_tf".format(i),
outputCol="{0}_tfidf".format(i),
minDocFreq=5) for i in range(1, n + 1)
]
assembler = [
VectorAssembler(
inputCols=["{0}_tfidf".format(i) for i in range(1, n + 1)],
outputCol="features")
]
label_stringIdx = [StringIndexer(inputCol="target", outputCol="label")]
lr = [LogisticRegression(maxIter=100)]
return Pipeline(stages=tokenizer + ngrams + count_vectorizer + idf +
assembler + label_stringIdx + lr)
def build_pipeline():
tokenizer = [Tokenizer(inputCol='text', outputCol='words')]
remover = [StopWordsRemover(inputCol="words", outputCol="stopped_words")]
ngrams = [
NGram(n=i, inputCol='stopped_words', outputCol='{0}_grams'.format(i))
for i in range(1, 6)
]
cv = [
CountVectorizer(vocabSize=50000,
inputCol='{0}_grams'.format(i),
outputCol='{0}_tf'.format(i)) for i in range(1, 6)
]
idf = [
IDF(inputCol='{0}_tf'.format(i),
outputCol='{0}_tfidf'.format(i),
minDocFreq=5) for i in range(1, 6)
]
tweetvect = [
VectorAssembler(inputCols=["tweet_count"], outputCol="vec_tweet_count")
]
ss = [
StandardScaler(inputCol="vec_tweet_count", outputCol="ss_tweet_count")
]
assembler = [VectorAssembler(inputCols=input_cols, outputCol='features')]
pipeline = Pipeline(stages=tokenizer + remover + ngrams + cv + idf +
tweetvect + ss + assembler)
return pipeline
class SentimentalPipelineEngine(PipelineEngine):
def __init__(self, cv):
super(SentimentalPipelineEngine, self).__init__(cv)
self.tokenizer_map = [TweetTokenizer()]
self.ngram_map = [1]
self.hashing_tf_map = [pow(2, 20)]
self.clf_map = [0.1]
self.stages = self._build_stages()
self.pipeline = Pipeline(stages=self.stages)
self.param_grid = self._build_param_grid()
def _build_stages(self):
self.bs_parser = BeautifulSoupParser(inputCol="review", outputCol="parsed")
self.tokenizer = Tokenizzzer(inputCol=self.bs_parser.getOutputCol(), outputCol="words")
self.stopwords_remover = StopWordsRemover(inputCol="words", outputCol="filtered")
self.porter = PorterStemmerTransformer(inputCol=self.stopwords_remover.getOutputCol(), outputCol="stemmed")
self.ngram = NGram(inputCol=self.porter.getOutputCol(), outputCol="ngrams")
self.hashing_tf = HashingTF(inputCol=self.ngram.getOutputCol(), outputCol="features")
self.idf = IDF(inputCol="features", outputCol="idf_features")
self.normalizer = Normalizer(inputCol="idf_features", outputCol="norm_features", p=1.0)
self.clf = LogisticRegression(featuresCol='norm_features', regParam=0.1)
# self.clf = MultilayerPerceptronClassifier(featuresCol="norm_features", maxIter=1000, layers=[self.hashing_tf.getNumFeatures(), 200, 100, 2])
return [self.bs_parser, self.tokenizer, self.stopwords_remover, self.porter, self.ngram, self.hashing_tf, self.idf, self.normalizer, self.clf]
def _build_param_grid(self):
param_grid_builder = ParamGridBuilder()
param_grid_builder.addGrid(self.tokenizer.tokenizer, self.tokenizer_map)
param_grid_builder.addGrid(self.ngram.n, self.ngram_map)
param_grid_builder.addGrid(self.hashing_tf.numFeatures, self.hashing_tf_map)
param_grid_builder.addGrid(self.clf.regParam, self.clf_map)
return param_grid_builder.build()
def convert_ngrams(df, column):
# convert tokens to ngram
n = 5
# convert to ngrams 2 to n ngrams
for i in range(1, n + 1):
ngram = NGram(n=i,
inputCol=column,
outputCol='{}_{}'.format(column, i))
df = ngram.transform(df)
return df.withColumn(
column,
concat(*['{}_{}'.format(column, i) for i in range(1, n + 1)])).drop(
*['{}_{}'.format(column, i) for i in range(1, n + 1)])
def process_df(df):
time_seq.append(['start process-df', time.time()])
model = Pipeline(stages=[
RegexTokenizer(pattern=" ",
inputCol="instruments",
outputCol="instruments_tokenized",
minTokenLength=1),
NGram(n=1,
inputCol="instruments_tokenized",
outputCol="instruments_ngrams"),
HashingTF(inputCol="instruments_ngrams",
outputCol="instruments_vectors"),
MinHashLSH(inputCol="instruments_vectors",
outputCol="instruments_lsh",
numHashTables=10)
]).fit(df)
df_hashed = model.transform(df)
df_matches = model.stages[-1].approxSimilarityJoin(df_hashed, df_hashed, 0.5, distCol="distance") \
.filter("datasetA.filename != datasetB.filename AND datasetA.filename < datasetB.filename") \
.select(f.col('datasetA.filename').alias('filename_A'),
f.col('datasetB.filename').alias('filename_B'),
f.col('distance'))
time_seq.append(['process-df df_matches', time.time()])
write_df_to_pgsql(df_matches, 'filepair_similarity_run3')
time_seq.append(['write pgsql', time.time()])
print('time_seq', time_seq)
def build_ngrams(n=3):
tokenizer = [Tokenizer(inputCol="text", outputCol="tokens")]
stopwordsRemover = [
StopWordsRemover(inputCol='tokens', outputCol='tokens_filtered')
]
ngrams = [
NGram(n=i, inputCol="tokens", outputCol="{0}_grams".format(i))
for i in range(1, n + 1)
]
cv = [
CountVectorizer(vocabSize=5460,
inputCol="{0}_grams".format(i),
outputCol="{0}_cv".format(i)) for i in range(1, n + 1)
]
idf = [
IDF(inputCol="{0}_cv".format(i),
outputCol="{0}_idf".format(i),
minDocFreq=5) for i in range(1, n + 1)
]
assembler = [
VectorAssembler(
inputCols=["{0}_idf".format(i) for i in range(1, n + 1)],
outputCol="features")
]
stringIndexer = [StringIndexer(inputCol="class", outputCol="label")]
lr = [LogisticRegression(maxIter=100)]
return Pipeline(stages=tokenizer + ngrams + cv + idf + assembler +
stringIndexer + lr)
def preprocess(inputCol=["text", "label"], n=4):
tokenizer = [Tokenizer(inputCol="text", outputCol="words")]
remover = [StopWordsRemover(inputCol="words", outputCol="filtered")]
ngrams = [
NGram(n=i, inputCol="filtered", outputCol="{0}_grams".format(i))
for i in range(1, n + 1)
]
cv = [
CountVectorizer(vocabSize=2**14,
inputCol="{0}_grams".format(i),
outputCol="{0}_tf".format(i)) for i in range(1, n + 1)
]
idf = [
IDF(inputCol="{0}_tf".format(i),
outputCol="{0}_tfidf".format(i),
minDocFreq=2) for i in range(1, n + 1)
]
assembler = [
VectorAssembler(
inputCols=["{0}_tfidf".format(i) for i in range(1, n + 1)],
outputCol="rawFeatures")
]
label_stringIdx = [StringIndexer(inputCol="label", outputCol="labels")]
selector = [
ChiSqSelector(numTopFeatures=2**14,
featuresCol='rawFeatures',
outputCol="features")
]
lr = [LogisticRegression(maxIter=1000)]
return Pipeline(stages=tokenizer + remover + ngrams + cv + idf +
assembler + label_stringIdx + selector + lr)
def n_gram_fingerprint(df, input_cols, n_size=2):
"""
Calculate the ngram for a fingerprinted string
:param df: Dataframe to be processed
:param input_cols: Columns to be processed
:param n_size:
:return:
"""
def remote_white_spaces_remove_sort_join(value, args):
# remove white spaces
value = [x.replace(" ", "") for x in value]
# sort and remove duplicated
value = sorted(set(value))
# join the tokens back together
value = "".join(value)
return value
input_cols = parse_columns(df, input_cols)
for input_col in input_cols:
ngram_col = name_col(input_col, NGRAM_COL)
ngram_fingerprint_col = name_col(input_col, NGRAM_FINGERPRINT_COL)
df = (
df.cols.copy(input_col, name_col(
input_col,
NGRAM_COL)).cols.lower(ngram_col).cols.remove_white_spaces(
ngram_col).cols.remove_special_chars(
ngram_col).cols.remove_accents(ngram_col)
# For create n-grams we need an Array type column
.cols.nest(input_cols=ngram_col,
output_col=ngram_col,
shape='array'))
if Optimus.cache:
df = df.cache()
n_gram = NGram(n=n_size,
inputCol=ngram_col,
outputCol=ngram_fingerprint_col)
df = n_gram.transform(df)
df = df.cols.apply(ngram_fingerprint_col,
remote_white_spaces_remove_sort_join, "string")
return df
def test(opcodes, hashFiles, sc, sqlc, path, featureFitModel):
asmFiles = hashFiles.map(
lambda x: "gs://uga-dsp/project2/data/asm/" + x + ".asm")
def fun(accum, x):
return accum + ',' + x
asmFileString = asmFiles.reduce(fun)
rdd1 = sc.wholeTextFiles(asmFileString, 20)
opcodesInDoc = rdd1.map(lambda x: x[1].split()).map(
lambda x: [word for word in x if word in opcodes.value]).zipWithIndex(
).map(lambda x: (x[1], x[0]))
ngramFrame = sqlc.createDataFrame(opcodesInDoc, ["docId", "opcodes"])
twoGram = NGram(n=2, inputCol="opcodes", outputCol="2grams")
ngramFrame = twoGram.transform(ngramFrame)
threeGram = NGram(n=3, inputCol="opcodes", outputCol="3grams")
ngramFrame = threeGram.transform(ngramFrame)
fourGram = NGram(n=4, inputCol="opcodes", outputCol="4grams")
ngramFrame = fourGram.transform(ngramFrame)
def getSegment(x):
templist = []
for line in x:
l = re.findall(r'\w+:?(?=:)', line)
if l:
templist.append(l[0])
return templist
segments = rdd1.zipWithIndex().map(lambda x: (x[1], x[0][1].splitlines(
))).map(lambda x: (x[0], getSegment(x[1]))).toDF(["docId", "segments"])
featureFrame = ngramFrame.join(segments, "docId")
featuresDF = featureFrame.rdd.map(
lambda x: Row(did=x['docId'],
docFeatures=x['opcodes'] + x['2grams'] + x['3grams'] + x[
'4grams'] + x['segments'])).toDF()
featuresCV = featureFitModel.transform(featuresDF)
testData = featuresCV.drop('docFeatures')
testData.persist(StorageLevel(True, True, False, False, 1))
saveData(testData, path)
testData.show()
def build_ngrams_part(inputCol="words", n=6):
ngrams = [
NGram(n=i, inputCol="words", outputCol="ngrams_{0}".format(i))
for i in range(7, n + 1) ]
vectorizers = [
CountVectorizer(inputCol="ngrams_{0}".format(i), outputCol="ngramscounts_{0}".format(i))
for i in range(7, n + 1) ]
return Pipeline(stages=ngrams + vectorizers)
def get_ngrams(cases, region_path):
if (debug): logging.info(region_path)
for case_path in tqdm(cases):
parsed = parse_file(case_path)
text = get_case_text(parsed)
date = get_decision_date(parsed).year
state = parsed("case|court").attr('jurisdiction').strip()
text = text.encode("ascii", "ignore")
clean_word_list = alphanumeric.sub('', text).lower().split()
text_df = spark.createDataFrame([Row(inputTokens=clean_word_list)])
for n in range(1,4):
if n==1:
ngrams = clean_word_list
else:
ngram_prepared = NGram(n=n, inputCol="inputTokens", outputCol="nGrams")
ngrams = ngram_prepared.transform(text_df).head().nGrams
sc.parallelize(ngrams).map(lambda word: (word,1)).reduceByKey(lambda v1,v2: v1 + v2).map(lambda word_tuple: write_to_file(word_tuple, date, case_path, state, region_path, n=n)).collect()
def main(train_x,
train_y,
test_x,
test_y=None,
idf=False,
ngram=1,
base='gs',
asm=False):
# Load : DF[id, url, features, label?]
# The DataFrames only have a labels column if labels are given.
# We drop the text, since Naive Bayes doesn't use it and we already have all the tokens
kind = 'asm' if asm else 'bytes'
train = elizabeth.load(train_x, train_y, base=base, kind=kind).drop('text')
test = elizabeth.load(test_x, test_y, base=base, kind=kind).drop('text')
# convert the string labels to numeric indices
# the handleInvalid param allows the label indexer to deal with labels that weren't seen during fitting
label_indexer = StringIndexer(inputCol='label',
outputCol='indexedLabel',
handleInvalid="skip")
label_indexer = label_indexer.fit(train)
train = label_indexer.transform(train)
# the test set won't always have labels
if test_y is not None:
test = label_indexer.transform(test)
index_labeller = IndexToString(inputCol='prediction',
outputCol='predictedClass',
labels=label_indexer.labels)
# Train the preprocessor and transform the data.
prep = elizabeth.Preprocessor()
prep.add(NGram(n=int(ngram)))
prep.add(CountVectorizer())
if idf: prep.add(IDF())
train = prep.fit(train)
test = prep.transform(test)
# Naive Bayes : DF[id, url, text, features, label?, rawPrediction, probability, prediction]
nb = NaiveBayes(labelCol='indexedLabel').fit(train)
test = nb.transform(test)
test = index_labeller.transform(
test) # DF[id, url, ... prediction, predictedClass]
# If labels are given for the test set, print a score.s
if test_y:
test = test.orderBy(test.id)
test = test.withColumn(
'correct', (test.label == test.predictedClass).cast('double'))
test = test.select(avg(test.correct))
print(test.show())
# If no labels are given for the test set, print predictions.
else:
test = test.orderBy(test.id).select(test.predictedClass)
test = test.rdd.map(lambda row: int(row.predictedClass))
test = test.toLocalIterator()
print(*test, sep='\n')
def initialize():
spark = SparkSession \
.builder \
.appName("search-flight-spark-ml-model") \
.getOrCreate()
sc = spark.sparkContext
auth = tweepy.OAuthHandler(CONSUMER_KEY, CONSUMER_SECRET)
auth.set_access_token(ACCESS_TOKEN, ACCESS_SECRET)
api = tweepy.API(auth)
important_fields = ['id', 'text', 'user']
schema = StructType([
StructField('id', LongType(), False),
StructField('text', StringType(), False),
StructField('username', StringType(), False)
])
tweetsDf = spark.createDataFrame(sc.emptyRDD(), schema)
for tweet in tweepy.Cursor(api.search, q='barajas', rpp=100,
lang='en').items(MAX_TWEETS):
json_tweet = {k: tweet._json[k] for k in important_fields}
json_tweet['text'] = json_tweet['text'].replace("'", "").replace(
"\"", "").replace("\n", "")
tweetDf = spark.createDataFrame([
(json_tweet['id'], json_tweet['text'], json_tweet['user']['name'])
], schema)
tweetsDf = tweetsDf.union(tweetDf)
tweets_df_splitted = tweetsDf.randomSplit([0.75, 0.25], MAX_TWEETS)
training_set = tweets_df_splitted[0]
test_set = tweets_df_splitted[1]
username_indexed = StringIndexer(inputCol="username",
outputCol="username_indexed")
tokenizer = Tokenizer(inputCol="text", outputCol="token_raw")
ngram = NGram(inputCol="token_raw", outputCol="ngram", n=2)
hashing_tf = HashingTF(inputCol="ngram", outputCol="tf", numFeatures=20)
idf = IDF(inputCol="tf", outputCol="idf", minDocFreq=2)
lr = LogisticRegression(featuresCol="idf", labelCol="username_indexed")
pipeline = Pipeline(
stages=[username_indexed, tokenizer, ngram, hashing_tf, idf, lr])
pipeline_model = pipeline.fit(training_set)
pipeline_model.write().overwrite().save("tweet_traveling_partners_model")
tweet_traveling_partners_prediction = pipeline_model.transform(test_set)
selected = tweet_traveling_partners_prediction.select(
"username", "text", "probability", "prediction")
for row in selected.collect():
print(row)
spark.stop()
def transformData(df, parameter):
'''
Transformed dataframe based on the parameter
Input : - parameter
Output : - transformed dataframe
'''
ngram = NGram(n=parameter["n"],
inputCol=parameter["inputCol"],
outputCol=parameter["outputCol"])
temp = ''
if len(ngram.transform(df).head().inputTokens) < ngram.getN():
print('No element in ' + parameter["outputCol"])
else:
temp = ngram.transform(df).show()
return temp
def _build_stages(self):
self.bs_parser = BeautifulSoupParser(inputCol="review", outputCol="parsed")
self.tokenizer = Tokenizzzer(inputCol=self.bs_parser.getOutputCol(), outputCol="words")
self.stopwords_remover = StopWordsRemover(inputCol="words", outputCol="filtered")
self.porter = PorterStemmerTransformer(inputCol=self.stopwords_remover.getOutputCol(), outputCol="stemmed")
self.ngram = NGram(inputCol=self.porter.getOutputCol(), outputCol="ngrams")
self.hashing_tf = HashingTF(inputCol=self.ngram.getOutputCol(), outputCol="features")
self.idf = IDF(inputCol="features", outputCol="idf_features")
self.normalizer = Normalizer(inputCol="idf_features", outputCol="norm_features", p=1.0)
self.clf = LogisticRegression(featuresCol='norm_features', regParam=0.1)
# self.clf = MultilayerPerceptronClassifier(featuresCol="norm_features", maxIter=1000, layers=[self.hashing_tf.getNumFeatures(), 200, 100, 2])
return [self.bs_parser, self.tokenizer, self.stopwords_remover, self.porter, self.ngram, self.hashing_tf, self.idf, self.normalizer, self.clf]
print "Start preprocessing all data"
t0 = time()
def preProcess(doc):
clean = doc.review.replace("<br /><br />"," ")
tok = nltk.tokenize.wordpunct_tokenize(clean)
tags = nltk.pos_tag(tok,tagset='universal')
low = [word.lower() for word in tok]
return low,zip(*tags)[1],doc.label
schema = StructType([StructField('words',ArrayType(StringType()),True), StructField('tags',ArrayType(StringType()),True), StructField('label',DoubleType())])
dfPre=df.map(preProcess).toDF(schema).cache()
trigram = NGram(n=3,inputCol="tags", outputCol="tagTrigrams")
dfTriAux = trigram.transform(dfPre).cache()
trigram.setInputCol("words")
trigram.setOutputCol("wordTrigrams")
dfTri = trigram.transform(dfTriAux).cache()
dfTrain, dfValid = dfTri.randomSplit([0.8,0.2])
lists=dfTrain.map(lambda r : r.words).collect()
dictUnigrams=list(set(itertools.chain(*lists)))
dictionaryUni={}
for i,word in enumerate(dictUnigrams):
dictionaryUni[word]=i
dict_broad = sc.broadcast(dictionaryUni)
from pyspark.ml.feature import NGram
import itertools
import nltk
print "Start preprocessing all data"
t0 = time()
def preProcess(doc):
clean = doc[0].replace("<br /><br />"," ")
tok = nltk.tokenize.wordpunct_tokenize(clean)
low = [word.lower() for word in tok]
return low,doc[1]
bigram = NGram(inputCol="words", outputCol="bigrams")
dfPre=df.map(preProcess).toDF(['words','label']).cache()
dfTrain, dfValid = bigram.transform(dfPre).randomSplit([0.8,0.2])
dfTrain.cache()
dfValid.cache()
lists=dfTrain.map(lambda r : r.bigrams).collect()
dictBigrams=list(set(itertools.chain(*lists)))
dictionaryBigrams={}
for i,word in enumerate(dictBigrams):
dictionaryBigrams[word]=i
dict_broad=sc.broadcast(dictionaryBigrams)
revDict_broad=sc.broadcast(dictBigrams)
from pyspark.ml.feature import NGram
import itertools
import nltk
print "Start preprocessing all data"
t0 = time()
def preProcess(doc):
clean = doc[0].replace("<br /><br />"," ")
tok = nltk.tokenize.wordpunct_tokenize(clean)
low = [word.lower() for word in tok]
return low,doc[1]
bigram = NGram(inputCol="words", outputCol="bigrams")
dfPre=df.map(preProcess).toDF(['words','label']).cache()
dfTrain, dfValid = bigram.transform(dfPre).randomSplit([0.8,0.2])
dfTrain.cache()
dfValid.cache()
lists=dfTrain.map(lambda r : r.bigrams).collect()
dictBigrams=list(set(itertools.chain(*lists)))
dictionaryBigrams={}
for i,word in enumerate(dictBigrams):
dictionaryBigrams[word]=i
dict_broad=sc.broadcast(dictionaryBigrams)
revDict_broad=sc.broadcast(dictBigrams)
# COMMAND ----------
from pyspark.ml.feature import StopWordsRemover
englishStopWords = StopWordsRemover.loadDefaultStopWords("english")
stops = StopWordsRemover()\
.setStopWords(englishStopWords)\
.setInputCol("DescOut")
stops.transform(tokenized).show()
# COMMAND ----------
from pyspark.ml.feature import NGram
unigram = NGram().setInputCol("DescOut").setN(1)
bigram = NGram().setInputCol("DescOut").setN(2)
unigram.transform(tokenized.select("DescOut")).show(False)
bigram.transform(tokenized.select("DescOut")).show(False)
# COMMAND ----------
from pyspark.ml.feature import CountVectorizer
cv = CountVectorizer()\
.setInputCol("DescOut")\
.setOutputCol("countVec")\
.setVocabSize(500)\
.setMinTF(1)\
.setMinDF(2)
fittedCV = cv.fit(tokenized)
sqlContext = SQLContext(sc)
df = sqlContext.createDataFrame(rdd, ['review', 'label'])
dfTrain, dfTest = df.randomSplit([0.8,0.2])
print "Clean train and test set created"
from pyspark.ml.feature import Tokenizer
tokenizer = Tokenizer(inputCol='review', outputCol='words')
dfTrainTok = tokenizer.transform(dfTrain)
print "Tokens computed"
from pyspark.ml.feature import NGram
bigram = NGram(inputCol="words", outputCol="bigrams")
dfBigram = bigram.transform(dfTrainTok)
print "Bigrams computed"
import itertools
lists=dfBigram.map(lambda r : r.bigrams).collect()
dictBigrams=set(itertools.chain(*lists))
dictionaryBigrams={}
for i,word in enumerate(dictBigrams):
dictionaryBigrams[word]=i
print "Dictionary created"
get_ipython().magic(u'autoreload 2')
import transformers as tr
posTagger = tr.NLTKPosTagger(
inputCol="words", outputCol="tags")
print "Compute tags"
t0 = time()
dfTags = posTagger.transform(df)
dfTags.show()
tt = time() - t0
print "Tags computed in {} second".format(round(tt,3))
# In[7]:
from pyspark.ml.feature import NGram
trigram = NGram(n=3,inputCol="tags", outputCol="tagTrigrams")
t0 = time()
dfTriAux = trigram.transform(dfTags)
trigram.setInputCol("words")
trigram.setOutputCol("wordTrigrams")
dfTri = trigram.transform(dfTriAux)
dfTri.show()
tt = time() - t0
print "Trigrams created in {} second".format(round(tt,3))
# In[8]:
dfTrain, dfTest = dfTri.randomSplit([0.8,0.2])
from __future__ import print_function
from pyspark import SparkContext
from pyspark.sql import SQLContext
# $example on$
from pyspark.ml.feature import NGram
# $example off$
if __name__ == "__main__":
sc = SparkContext(appName="NGramExample")
sqlContext = SQLContext(sc)
# $example on$
wordDataFrame = sqlContext.createDataFrame(
[
(0, ["Hi", "I", "heard", "about", "Spark"]),
(1, ["I", "wish", "Java", "could", "use", "case", "classes"]),
(2, ["Logistic", "regression", "models", "are", "neat"]),
],
["label", "words"],
)
ngram = NGram(inputCol="words", outputCol="ngrams")
ngramDataFrame = ngram.transform(wordDataFrame)
for ngrams_label in ngramDataFrame.select("ngrams", "label").take(3):
print(ngrams_label)
# $example off$
sc.stop()
tt = time() - t0
print
print "Dataframe created in {} second".format(round(tt,3))
# In[314]:
from pyspark.ml.feature import Tokenizer
tokenizer = Tokenizer(inputCol='review', outputCol='words')
dfTok = tokenizer.transform(df)
# In[315]:
from pyspark.ml.feature import NGram
bigram = NGram(inputCol="words", outputCol="bigrams")
dfBigram = bigram.transform(dfTok)
# In[317]:
print "Start tokenizing, computing bigrams and splitting between test and train"
t0 = time()
dfTrain, dfTest = dfBigram.randomSplit([0.8,0.2])
dfTrain.take(1)
dfTest.take(1)
tt = time() - t0
print "Done in {} second".format(round(tt,3))
# In[318]:
out_col = self.getOutputCol()
in_col = dataset[self.getInputCol()]
return dataset.withColumn(out_col, udf(f, t)(in_col))
posTagger = NLTKPosTagger(inputCol="words", outputCol="tagWords")
dfTagged = posTagger.transform(dfTrainTok)
#dfTagged.show()
#----------------------------------------------------------------------
#------------------------------Bigrams---------------------------------
#----------------------------------------------------------------------
from pyspark.ml.feature import NGram
bigram = NGram(inputCol="words", outputCol="bigrams")
dfBigram = bigram.transform(dfTrainTokNoSw)
print "DataFrame des Bigram: "
dfBigram.show()
#**********************************************************************
#------------------------Feature selection-----------------------------
#**********************************************************************
# Pour la suite on a le choix entre l'encodage utilisé par le prof (le mot y est ou n'y est pas)
# ou la version en apparence plus informative du tfidf. En vrai, le tfidf peut être trompeur
# donc je construis quand même les dictionnaires d'unigrammes et de bigrammes pour pouvoir
# calculer les sparse vectors du prof.
