In [159]:
import warnings
warnings.filterwarnings('ignore')
import numpy as np
import pandas as pd
%matplotlib inline
import matplotlib.pyplot as plt
import matplotlib.ticker as ticker
from pylab import *
# import igraph as ig # Need to install this in your virtual environment
from re import sub
import editdistance # Needs to be installed. Usage: editdistance.eval('banana', 'bahama')
from scipy.spatial.distance import pdist, squareform
from scipy.cluster.hierarchy import dendrogram, linkage
# import seaborn as sns
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import sys
sys.path.append('../../src/')
from utils.database import dbutils
conn = dbutils.connect()
cursor = conn.cursor()
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# Helper function for making summary tables/distributions
def frequency(dataframe,columnname):
out = dataframe[columnname].value_counts().to_frame()
out.columns = ['frequency']
out.index.name = columnname
out.reset_index(inplace=True)
out.sort_values('frequency',inplace=True,ascending=False)
out['cumulative'] = out['frequency'].cumsum()/out['frequency'].sum()
out['ccdf'] = 1 - out['cumulative']
return out
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nodes = pd.read_sql('select * from optourism.firenze_card_locations', con=conn)
In [177]:
# df = pd.read_csv('../src/output/firenzedata_feature_extracted.csv')
# df['museum_id'].replace(to_replace=39,value=38,inplace=True)
# df['date'] = pd.to_datetime(df['entry_time'], format='%Y-%m-%d %H:%M:%S').dt.date
# df['hour'] = pd.to_datetime(df['date']) + pd.to_timedelta(pd.to_datetime(df['entry_time'], format='%Y-%m-%d %H:%M:%S').dt.hour, unit='h')
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# df.columns
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# df.iloc[:,[0,2,3,9,10,11,12,13,14,15,16,17]].head()
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# frequency(df,'is_in_museum_37')
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# frequency(df,'entrances_per_card_per_museum')
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# frequency(df,'total_duration_card_use')
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df = pd.read_sql('select * from optourism.firenze_card_logs', con=conn)
df['museum_id'].replace(to_replace=39,value=38,inplace=True)
df['short_name'] = df['museum_id'].replace(dict(zip(nodes['museum_id'],nodes['short_name'])))
df['string'] = df['museum_id'].replace(dict(zip(nodes['museum_id'],nodes['string'])))
df['date'] = pd.to_datetime(df['entry_time'], format='%Y-%m-%d %H:%M:%S').dt.date
df['hour'] = pd.to_datetime(df['date']) + pd.to_timedelta(pd.to_datetime(df['entry_time'], format='%Y-%m-%d %H:%M:%S').dt.hour, unit='h')
df['total_people'] = df['total_adults'] + df['minors']
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df.head()
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I propose distinguishing paths from flows. A path is an itinerary, and the flow is the number of people who take the flow. E.g., a family or a tour group produces one path, but adds mulitple people to the overall flow.
We now build a transition graph, a directed graph where an edge represents a person going from one museum to another within the same day.
We also produce the transition matrix, a row-normalized n-by-n matrix of the frequency of transition from the row node to the column node. If you take a vector of the current volumes in each location, and multiply that my the transition matrix, you get a prediction for the number of people on each node at the next time. This prediction can be refined with corrections for daily/weekly patterns and such.
To make paths:
We want a dataframe with user, the museum they went from and the museum they went to, the number of people on the card, and the time of entry to the next museum.
We will drop much of this data in creating paths, which will be concatenations of single-character codes for each museum.
To track the first visit per day, we add a dummy "source" node that everybody starts each day from. We give it the character code " ", and can then split(" ") along it.
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df4 = df.groupby(['user_id','entry_time','date','hour','short_name','string']).sum()['total_people'].to_frame() # Need to group in this order to be correct further down
df4.reset_index(inplace=True)
df4['from'] = 'source' # Initialize 'from' column with 'source'
df4['to'] = df4['short_name'] # Copy 'to' column with row's museum_name
make_link = (df4['user_id'].shift(1)==df4['user_id'])&(df4['date'].shift(1)==df4['date']) # Row indexes at which to overwrite 'source'
df4['from'][make_link] = df4['short_name'].shift(1)[make_link]
df4['s'] = ' ' # Initialize 'from' column with 'source'
df4['t'] = df4['string'] # Copy 'to' column with row's museum_name
df4['s'][make_link] = df4['string'].shift(1)[make_link]
# Concatenating the source column is not enough, it leaves out the last place in the path.
# Need to add a second 'source' column that, for the last item in a day's path, contains two characters.
df4['path'] = df4['s']
df4['path'][df4['from'].shift(-1)=='source'] = (df4['path'] + df4['t'])[df4['from'].shift(-1)=='source']
# Note: the above trick doesn't work for the last row of data. So, do this as well:
df4.iloc[-1:]['path'] = df4.iloc[-1:]['s'] + df4.iloc[-1:]['t']
df4.head()
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df5 = df4.groupby('user_id')['path'].sum().to_frame() # sum() on strings concatenates
df5.head()
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df6 = df5['path'].apply(lambda x: pd.Series(x.strip().split(' '))) # Now split along strings. Takes a few seconds.
df6.head() # Note: 4 columns is correct, Firenze card is *72 hours from first use*, not from midnight of the day of first yse!
Out[191]:
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# df6.head(50) # Data stories just fall out! People traveling together, splitting off, etc. We assume this but strong coupling is hard to ignore.
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# Ordered paths
fr1 = frequency(df5,'path')
fr1.head(20) # INSIGHT: the top 15 paths are permutations of Duomo, Uffizi, Accademia. But they are a very small fraction of the total.
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fr1.iloc[0:50].plot.bar(x='path',y='frequency',figsize=(24,10))
plt.title('Most common total Firenze card paths (ordered set)')
plt.xlabel('x = Encoded path')
plt.ylabel('Number of cards with total path x')
# plt.yscale('log')
plt.show()
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# nodes # To make a legend
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df7 = df5['path'].apply(lambda x: ''.join(sorted(list(sub(' ','',x))))).to_frame()
df7.head()
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fr2 = frequency(df7,'path')
fr2.head()
Out[44]:
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fr2.iloc[0:50].plot.bar(x='path',y='frequency',figsize=(24,10))
plt.title('Most common set of museums visited on Firenze card (unordered paths)')
plt.xlabel('x = Set of encoded museums')
plt.ylabel('Number of cards with total set x')
plt.show()
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# How many nodes have differing numbers of minors on the card?
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# How many nodes have differing numbers of minors on the card?
df8 = df.groupby(['user_id','entry_time','short_name'])['minors'].sum().reset_index()[['user_id','minors']].groupby('user_id').nunique()['minors'].to_frame()
df8.columns = ['unique_counts_of_minors']
df8.head()
Out[193]:
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frequency(df8, 'unique_counts_of_minors')
Out[194]:
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df.set_index('user_id').loc[df8[df8['unique_counts_of_minors']>2].index][['short_name','total_adults','minors']].head()
Out[195]:
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df5[(df5.index<2030243)&(df5.index>2030238)]
Out[196]:
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# What are the variable numbers of minors? Is it always just 0 vs 1? No, we see more variety.
df[df['user_id'].isin(df8[df8['unique_counts_of_minors']>2].index)][['user_id','entry_time','short_name','minors']].groupby(['user_id','entry_time','short_name'])['minors'].sum().reset_index()[['user_id','minors']].groupby('user_id')['minors'].value_counts().head(20)
Out[197]:
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cards = df.groupby('user_id').agg({'short_name':'nunique',
'total_adults':'sum',
'minors':'max',
})
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In [172]:
# cards = df.groupby('user_id').agg({# 'entrances_per_card_per_museum':'sum',
# 'museum_id':'nunique', # Should be equal to sum of set of is_in columns
# # 'total_duration_card_use':'max',
# 'total_adults':'sum', # This sum should be equal to 'entrances_per_card_per_museum'
# 'is_in_museum_1':'max',
# 'is_in_museum_2':'max',
# 'is_in_museum_3':'max',
# 'is_in_museum_4':'max',
# 'is_in_museum_5':'max',
# 'is_in_museum_6':'max',
# 'is_in_museum_7':'max',
# 'is_in_museum_8':'max',
# 'is_in_museum_9':'max',
# 'is_in_museum_10':'max',
# 'is_in_museum_11':'max',
# 'is_in_museum_12':'max',
# 'is_in_museum_13':'max',
# 'is_in_museum_14':'max',
# 'is_in_museum_15':'max',
# 'is_in_museum_16':'max',
# 'is_in_museum_17':'max',
# 'is_in_museum_18':'max',
# 'is_in_museum_19':'max',
# 'is_in_museum_20':'max',
# 'is_in_museum_21':'max',
# 'is_in_museum_22':'max',
# 'is_in_museum_23':'max',
# 'is_in_museum_24':'max',
# 'is_in_museum_25':'max',
# 'is_in_museum_26':'max',
# 'is_in_museum_27':'max',
# 'is_in_museum_28':'max',
# 'is_in_museum_29':'max',
# 'is_in_museum_30':'max',
# 'is_in_museum_31':'max',
# 'is_in_museum_32':'max',
# 'is_in_museum_33':'max',
# 'is_in_museum_34':'max',
# 'is_in_museum_35':'max',
# 'is_in_museum_36':'max',
# 'is_in_museum_37':'max',
# 'is_in_museum_38':'max'
# })
In [173]:
# # Reorder correctly
# cards = cards[[# 'entrances_per_card_per_museum',
# 'museum_id',
# # 'total_duration_card_use',
# 'total_adults',
# 'is_in_museum_1',
# 'is_in_museum_2',
# 'is_in_museum_3',
# 'is_in_museum_4',
# 'is_in_museum_5',
# 'is_in_museum_6',
# 'is_in_museum_7',
# 'is_in_museum_8',
# 'is_in_museum_9',
# 'is_in_museum_10',
# 'is_in_museum_11',
# 'is_in_museum_12',
# 'is_in_museum_13',
# 'is_in_museum_14',
# 'is_in_museum_15',
# 'is_in_museum_16',
# 'is_in_museum_17',
# 'is_in_museum_18',
# 'is_in_museum_19',
# 'is_in_museum_20',
# 'is_in_museum_21',
# 'is_in_museum_22',
# 'is_in_museum_23',
# 'is_in_museum_24',
# 'is_in_museum_25',
# 'is_in_museum_26',
# 'is_in_museum_27',
# 'is_in_museum_28',
# 'is_in_museum_29',
# 'is_in_museum_30',
# 'is_in_museum_31',
# 'is_in_museum_32',
# 'is_in_museum_33',
# 'is_in_museum_34',
# 'is_in_museum_35',
# 'is_in_museum_36',
# 'is_in_museum_37',
# 'is_in_museum_38'
# ]]
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# # Rename appropriately
# cards.columns = [# 'entrances',
# 'museums_visited',
# # 'use_duration',
# 'entrances_2',
# 'visited_museum_1',
# 'visited_museum_2',
# 'visited_museum_3',
# 'visited_museum_4',
# 'visited_museum_5',
# 'visited_museum_6',
# 'visited_museum_7',
# 'visited_museum_8',
# 'visited_museum_9',
# 'visited_museum_10',
# 'visited_museum_11',
# 'visited_museum_12',
# 'visited_museum_13',
# 'visited_museum_14',
# 'visited_museum_15',
# 'visited_museum_16',
# 'visited_museum_17',
# 'visited_museum_18',
# 'visited_museum_19',
# 'visited_museum_20',
# 'visited_museum_21',
# 'visited_museum_22',
# 'visited_museum_23',
# 'visited_museum_24',
# 'visited_museum_25',
# 'visited_museum_26',
# 'visited_museum_27',
# 'visited_museum_28',
# 'visited_museum_29',
# 'visited_museum_30',
# 'visited_museum_31',
# 'visited_museum_32',
# 'visited_museum_33',
# 'visited_museum_34',
# 'visited_museum_35',
# 'visited_museum_36',
# 'visited_museum_37',
# 'visited_museum_38']
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cards.head(20)
Out[175]:
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pd.DataFrame([cards.iloc[:,1:39].sum(axis=1),cards['entrances_2']])
Out[176]:
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# Two tasks. First, do clustering on these people,
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X = cards.iloc[:,1:39].as_matrix()
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Z = linkage(y=X, method='single', metric='jaccard')
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pdist()
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df['museum_name'].nunique()
Out[166]:
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df['museum_id'].nunique()
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df['short_name'].nunique()
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df7 = df5['s2'].apply(lambda x: pd.Series(len(sub(' ','',x))))
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df7.head()
Out[19]:
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df7.sort_values(0,ascending=False).head(10)
Out[20]:
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df6.loc[df7.sort_values(0,ascending=False).head(10).index]
Out[21]:
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fr2 = frequency(df7,0)
fr2.head()
Out[22]:
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f, ax = plt.subplots(figsize=(6,5), dpi=300)
ax.stem(fr2[0],fr2['frequency'], linestyle='steps--')
# yscale('log')
# xscale('log')
ax.set_title('Number of museum visits by Florence Card')
ax.set_ylabel('Frequency')
ax.set_xlabel('Number of museums')
plt.show()
# NOTE: This is the number of *visits*, not people on those cards!!
# (And, not number of museums visited, this counts multiple visits to the same museum as distinct)
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df8 = df.groupby(['user_id','short_name','entry_time']).sum()['total_adults'].to_frame()
df8.head()
Out[24]:
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# Cards with more than one entrance to same museum
df9 = df.groupby(['user_id','short_name']).sum()['total_adults'].to_frame()
df9.columns = ['number_of_entries']
df9['number_of_entries'] = df9['number_of_entries']
df9[df9['number_of_entries']>1].head(50)
Out[25]:
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df8.shape[0] # Number of entries
Out[26]:
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df9.shape[0] # 12 repeat visits. Negligible.
Out[27]:
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df9[df9['number_of_entries']==1].shape[0]
Out[28]:
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df9[df9['number_of_entries']==2].shape[0]
Out[29]:
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df9[df9['number_of_entries']>2]
Out[30]:
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# # This is the number of people who entered on each card entry, not the number of repeat entries!
# frequency(df.groupby(['user_id','short_name',]).count()['entry_time'].to_frame(),'entry_time')
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df9 = df7.reset_index()
df10 = df8.reset_index()
df11 = df9.merge(df10).groupby('user_id').sum()
df11.columns = ['visits','total_people']
df11['persons_per_visit'] = df11['total_people']/df11['visits']
df11.head()
Out[32]:
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# df11[df11['persons_per_visit']>1].plot.scatter(x='visits',y='persons_per_visit')
We now want the following: a measure of similarity between adjacent rows, for detecting people traveling together (making the assumption that they bought Firenze cards consecutively).
This is simplest to do naively: not use anything statistical, but just fuzzy matching through edit distance, which is the number of operations (insertions, deletions, swaps) needed to change one string into another (or, opreations on list elements to change one list to another).
Since there are 3 days, and since we want slight deviations in otherwise identical large itineraries to count less, we calculate the following: a column with the edit distance between each pair of days between rows, summed, followed by a column with the total number of visits per row.
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# edit = pdist(X, lambda u, v: np.sqrt(((u-v)**2).sum()))
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df6.fillna('',inplace=True)
df6.iloc[0:10]
Out[35]:
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def editdist(pair):
return editdistance.eval(pair[0],pair[1])
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df7 = pd.concat([df6,df6.shift()],axis=1)
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df7.columns = ['0','1','2','3','0+','1+','2+','3+']
df7.head()
Out[38]:
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# df8 = df7.iloc[:,[0,4,1,5,2,6,3,7]]
# df8.columns = ['0','0+','1','1+','2','2+','3','3+']
# df8.columns = ['0','0+','1','1+','2','2+','3','3+']
# df8.head()
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df7['total_edit_distance'] = df7[['0','0+']].apply(editdist,axis=1) + df7[['1','1+']].apply(editdist,axis=1) + df7[['2','2+']].apply(editdist,axis=1) + df7[['3','3+']].apply(editdist,axis=1)
df7.head()
Out[40]:
In [41]:
df7['len'] = df7['0'].str.len() + df7['1'].str.len() + df7['2'].str.len() + df7['3'].str.len()
df7['len+'] = df7['0+'].str.len() + df7['1+'].str.len() + df7['2+'].str.len() + df7['3+'].str.len()
df7['len_tot'] = df7['len'] + df7['len+']
df7.head()
Out[41]:
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fr3 = frequency(df7[df7['total_edit_distance']==0],'len_tot')
fr3
Out[42]:
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frequency(df7[df7['total_edit_distance']==0],'len_tot')
Out[43]:
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df8 = df7.reset_index(inplace=False)
df8.reset_index(inplace=True)
df8.head()
Out[44]:
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# df7[df7['total_edit_distance']==0].hist('len_tot',bins=100, grid=False, figsize=[16,8])
f, ax = plt.subplots(figsize=(12,5), dpi=300)
ax.stem(fr3['len_tot']/2,fr3['frequency'], linestyle='steps--')
# yscale('log')
# xscale('log')
ax.set_title('Number of museums in perfectly matched consecutive paths')
ax.set_ylabel('Number of cards')
ax.set_xlabel('Number of museums')
plt.show()
# NOTE: This is the number of *visits*, not people on those cards!!
# (And, not number of museums visited, this counts multiple visits to the same museum as distinct)
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# df8.hist('user_id',bins=1000,figsize=[8,8])
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# df8[df8['user_id']>1500000].hist('user_id',bins=1000,figsize=[8,8])
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# df8.plot.scatter(x='index',y='total_edit_distance',figsize=[16,16], c=2+(df8['total_edit_distance']>0))
# sns.jointplot(x="index", y="total_edit_distance", data=df8)#, hue=(df9['total_edit_distance']==0))
# sns.jointplot(x="index", y="total_edit_distance", data=df8, kind='hex')
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sns.jointplot(x="total_edit_distance", y="len_tot", data=df8)
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sns.jointplot(x="total_edit_distance", y="len_tot", data=df8, kind='hex')
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sns.jointplot(x="total_edit_distance", y="len_tot", data=df8, kind='kde')
Now, need to extract consecutive rows of zero edit distance.
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df8['dist_gt_0'] = 1*(df8['total_edit_distance'] != 0)
# df8['offset'] = 1*(df8['zero_dist'] + df8['zero_dist'].shift()==0)
df8['group'] = cumsum(df8['dist_gt_0'])
df8.head(50)
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df9 = df8[['group','user_id']].groupby('group').count()
df9.columns = ['people']
df9.head()
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frequency(df9,'people')
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# # The code below was my attempt to get a node for starting the day and ending the day from the paths.
# # The problem is that this gives the number of _cards_, not number of people! I had to go back to the
# # dynamic edgelist construction anyway.
# df6.head()
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# df9 = df5['s2'].apply(lambda x: pd.Series(x.strip().split(' ')))
# df9.fillna(' ',inplace=True)
# df9['0_first'] = df9[0].apply(lambda x: pd.Series(x[0]))
# df9['0_last'] = df9[0].apply(lambda x: pd.Series(x[-1]))
# df9['0_len'] = df9[0].apply(lambda x: pd.Series(len(x)))
# df9['1_first'] = df9[1].apply(lambda x: pd.Series(x[0]))
# df9['1_last'] = df9[1].apply(lambda x: pd.Series(x[-1]))
# df9['1_len'] = df9[1].apply(lambda x: pd.Series(len(x)))
# df9['2_first'] = df9[2].apply(lambda x: pd.Series(x[0]))
# df9['2_last'] = df9[2].apply(lambda x: pd.Series(x[-1]))
# df9['2_len'] = df9[2].apply(lambda x: pd.Series(len(x)))
# df9['3_first'] = df9[3].apply(lambda x: pd.Series(x[0]))
# df9['3_last'] = df9[3].apply(lambda x: pd.Series(x[-1]))
# df9['3_len'] = df9[3].apply(lambda x: pd.Series(len(x)))
# df9.head()
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# df9.replace(' ',np.nan,inplace=True)
# df9.head()
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# from_home = frequency(df9[['0_first','1_first','2_first','3_first']].stack().to_frame(),0)[[0,'frequency']]
# from_home.columns = ['0','from_home']
# from_home.set_index('0',inplace=True)
# from_home.head()
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# only = frequency(pd.concat(
# [df9[(df9['0_len']==1)&(df9['0_first'].notnull())]['0_first'],
# df9[(df9['1_len']==1)&(df9['1_first'].notnull())]['1_first'],
# df9[(df9['2_len']==1)&(df9['2_first'].notnull())]['2_first'],
# df9[(df9['3_len']==1)&(df9['3_first'].notnull())]['3_first']
# ],axis=0).to_frame()
# ,0)[[0,'frequency']]
# only.columns = ['0','only']
# only.set_index('0',inplace=True)
# only.head()
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# to_home = frequency(df9[['0_last','1_last','2_last','3_last']].stack().to_frame(),0)[[0,'frequency']]
# to_home.columns = ['0','to_home']
# to_home.set_index('0',inplace=True)
# to_home.head()
In [9]:
# from_to_home = nodes.set_index('string')['short_name'].to_frame().join([from_home,to_home,only])
# from_to_home.set_index('short_name',inplace=True)
# from_to_home.columns = ['home_to_node','node_to_home','only_visit_of_day']
# # from_to_home['from_home'] = from_to_home['from_home_incl_only'] - from_to_home['only_visit_of_day']
# # from_to_home['to_home'] = from_to_home['to_home_incl_only'] - from_to_home['only_visit_of_day']
# from_to_home.head()
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# from_to_home['home_to_node'].sort_values(ascending=False).to_frame().head(20)
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# from_to_home['node_to_home'].sort_values(ascending=False).to_frame().head(20)
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# from_to_home.reset_index(inplace=True)
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# from_to_home
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# supp_edges = pd.DataFrame({'from':['home']*from_to_home.shape[0] + from_to_home['short_name'].tolist(),
# 'to':from_to_home['short_name'].tolist() + ['home']*from_to_home.shape[0],
# 'weight':from_to_home['home_to_node'].tolist() + from_to_home['node_to_home'].tolist() })
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# supp_edges.dropna(how='any',inplace=True)
# supp_edges
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frequency(df6,0).head()
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frequency(df6,1).head()
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frequency(df6,2).head()
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frequency(df6,3).head()
Now, I want a set of scatterplots between these frequencies.
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pt = pd.concat([frequency(df6,0),frequency(df6,1),frequency(df6,2),frequency(df6,3)])
pt['daily_path'] = pt[0].replace(np.nan, '', regex=True) + pt[1].replace(np.nan, '', regex=True) + pt[2].replace(np.nan, '', regex=True) + pt[3].replace(np.nan, '', regex=True)
pt.drop([0,1,2,3,'ccdf','cumulative'],axis=1,inplace=True)
pt.head()
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pt2 = pt.groupby('daily_path').sum()
pt2.sort_values('frequency', inplace=True, ascending=False)
pt2.head()
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pt2[pt2['frequency']>200].plot.bar(figsize=(16,8))
plt.title('Most common daily Firenze card paths across all days')
plt.xlabel('x = Encoded path')
plt.ylabel('Number of cards with daily path x')
# plt.yscale('log')
plt.show()
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nodes.head()
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# For reference, here are the displayed museums
# nodes[['string','short_name']].set_index('string').reindex(['D','P','U','A','V','T','N','C','G','B','S','c','m','M','b','Y','2'])
nodes[nodes['string'].isin(['D','P','U','A','V','T','N','C','G','B','S','c','m','M','b','Y','2'])][['string','short_name']]
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df6[pd.isnull(df6[0].str[0])].head()
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df6.to_csv('encoded_paths.csv')
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nodes.to_csv('encoded_paths_legend.csv')
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df6.values
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