/
generators.py
294 lines (245 loc) · 11.9 KB
/
generators.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
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
import csv
import datetime
import io
import sys
import struct
from django.contrib.sites.models import Site
from daiquiri import __version__ as daiquiri_version
from daiquiri.core.utils import get_doi_url
def generate_csv(generator, fields):
if sys.version_info.major >= 3:
io_class = io.StringIO
else:
io_class = io.BytesIO
# write header
f = io_class()
csv.writer(f, quotechar='"').writerow([field['name'] for field in fields])
yield f.getvalue()
for row in generator:
if row:
f = io_class()
csv.writer(f, quotechar='"').writerow(row)
yield f.getvalue()
def generate_votable(generator, fields, infos=[], links=[], table_name=None, empty=None):
yield '''<?xml version="1.0"?>
<VOTABLE version="1.3"
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xmlns="http://www.ivoa.net/xml/VOTable/v1.3"
xmlns:stc="http://www.ivoa.net/xml/STC/v1.30">'''
yield '''
<RESOURCE type="results">'''
for info in infos:
yield '''
<INFO name="%(key)s" value="%(value)s" />''' % info
for link in links:
yield '''
<LINK title="%(title)s" content-role="%(content_role)s" href="%(href)s"/>''' % link
if table_name is not None:
yield '''
<TABLE name="%s">''' % table_name
else:
yield '''
<TABLE>'''
for field in fields:
attrs = []
for key in ['name', 'unit', 'ucd', 'utype']:
if key in field and field[key]:
value = field[key].replace('&', '&').replace('<', '<').replace('>', '>')
attrs.append('%s="%s"' % (key, value))
if 'arraysize' in field and field['arraysize']:
attrs.append('arraysize="%s"' % field['arraysize'])
if field['datatype'] in ['char', 'unsignedByte', 'short', 'int', 'long', 'float', 'double']:
attrs.append('datatype="%s"' % field['datatype'])
else:
attrs.append('xtype="%s"' % field['datatype'])
yield '''
<FIELD %s />''' % ' '.join(attrs)
if not empty:
yield '''
<DATA>
<TABLEDATA>'''
# write rows of the table yielded by the generator
for row in generator:
yield '''
<TR>
<TD>%s</TD>
</TR>''' % '''</TD>
<TD>'''.join([('' if cell == 'NULL' else str(cell)) for cell in row])
yield '''
</TABLEDATA>
</DATA>'''
yield '''
</TABLE>
</RESOURCE>
</VOTABLE>
'''
def generate_fits(generator, fields, nrows, table_name=None):
# VO format label, FITS format label, size, NULL value, encoded value
formats_dict = {
'unsignedByte': ('s', 'L', 1, b'\x00', lambda x: b'T' if x == 'true' else b'F'),
'short': ('h', 'I', 2, 32767, int),
'int': ('i', 'J', 4, 2147483647, int),
'long': ('q', 'K', 8, 9223372036854775807, int),
'float': ('f', 'E', 4, float('nan'), float),
'double': ('d', 'D', 8, float('nan'), float),
'char': ('s', 'A', 32, b'', lambda x: x.encode()),
'timestamp': ('s', 'A', 19, b'', lambda x: x.encode()),
'array': ('s', 'A', 64, b'', lambda x: x.encode()),
'spoint': ('s', 'A', 64, b'', lambda x: x.encode()),
'unknown': ('s', 'A', 8, b'', lambda x: x.encode())
}
names = [d['name'] for d in fields]
datatypes = [d['datatype'] for d in fields]
arraysizes = [d['arraysize'] if d['arraysize'] is not None else ''
for d in fields]
for i, d in enumerate(zip(datatypes, arraysizes)):
if d[0] == 'timestamp':
arraysizes[i] = formats_dict['timestamp'][2]
elif d[0] in ('char', 'spoint', 'array') and d[1] == '':
arraysizes[i] = formats_dict[d[0]][2]
elif d[0] is None:
datatypes[i] = 'unknown'
arraysizes[i] = formats_dict['unknown'][2]
units = []
ucds = []
for d in fields:
if 'unit' in d and d['unit'] is not None:
units.append(d['unit'])
else:
units.append('')
if 'ucd' in d and d['ucd'] is not None:
ucds.append(d['ucd'])
else:
ucds.append('')
naxis1 = sum([formats_dict[i[0]][2] if not i[1] else i[1]
for i in zip(datatypes, arraysizes)])
naxis2 = nrows
tfields = len(names)
site = str(Site.objects.get_current())[:30]
content = """
`,......`
:::.````````...
::``,:::,`.....``..`
,:.`,``,:::`....`````..
.:``:::,``,:`::```...``..
:,`::::::,`````,::::::`.:
:::::::::::::::::::::::::
'''''''''''''''''''''''''''''''''''''''''''''''''''''''''''
,:,,,,,,,,,,,,,,,,,,,,,,,,,,,,,............................
:,,,`````````...,,,,,,,,............................```
,,,.```````...,,,,,,,,............................`
`,,,``````....,,,,,,,...........................`
:+++,,,,,::::+++++++++++++++++++++++++++++++'
\\\\ created with django-daiquiri //
\\\\ v%s//
\\\\%s//
,,,.....,,,..................`
:++':;;;++++++++++++++++++'
,,,,,,,::::;;;;;;;;''''
,,,................
,,,............
,,.........`
`;;;;;;;:
,'` `''
:: ::
. .`
+++++++++: , , .,
+++ +++ '+' '+' ++.
+++ ,++: :'+'. `'+' ,'';'+ ;'+` .'+' `'+' .++,:+ ;++`
+++ `++; ++ ''; ;'; `'' `'' ''` ;'' ;'' ;++:, ++`
+++ ;++. :++'''' ;'; ;'' `'' ''` ;'' ;'' ;+' ++`
+++ `+++: .++ ''' ;'' .'' .'' '', ''' ;'' '+' ++`
+++++++: `'+'`+',,+++, ;+'.++ ;++: +'.,+++,,++++. ++++
`+++.
""".replace('\x0a', ' ') % (daiquiri_version.ljust(18),
(' ' * (15 - len(site) // 2) + site).ljust(30))
# Main header #############################################################
header0 = [i.ljust(80) for i in [
'SIMPLE = T / conforms to FITS standard',
'BITPIX = 8 / array data type',
'NAXIS = 1 / number of array dimensions',
'NAXIS1 = 2880 / number of characters',
'EXTEND = T',
'NTABLE = 1',
'END'
]]
h0 = ''.join(header0)
h0 += ' ' * (2880 * (len(h0) // 2880 + 1) - len(h0))
yield h0.encode()
# Main table content - required by some FITS viewers ######################
yield (content + '\x00' * (2880 - len(content))).encode()
# Table header ############################################################
header1 = [
"XTENSION= 'BINTABLE' / binary table extension".ljust(80),
'BITPIX = 8 / array data type'.ljust(80),
'NAXIS = 2 / number of array dimensions'.ljust(80),
'NAXIS1 = %20d / length of dimension 1'.ljust(64),
'NAXIS2 = %20d / length of dimension 2'.ljust(64),
'PCOUNT = 0 / number of group parameters'.ljust(80),
'GCOUNT = 1 / number of groups'.ljust(80),
'TFIELDS = %20d / number of table fields'.ljust(64),
]
if table_name is not None:
# table_name needs to be shorter than 68 chars
header1.append(("EXTNAME = '%s' / table name" %
str(table_name[:68])).ljust(80))
h1 = ''.join(header1) % (naxis1, naxis2, tfields)
ttype = ("TTYPE%s", "= '%s'")
tform = ("TFORM%s", "= '%s'")
tnull = ("TNULL%s", "= %s")
tunit = ("TUNIT%s", "= '%s'")
tucd = ("TUCD%s", "= '%s'")
for i, d in enumerate(zip(names, datatypes, arraysizes, units, ucds)):
temp = "".join(((ttype[0] % str(i + 1)).ljust(8),
ttype[1] % d[0][:68].ljust(8)))[:80].ljust(30)
temp += ' / label for column %d' % (i + 1)
temp = temp[:80]
temp += ' ' * (80 - len(temp))
h1 += temp
ff = (str(d[2]) + formats_dict[d[1]][1]).ljust(8)
temp = "".join(((tform[0] % str(i + 1)).ljust(8),
tform[1] % ff))[:80].ljust(31)
temp += '/ format for column %d' % (i + 1)
temp = temp[:80]
temp += ' ' * (80 - len(temp))
h1 += temp
# NULL values only for int-like types
if d[1] in ('short', 'int', 'long'):
temp = "".join(((tnull[0] % str(i + 1)).ljust(8),
tnull[1] % formats_dict[d[1]][3]))[:80].ljust(31)
temp += '/ blank value for column %d' % (i + 1)
temp = temp[:80]
temp += ' ' * (80 - len(temp))
h1 += temp
if d[3]:
temp = "".join(((tunit[0] % str(i + 1)).ljust(8),
tunit[1] % d[3][:68].ljust(8)))[:80].ljust(30)
temp += ' / unit for column %d' % (i + 1)
temp = temp[:80]
temp += ' ' * (80 - len(temp))
h1 += temp
if d[4]:
temp = "".join(((tucd[0] % str(i + 1)).ljust(8),
tucd[1] % d[4][:68].ljust(8)))[:80].ljust(30)
temp += ' / ucd for column %d' % (i + 1)
temp = temp[:80]
temp += ' ' * (80 - len(temp))
h1 += temp
now = datetime.datetime.utcnow().replace(microsecond=0).isoformat()
h1 += ("DATE-HDU= '%s' / UTC date of HDU creation" % now).ljust(80)
h1 += 'END'.ljust(80)
h1 += ' ' * (2880 * (len(h1) // 2880 + 1) - len(h1))
yield h1.encode()
# Data ####################################################################
fmt = '>' + ''.join([str(i[1]) + formats_dict[i[0]][0]
for i in zip(datatypes, arraysizes)])
row_count = 0
for row in generator:
r = [formats_dict[i[1]][3] if i[0] == 'NULL'
else formats_dict[i[1]][4](i[0]) for i in zip(row, datatypes)]
yield struct.pack(fmt, *r)
row_count += 1
# Footer padding (to fill the last block to 2880 bytes) ###################
ln = naxis1 * row_count
footer = '\x00' * (2880 * (ln // 2880 + 1) - ln)
yield footer.encode()