-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathinit.py
219 lines (185 loc) · 7.74 KB
/
init.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
###############################################################################
## VisTrails package for reading and extracting data from files that
## python's csv module can parse.
##
## By David Koop, [email protected]
##
## Copyright (C) 2012, NYU-Poly.
## Copyright (C) 2010-2011, University of Utah.
###############################################################################
import copy
import csv
import operator
from core.modules.vistrails_module import Module, ModuleError
class TabularData(Module):
def __init__(self, data, header=None):
self.data = data
self.header = header
class CSVReader(Module):
_input_ports = [('file', '(edu.utah.sci.vistrails.basic:File)')]
_output_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)')]
def compute(self):
reader = csv.reader(open(self.getInputFromPort('file').name, 'rU'))
reader.next()
reader.next()
header = reader.next()
data = []
for row in reader:
data.append(row)
tab_data = TabularData(data, header)
self.setResult('data', tab_data)
class RankByColumn(Module):
_input_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)'),
('columnName', '(edu.utah.sci.vistrails.basic:String)'),
('column', '(edu.utah.sci.vistrails.basic:Integer)')]
_output_ports = [('data', '(edu.utah.sci.vistrails.basic:List)')]
def compute(self):
d = self.getInputFromPort('data')
data = d.data
header = d.header
if self.hasInputFromPort('columnName'):
if header is None:
raise ModuleError(self, "Data does not contain header")
column_name = self.getInputFromPort('columnName')
try:
idx = header.index(column)
except ValueError:
raise ModuleError(self, "Data does not contain column '%s'" % \
column)
else:
idx = self.getInputFromPort('column')
data = copy.deepcopy(data)
data.sort(key=lambda x: x[idx])
d = TabularData(data, header)
class ExtractColumn(Module):
_input_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)'),
('columnName', '(edu.utah.sci.vistrails.basic:String)'),
('column', '(edu.utah.sci.vistrails.basic:Integer)')]
_output_ports = [('columnData', '(edu.utah.sci.vistrails.basic:List)')]
def compute(self):
d = self.getInputFromPort('data')
data = d.data
header = d.header
if self.hasInputFromPort('columnName'):
if header is None:
raise ModuleError(self, "Data does not contain header")
column_name = self.getInputFromPort('columnName')
try:
idx = header.index(column_name)
except ValueError:
raise ModuleError(self, "Data does not contain column '%s'" % \
column)
else:
idx = self.getInputFromPort('column')
col_data = []
for row in data:
print 'processing row', row
col_data.append(row[idx])
self.setResult('columnData', col_data)
class ExtractRow(Module):
_input_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)'),
('rowName', '(edu.utah.sci.vistrails.basic:String)'),
('row', '(edu.utah.sci.vistrails.basic:Integer)')]
_output_ports = [('rowData', '(edu.utah.sci.vistrails.basic:List)')]
def compute(self):
d = self.getInputFromPort('data')
data = d.data
header = d.header
if self.hasInputFromPort('rowName'):
row_name = self.getInputFromPort('rowName')
found = False
for idx, row in enumerate(rows):
if row[0] == row_name:
found = True
break
if not found:
raise ModuleError(self, "Data does not contain row '%s'" % \
row)
else:
idx = self.getInputFromPort('row')
row_data = data[idx]
self.setResult('rowData', row_data)
class JoinData(Module):
_input_ports = [('dataA', '(edu.utah.sci.dakoop.tabdata:TabularData)'),
('dataB', '(edu.utah.sci.dakoop.tabdata:TabularData)'),
('joinColA', '(edu.utah.sci.vistrails.basic:Integer)'),
('joinColB', '(edu.utah.sci.vistrails.basic:Integer)')]
_output_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)')]
def compute(self):
a_d = self.getInputFromPort('dataA')
b_d = self.getInputFromPort('dataB')
a_data = a_d.data
b_data = b_d.data
a_join = self.getInputFromPort('joinColA')
b_join = self.getInputFromPort('joinColB')
b_idx = {}
for idx, row in enumerate(b_data):
b_idx[row[b_join]] = idx
data = []
for row in a_data:
a_idx = row[a_join]
new_row = row + b_data[b_idx[a_idx]]
data.append(new_row)
header = a_d.header + b_d.header
joined_data = TabularData(data, header)
self.setResult('data', joined_data)
class AggregateData(Module):
_input_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)'),
('columns', '(edu.utah.sci.vistrails.basic:List)'),
('operation', '(edu.utah.sci.vistrails.basic:String)')]
_output_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)')]
def compute(self):
d = self.getInputFromPort('data')
data = d.data
header = d.header
columns = self.getInputFromPort('columns')
operation = self.getInputFromPort('operation')
if not hasattr(operator, operation):
raise ModuleError("Unknown operation: '%s'" % operation)
op = getattr(operator, operation)
new_data = []
for row in data:
new_row = []
value = None
for idx in xrange(len(row)):
raw_val = row[idx]
new_row.append(raw_val)
if idx in columns:
# col_val = int(''.join(raw_val.split(',')))
if value is None:
value = raw_val
else:
value = op(value, raw_val)
new_row.append(value)
new_data.append(new_row)
new_header = None
if header is not None:
new_header = []
for idx, col in enumerate(header):
if idx not in columns:
new_header.append(col)
new_header.append("Aggregate")
new_d = TabularData(new_data, new_header)
self.setResult('data', new_d)
class StringToNumeric(Module):
_input_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)')]
_output_ports = [('data', '(edu.utah.sci.dakoop.tabdata:TabularData)')]
def compute(self):
d = self.getInputFromPort('data')
data = d.data
new_data = []
for row in data:
new_row = []
for item in row:
new_item = item
try:
new_item = float(''.join(item.split(',')))
new_item = int(''.join(item.split(',')))
except ValueError:
pass
new_row.append(new_item)
new_data.append(new_row)
new_d = TabularData(new_data, d.header)
self.setResult('data', new_d)
_modules = [TabularData, CSVReader, ExtractColumn, ExtractRow, JoinData,
AggregateData, StringToNumeric]