1 | """ |
---|
2 | Unit tests for data manipulations |
---|
3 | """ |
---|
4 | from __future__ import print_function |
---|
5 | |
---|
6 | import unittest |
---|
7 | import math |
---|
8 | import numpy as np |
---|
9 | from sas.sascalc.dataloader.loader import Loader |
---|
10 | from sas.sascalc.dataloader.readers.IgorReader import Reader as IgorReader |
---|
11 | from sas.sascalc.dataloader.readers.abs_reader import Reader as AbsReader |
---|
12 | from sas.sascalc.dataloader.readers.hfir1d_reader import Reader as HFIRReader |
---|
13 | from sas.sascalc.dataloader.readers.danse_reader import Reader as DANSEReader |
---|
14 | from sas.sascalc.dataloader.readers.cansas_reader import Reader as CANSASReader |
---|
15 | |
---|
16 | from sas.sascalc.dataloader.data_info import Data1D |
---|
17 | |
---|
18 | import os.path |
---|
19 | |
---|
20 | |
---|
21 | class abs_reader(unittest.TestCase): |
---|
22 | |
---|
23 | def setUp(self): |
---|
24 | reader = AbsReader() |
---|
25 | self.data = reader.read("jan08002.ABS") |
---|
26 | |
---|
27 | def test_abs_checkdata(self): |
---|
28 | """ |
---|
29 | Check the data content to see whether |
---|
30 | it matches the specific file we loaded. |
---|
31 | Check the units too to see whether the |
---|
32 | Data1D defaults changed. Otherwise the |
---|
33 | tests won't pass |
---|
34 | """ |
---|
35 | self.assertEqual(self.data.filename, "jan08002.ABS") |
---|
36 | self.assertEqual(self.data.meta_data['loader'], "IGOR 1D") |
---|
37 | |
---|
38 | self.assertEqual(self.data.source.wavelength_unit, 'A') |
---|
39 | self.assertEqual(self.data.source.wavelength, 6.0) |
---|
40 | |
---|
41 | self.assertEqual(self.data.detector[0].distance_unit, 'mm') |
---|
42 | self.assertEqual(self.data.detector[0].distance, 1000.0) |
---|
43 | |
---|
44 | self.assertEqual(self.data.sample.transmission, 0.5667) |
---|
45 | |
---|
46 | self.assertEqual(self.data.detector[0].beam_center_unit, 'mm') |
---|
47 | center_x = 114.58*5.0 |
---|
48 | center_y = 64.22*5.0 |
---|
49 | self.assertEqual(self.data.detector[0].beam_center.x, center_x) |
---|
50 | self.assertEqual(self.data.detector[0].beam_center.y, center_y) |
---|
51 | |
---|
52 | self.assertEqual(self.data.y_unit, '1/cm') |
---|
53 | self.assertEqual(self.data.x[0], 0.002618) |
---|
54 | self.assertEqual(self.data.x[1], 0.007854) |
---|
55 | self.assertEqual(self.data.x[2], 0.01309) |
---|
56 | self.assertEqual(self.data.x[126], 0.5828) |
---|
57 | |
---|
58 | self.assertEqual(self.data.y[0], 0.02198) |
---|
59 | self.assertEqual(self.data.y[1], 0.02201) |
---|
60 | self.assertEqual(self.data.y[2], 0.02695) |
---|
61 | self.assertEqual(self.data.y[126], 0.2958) |
---|
62 | |
---|
63 | self.assertEqual(self.data.dy[0], 0.002704) |
---|
64 | self.assertEqual(self.data.dy[1], 0.001643) |
---|
65 | self.assertEqual(self.data.dy[2], 0.002452) |
---|
66 | self.assertEqual(self.data.dy[126], 1) |
---|
67 | |
---|
68 | def test_checkdata2(self): |
---|
69 | self.assertEqual(self.data.dy[126], 1) |
---|
70 | |
---|
71 | def test_generic_loader(self): |
---|
72 | # the generic loader should work as well |
---|
73 | data = Loader().load("jan08002.ABS") |
---|
74 | self.assertEqual(data.meta_data['loader'], "IGOR 1D") |
---|
75 | |
---|
76 | |
---|
77 | class hfir_reader(unittest.TestCase): |
---|
78 | |
---|
79 | def setUp(self): |
---|
80 | reader = HFIRReader() |
---|
81 | self.data = reader.read("S2-30dq.d1d") |
---|
82 | |
---|
83 | def test_hfir_checkdata(self): |
---|
84 | """ |
---|
85 | Check the data content to see whether |
---|
86 | it matches the specific file we loaded. |
---|
87 | """ |
---|
88 | self.assertEqual(self.data.filename, "S2-30dq.d1d") |
---|
89 | # THIS FILE FORMAT IS CURRENTLY READ BY THE ASCII READER |
---|
90 | self.assertEqual(self.data.meta_data['loader'], "HFIR 1D") |
---|
91 | self.assertEqual(len(self.data.x), 134) |
---|
92 | self.assertEqual(len(self.data.y), 134) |
---|
93 | # Q I dI dQ |
---|
94 | # Point 1: 0.003014 0.003010 0.000315 0.008249 |
---|
95 | self.assertEqual(self.data.x[1], 0.003014) |
---|
96 | self.assertEqual(self.data.y[1], 0.003010) |
---|
97 | self.assertEqual(self.data.dy[1], 0.000315) |
---|
98 | self.assertEqual(self.data.dx[1], 0.008249) |
---|
99 | |
---|
100 | def test_generic_loader(self): |
---|
101 | # the generic loader should work as well |
---|
102 | data = Loader().load("S2-30dq.d1d") |
---|
103 | self.assertEqual(data.meta_data['loader'], "HFIR 1D") |
---|
104 | |
---|
105 | |
---|
106 | class igor_reader(unittest.TestCase): |
---|
107 | |
---|
108 | def setUp(self): |
---|
109 | # the IgorReader should be able to read this filetype |
---|
110 | # if it can't, stop here. |
---|
111 | reader = IgorReader() |
---|
112 | self.data = reader.read("MAR07232_rest.ASC") |
---|
113 | |
---|
114 | def test_igor_checkdata(self): |
---|
115 | """ |
---|
116 | Check the data content to see whether |
---|
117 | it matches the specific file we loaded. |
---|
118 | Check the units too to see whether the |
---|
119 | Data1D defaults changed. Otherwise the |
---|
120 | tests won't pass |
---|
121 | """ |
---|
122 | self.assertEqual(self.data.filename, "MAR07232_rest.ASC") |
---|
123 | self.assertEqual(self.data.meta_data['loader'], "IGOR 2D") |
---|
124 | |
---|
125 | self.assertEqual(self.data.source.wavelength_unit, 'A') |
---|
126 | self.assertEqual(self.data.source.wavelength, 8.4) |
---|
127 | |
---|
128 | self.assertEqual(self.data.detector[0].distance_unit, 'mm') |
---|
129 | self.assertEqual(self.data.detector[0].distance, 13705) |
---|
130 | |
---|
131 | self.assertEqual(self.data.sample.transmission, 0.84357) |
---|
132 | |
---|
133 | self.assertEqual(self.data.detector[0].beam_center_unit, 'mm') |
---|
134 | center_x = (68.76 - 1)*5.0 |
---|
135 | center_y = (62.47 - 1)*5.0 |
---|
136 | self.assertEqual(self.data.detector[0].beam_center.x, center_x) |
---|
137 | self.assertEqual(self.data.detector[0].beam_center.y, center_y) |
---|
138 | |
---|
139 | self.assertEqual(self.data.I_unit, '1/cm') |
---|
140 | # 3 points should be suffcient to check that the data is in column |
---|
141 | # major order. |
---|
142 | np.testing.assert_almost_equal(self.data.data[0:3], |
---|
143 | [0.279783, 0.28951, 0.167634]) |
---|
144 | np.testing.assert_almost_equal(self.data.qx_data[0:3], |
---|
145 | [-0.01849072, -0.01821785, -0.01794498]) |
---|
146 | np.testing.assert_almost_equal(self.data.qy_data[0:3], |
---|
147 | [-0.01677435, -0.01677435, -0.01677435]) |
---|
148 | |
---|
149 | def test_generic_loader(self): |
---|
150 | # the generic loader should direct the file to IgorReader as well |
---|
151 | data = Loader().load("MAR07232_rest.ASC") |
---|
152 | self.assertEqual(data.meta_data['loader'], "IGOR 2D") |
---|
153 | |
---|
154 | |
---|
155 | class danse_reader(unittest.TestCase): |
---|
156 | |
---|
157 | def setUp(self): |
---|
158 | reader = DANSEReader() |
---|
159 | self.data = reader.read("MP_New.sans") |
---|
160 | |
---|
161 | def test_checkdata(self): |
---|
162 | """ |
---|
163 | Check the data content to see whether |
---|
164 | it matches the specific file we loaded. |
---|
165 | Check the units too to see whether the |
---|
166 | Data1D defaults changed. Otherwise the |
---|
167 | tests won't pass |
---|
168 | """ |
---|
169 | self.assertEqual(self.data.filename, "MP_New.sans") |
---|
170 | self.assertEqual(self.data.meta_data['loader'], "DANSE") |
---|
171 | |
---|
172 | self.assertEqual(self.data.source.wavelength_unit, 'A') |
---|
173 | self.assertEqual(self.data.source.wavelength, 7.5) |
---|
174 | |
---|
175 | self.assertEqual(self.data.detector[0].distance_unit, 'mm') |
---|
176 | self.assertAlmostEqual(self.data.detector[0].distance, 5414.99, 3) |
---|
177 | |
---|
178 | self.assertEqual(self.data.detector[0].beam_center_unit, 'mm') |
---|
179 | center_x = 68.74*5.0 |
---|
180 | center_y = 64.77*5.0 |
---|
181 | self.assertEqual(self.data.detector[0].beam_center.x, center_x) |
---|
182 | self.assertEqual(self.data.detector[0].beam_center.y, center_y) |
---|
183 | |
---|
184 | self.assertEqual(self.data.I_unit, '1/cm') |
---|
185 | self.assertEqual(self.data.data[0], 1.57831) |
---|
186 | self.assertEqual(self.data.data[1], 2.70983) |
---|
187 | self.assertEqual(self.data.data[2], 3.83422) |
---|
188 | |
---|
189 | self.assertEqual(self.data.err_data[0], 1.37607) |
---|
190 | self.assertEqual(self.data.err_data[1], 1.77569) |
---|
191 | self.assertEqual(self.data.err_data[2], 2.06313) |
---|
192 | |
---|
193 | def test_generic_loader(self): |
---|
194 | # the generic loader should work as well |
---|
195 | data = Loader().load("MP_New.sans") |
---|
196 | self.assertEqual(data.meta_data['loader'], "DANSE") |
---|
197 | |
---|
198 | |
---|
199 | class cansas_reader(unittest.TestCase): |
---|
200 | |
---|
201 | def setUp(self): |
---|
202 | reader = CANSASReader() |
---|
203 | data = reader.read("cansas1d.xml") |
---|
204 | self.data = data[0] |
---|
205 | |
---|
206 | def test_generic_loader(self): |
---|
207 | # the generic loader should work as well |
---|
208 | data = Loader().load("cansas1d.xml") |
---|
209 | self.assertEqual(data[0].meta_data['loader'], "CanSAS XML 1D") |
---|
210 | |
---|
211 | def test_cansas_checkdata(self): |
---|
212 | self.assertEqual(self.data.filename, "cansas1d.xml") |
---|
213 | self._checkdata() |
---|
214 | |
---|
215 | def _checkdata(self): |
---|
216 | """ |
---|
217 | Check the data content to see whether |
---|
218 | it matches the specific file we loaded. |
---|
219 | Check the units too to see whether the |
---|
220 | Data1D defaults changed. Otherwise the |
---|
221 | tests won't pass |
---|
222 | """ |
---|
223 | self.assertEqual(self.data.run[0], "1234") |
---|
224 | self.assertEqual(self.data.meta_data['loader'], "CanSAS XML 1D") |
---|
225 | |
---|
226 | # Data |
---|
227 | self.assertEqual(len(self.data.x), 2) |
---|
228 | self.assertEqual(self.data.x_unit, '1/A') |
---|
229 | self.assertEqual(self.data.y_unit, '1/cm') |
---|
230 | self.assertAlmostEqual(self.data.x[0], 0.02, 6) |
---|
231 | self.assertAlmostEqual(self.data.y[0], 1000, 6) |
---|
232 | self.assertAlmostEqual(self.data.dx[0], 0.01, 6) |
---|
233 | self.assertAlmostEqual(self.data.dy[0], 3, 6) |
---|
234 | self.assertAlmostEqual(self.data.x[1], 0.03, 6) |
---|
235 | self.assertAlmostEqual(self.data.y[1], 1001.0) |
---|
236 | self.assertAlmostEqual(self.data.dx[1], 0.02, 6) |
---|
237 | self.assertAlmostEqual(self.data.dy[1], 4, 6) |
---|
238 | self.assertEqual(self.data.run_name['1234'], 'run name') |
---|
239 | self.assertEqual(self.data.title, "Test title") |
---|
240 | |
---|
241 | # Sample info |
---|
242 | self.assertEqual(self.data.sample.ID, "SI600-new-long") |
---|
243 | self.assertEqual(self.data.sample.name, "my sample") |
---|
244 | self.assertEqual(self.data.sample.thickness_unit, 'mm') |
---|
245 | self.assertAlmostEqual(self.data.sample.thickness, 1.03) |
---|
246 | |
---|
247 | self.assertAlmostEqual(self.data.sample.transmission, 0.327) |
---|
248 | |
---|
249 | self.assertEqual(self.data.sample.temperature_unit, 'C') |
---|
250 | self.assertEqual(self.data.sample.temperature, 0) |
---|
251 | |
---|
252 | self.assertEqual(self.data.sample.position_unit, 'mm') |
---|
253 | self.assertEqual(self.data.sample.position.x, 10) |
---|
254 | self.assertEqual(self.data.sample.position.y, 0) |
---|
255 | |
---|
256 | self.assertEqual(self.data.sample.orientation_unit, 'degree') |
---|
257 | self.assertAlmostEqual(self.data.sample.orientation.x, 22.5, 6) |
---|
258 | self.assertAlmostEqual(self.data.sample.orientation.y, 0.02, 6) |
---|
259 | |
---|
260 | self.assertEqual(self.data.sample.details[0], "http://chemtools.chem.soton.ac.uk/projects/blog/blogs.php/bit_id/2720") |
---|
261 | self.assertEqual(self.data.sample.details[1], "Some text here") |
---|
262 | |
---|
263 | # Instrument info |
---|
264 | self.assertEqual(self.data.instrument, "canSAS instrument") |
---|
265 | |
---|
266 | # Source |
---|
267 | self.assertEqual(self.data.source.radiation, "neutron") |
---|
268 | |
---|
269 | self.assertEqual(self.data.source.beam_size_unit, "mm") |
---|
270 | self.assertEqual(self.data.source.beam_size_name, "bm") |
---|
271 | self.assertEqual(self.data.source.beam_size.x, 12) |
---|
272 | self.assertEqual(self.data.source.beam_size.y, 13) |
---|
273 | |
---|
274 | self.assertEqual(self.data.source.beam_shape, "disc") |
---|
275 | |
---|
276 | self.assertEqual(self.data.source.wavelength_unit, "A") |
---|
277 | self.assertEqual(self.data.source.wavelength, 6) |
---|
278 | |
---|
279 | self.assertEqual(self.data.source.wavelength_max_unit, "nm") |
---|
280 | self.assertAlmostEqual(self.data.source.wavelength_max, 1.0) |
---|
281 | self.assertEqual(self.data.source.wavelength_min_unit, "nm") |
---|
282 | self.assertAlmostEqual(self.data.source.wavelength_min, 0.22) |
---|
283 | self.assertEqual(self.data.source.wavelength_spread_unit, "percent") |
---|
284 | self.assertEqual(self.data.source.wavelength_spread, 14.3) |
---|
285 | |
---|
286 | # Collimation |
---|
287 | _found1 = False |
---|
288 | _found2 = False |
---|
289 | self.assertEqual(self.data.collimation[0].length, 123.) |
---|
290 | self.assertEqual(self.data.collimation[0].name, 'test coll name') |
---|
291 | |
---|
292 | for item in self.data.collimation[0].aperture: |
---|
293 | self.assertEqual(item.size_unit,'mm') |
---|
294 | self.assertEqual(item.distance_unit,'mm') |
---|
295 | |
---|
296 | if item.size.x == 50 \ |
---|
297 | and item.distance == 11000.0 \ |
---|
298 | and item.name == 'source' \ |
---|
299 | and item.type == 'radius': |
---|
300 | _found1 = True |
---|
301 | elif item.size.x == 1.0 \ |
---|
302 | and item.name == 'sample' \ |
---|
303 | and item.type == 'radius': |
---|
304 | _found2 = True |
---|
305 | |
---|
306 | if _found1 == False or _found2 == False: |
---|
307 | raise RuntimeError, "Could not find all data %s %s" % (_found1, _found2) |
---|
308 | |
---|
309 | # Detector |
---|
310 | self.assertEqual(self.data.detector[0].name, "fictional hybrid") |
---|
311 | self.assertEqual(self.data.detector[0].distance_unit, "mm") |
---|
312 | self.assertEqual(self.data.detector[0].distance, 4150) |
---|
313 | |
---|
314 | self.assertEqual(self.data.detector[0].orientation_unit, "degree") |
---|
315 | self.assertAlmostEqual(self.data.detector[0].orientation.x, 1.0, 6) |
---|
316 | self.assertEqual(self.data.detector[0].orientation.y, 0.0) |
---|
317 | self.assertEqual(self.data.detector[0].orientation.z, 0.0) |
---|
318 | |
---|
319 | self.assertEqual(self.data.detector[0].offset_unit, "m") |
---|
320 | self.assertEqual(self.data.detector[0].offset.x, .001) |
---|
321 | self.assertEqual(self.data.detector[0].offset.y, .002) |
---|
322 | self.assertEqual(self.data.detector[0].offset.z, None) |
---|
323 | |
---|
324 | self.assertEqual(self.data.detector[0].beam_center_unit, "mm") |
---|
325 | self.assertEqual(self.data.detector[0].beam_center.x, 322.64) |
---|
326 | self.assertEqual(self.data.detector[0].beam_center.y, 327.68) |
---|
327 | self.assertEqual(self.data.detector[0].beam_center.z, None) |
---|
328 | |
---|
329 | self.assertEqual(self.data.detector[0].pixel_size_unit, "mm") |
---|
330 | self.assertEqual(self.data.detector[0].pixel_size.x, 5) |
---|
331 | self.assertEqual(self.data.detector[0].pixel_size.y, 5) |
---|
332 | self.assertEqual(self.data.detector[0].pixel_size.z, None) |
---|
333 | |
---|
334 | # Process |
---|
335 | _found_term1 = False |
---|
336 | _found_term2 = False |
---|
337 | for item in self.data.process: |
---|
338 | self.assertTrue(item.name in ['NCNR-IGOR', 'spol']) |
---|
339 | self.assertTrue(item.date in ['04-Sep-2007 18:35:02', |
---|
340 | '03-SEP-2006 11:42:47']) |
---|
341 | print(item.term) |
---|
342 | for t in item.term: |
---|
343 | if (t['name'] == "ABS:DSTAND" |
---|
344 | and t['unit'] == 'mm' |
---|
345 | and float(t['value']) == 1.0): |
---|
346 | _found_term2 = True |
---|
347 | elif (t['name'] == "radialstep" |
---|
348 | and t['unit'] == 'mm' |
---|
349 | and float(t['value']) == 10.0): |
---|
350 | _found_term1 = True |
---|
351 | |
---|
352 | if _found_term1 == False or _found_term2 == False: |
---|
353 | raise RuntimeError, "Could not find all process terms %s %s" % (_found_term1, _found_term2) |
---|
354 | |
---|
355 | def test_writer(self): |
---|
356 | r = CANSASReader() |
---|
357 | |
---|
358 | filename = "write_test.xml" |
---|
359 | r.write(filename, self.data) |
---|
360 | data = Loader().load(filename) |
---|
361 | self.data = data[0] |
---|
362 | self.assertEqual(self.data.filename, filename) |
---|
363 | self._checkdata() |
---|
364 | if os.path.isfile(filename): |
---|
365 | os.remove(filename) |
---|
366 | |
---|
367 | def test_units(self): |
---|
368 | """ |
---|
369 | Check units. |
---|
370 | Note that not all units are available. |
---|
371 | """ |
---|
372 | filename = "cansas1d_units.xml" |
---|
373 | data = CANSASReader().read(filename) |
---|
374 | self.data = data[0] |
---|
375 | self.assertEqual(self.data.filename, filename) |
---|
376 | self._checkdata() |
---|
377 | |
---|
378 | def test_badunits(self): |
---|
379 | """ |
---|
380 | Check units. |
---|
381 | Note that not all units are available. |
---|
382 | """ |
---|
383 | filename = "cansas1d_badunits.xml" |
---|
384 | data = CANSASReader().read(filename) |
---|
385 | self.data = data[0] |
---|
386 | self.assertEqual(self.data.filename, filename) |
---|
387 | # The followed should not have been loaded |
---|
388 | self.assertAlmostEqual(self.data.sample.thickness, 0.00103) |
---|
389 | # This one should |
---|
390 | self.assertAlmostEqual(self.data.sample.transmission, 0.327) |
---|
391 | |
---|
392 | self.assertEqual(self.data.meta_data['loader'], "CanSAS XML 1D") |
---|
393 | print(self.data.errors) |
---|
394 | self.assertEqual(len(self.data.errors), 1) |
---|
395 | |
---|
396 | def test_slits(self): |
---|
397 | """ |
---|
398 | Check slit data |
---|
399 | """ |
---|
400 | filename = "cansas1d_slit.xml" |
---|
401 | data = CANSASReader().read(filename) |
---|
402 | self.data = data[0] |
---|
403 | self.assertEqual(self.data.filename, filename) |
---|
404 | self.assertEqual(self.data.run[0], "1234") |
---|
405 | |
---|
406 | # Data |
---|
407 | self.assertEqual(len(self.data.x), 2) |
---|
408 | self.assertEqual(self.data.x_unit, '1/A') |
---|
409 | self.assertEqual(self.data.y_unit, '1/cm') |
---|
410 | self.assertEqual(self.data.x[0], 0.02) |
---|
411 | self.assertEqual(self.data.y[0], 1000) |
---|
412 | self.assertEqual(self.data.dxl[0], 0.005) |
---|
413 | self.assertEqual(self.data.dxw[0], 0.001) |
---|
414 | self.assertEqual(self.data.dy[0], 3) |
---|
415 | self.assertEqual(self.data.x[1], 0.03) |
---|
416 | self.assertAlmostEquals(self.data.y[1], 1001.0) |
---|
417 | self.assertEqual(self.data.dx, None) |
---|
418 | self.assertEqual(self.data.dxl[1], 0.005) |
---|
419 | self.assertEqual(self.data.dxw[1], 0.001) |
---|
420 | self.assertEqual(self.data.dy[1], 4) |
---|
421 | self.assertEqual(self.data.run_name['1234'], 'run name') |
---|
422 | self.assertEqual(self.data.title, "Test title") |
---|
423 | |
---|
424 | |
---|
425 | if __name__ == '__main__': |
---|
426 | unittest.main() |
---|