Mercurial > hg > orthanc-tests
annotate Tests/Toolbox.py @ 318:bac7cc80f240
dicomweb: test_wado_transcoding
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Mon, 22 Jun 2020 16:15:31 +0200 |
parents | b8399213b840 |
children | ec13ace43bde |
rev | line source |
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0 | 1 #!/usr/bin/python |
2 | |
1 | 3 # Orthanc - A Lightweight, RESTful DICOM Store |
73 | 4 # Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics |
1 | 5 # Department, University Hospital of Liege, Belgium |
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6 # Copyright (C) 2017-2020 Osimis S.A., Belgium |
1 | 7 # |
8 # This program is free software: you can redistribute it and/or | |
9 # modify it under the terms of the GNU General Public License as | |
10 # published by the Free Software Foundation, either version 3 of the | |
11 # License, or (at your option) any later version. | |
12 # | |
13 # This program is distributed in the hope that it will be useful, but | |
14 # WITHOUT ANY WARRANTY; without even the implied warranty of | |
15 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
16 # General Public License for more details. | |
17 # | |
18 # You should have received a copy of the GNU General Public License | |
19 # along with this program. If not, see <http://www.gnu.org/licenses/>. | |
0 | 20 |
21 | |
22 import hashlib | |
23 import httplib2 | |
24 import json | |
4 | 25 import os |
1 | 26 import re |
4 | 27 import signal |
1 | 28 import subprocess |
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29 import tempfile |
4 | 30 import threading |
83 | 31 import sys |
0 | 32 import time |
1 | 33 import zipfile |
0 | 34 |
304 | 35 from PIL import Image, ImageChops |
36 import math | |
37 import operator | |
38 | |
83 | 39 |
40 if (sys.version_info >= (3, 0)): | |
41 from urllib.parse import urlencode | |
42 from io import StringIO | |
43 from io import BytesIO | |
44 | |
45 else: | |
46 from urllib import urlencode | |
47 | |
48 # http://stackoverflow.com/a/1313868/881731 | |
49 try: | |
50 from cStringIO import StringIO | |
51 except: | |
52 from StringIO import StringIO | |
3 | 53 |
0 | 54 |
83 | 55 def _DecodeJson(s): |
56 t = s | |
57 | |
58 if (sys.version_info >= (3, 0)): | |
59 try: | |
60 t = s.decode() | |
61 except: | |
62 pass | |
63 | |
64 try: | |
65 return json.loads(t) | |
66 except: | |
67 return t | |
0 | 68 |
69 | |
13 | 70 def DefineOrthanc(server = 'localhost', |
71 restPort = 8042, | |
1 | 72 username = None, |
73 password = None, | |
74 aet = 'ORTHANC', | |
75 dicomPort = 4242): | |
13 | 76 #m = re.match(r'(http|https)://([^:]+):([^@]+)@([^@]+)', url) |
77 #if m != None: | |
78 # url = m.groups()[0] + '://' + m.groups()[3] | |
79 # username = m.groups()[1] | |
80 # password = m.groups()[2] | |
0 | 81 |
13 | 82 #if not url.endswith('/'): |
83 # url += '/' | |
0 | 84 |
1 | 85 return { |
13 | 86 'Server' : server, |
87 'Url' : 'http://%s:%d/' % (server, restPort), | |
1 | 88 'Username' : username, |
89 'Password' : password, | |
90 'DicomAet' : aet, | |
91 'DicomPort' : dicomPort | |
92 } | |
0 | 93 |
94 | |
95 def _SetupCredentials(orthanc, http): | |
1 | 96 if (orthanc['Username'] != None and |
97 orthanc['Password'] != None): | |
98 http.add_credentials(orthanc['Username'], orthanc['Password']) | |
0 | 99 |
28 | 100 def DoGetRaw(orthanc, uri, data = {}, body = None, headers = {}): |
0 | 101 d = '' |
102 if len(data.keys()) > 0: | |
103 d = '?' + urlencode(data) | |
104 | |
105 http = httplib2.Http() | |
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106 http.follow_redirects = False |
0 | 107 _SetupCredentials(orthanc, http) |
108 | |
1 | 109 resp, content = http.request(orthanc['Url'] + uri + d, 'GET', body = body, |
0 | 110 headers = headers) |
28 | 111 return (resp, content) |
112 | |
113 | |
114 def DoGet(orthanc, uri, data = {}, body = None, headers = {}): | |
115 (resp, content) = DoGetRaw(orthanc, uri, data = data, body = body, headers = headers) | |
116 | |
0 | 117 if not (resp.status in [ 200 ]): |
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118 raise Exception(resp.status, resp) |
0 | 119 else: |
83 | 120 return _DecodeJson(content) |
0 | 121 |
122 def _DoPutOrPost(orthanc, uri, method, data, contentType, headers): | |
123 http = httplib2.Http() | |
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124 http.follow_redirects = False |
0 | 125 _SetupCredentials(orthanc, http) |
126 | |
83 | 127 if isinstance(data, (str, bytearray, bytes)): |
0 | 128 body = data |
129 if len(contentType) != 0: | |
130 headers['content-type'] = contentType | |
131 else: | |
132 body = json.dumps(data) | |
133 headers['content-type'] = 'application/json' | |
134 | |
135 headers['expect'] = '' | |
136 | |
1 | 137 resp, content = http.request(orthanc['Url'] + uri, method, |
0 | 138 body = body, |
139 headers = headers) | |
140 if not (resp.status in [ 200, 302 ]): | |
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141 raise Exception(resp.status, resp) |
0 | 142 else: |
83 | 143 return _DecodeJson(content) |
0 | 144 |
145 def DoDelete(orthanc, uri): | |
146 http = httplib2.Http() | |
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147 http.follow_redirects = False |
0 | 148 _SetupCredentials(orthanc, http) |
149 | |
1 | 150 resp, content = http.request(orthanc['Url'] + uri, 'DELETE') |
0 | 151 if not (resp.status in [ 200 ]): |
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152 raise Exception(resp.status, resp) |
0 | 153 else: |
83 | 154 return _DecodeJson(content) |
0 | 155 |
156 def DoPut(orthanc, uri, data = {}, contentType = ''): | |
10 | 157 return _DoPutOrPost(orthanc, uri, 'PUT', data, contentType, {}) |
0 | 158 |
159 def DoPost(orthanc, uri, data = {}, contentType = '', headers = {}): | |
160 return _DoPutOrPost(orthanc, uri, 'POST', data, contentType, headers) | |
161 | |
13 | 162 def GetDatabasePath(filename): |
163 return os.path.join(os.path.dirname(__file__), '..', 'Database', filename) | |
164 | |
0 | 165 def UploadInstance(orthanc, filename): |
83 | 166 with open(GetDatabasePath(filename), 'rb') as f: |
167 d = f.read() | |
168 | |
0 | 169 return DoPost(orthanc, '/instances', d, 'application/dicom') |
170 | |
171 def UploadFolder(orthanc, path): | |
13 | 172 for i in os.listdir(GetDatabasePath(path)): |
1 | 173 try: |
174 UploadInstance(orthanc, os.path.join(path, i)) | |
175 except: | |
176 pass | |
0 | 177 |
178 def DropOrthanc(orthanc): | |
179 # Reset the Lua callbacks | |
180 DoPost(orthanc, '/tools/execute-script', 'function OnStoredInstance(instanceId, tags, metadata) end', 'application/lua') | |
181 | |
182 DoDelete(orthanc, '/exports') | |
183 | |
184 for s in DoGet(orthanc, '/patients'): | |
185 DoDelete(orthanc, '/patients/%s' % s) | |
186 | |
174 | 187 def InstallLuaScriptFromPath(orthanc, path): |
188 with open(GetDatabasePath(path), 'r') as f: | |
189 InstallLuaScript(orthanc, f.read()) | |
190 | |
191 def InstallLuaScript(orthanc, script): | |
192 DoPost(orthanc, '/tools/execute-script', script, 'application/lua') | |
193 | |
194 def UninstallLuaCallbacks(orthanc): | |
195 DoPost(orthanc, '/tools/execute-script', 'function OnStoredInstance() end', 'application/lua') | |
196 InstallLuaScriptFromPath(orthanc, 'Lua/TransferSyntaxEnable.lua') | |
197 | |
198 | |
0 | 199 def ComputeMD5(data): |
200 m = hashlib.md5() | |
201 m.update(data) | |
202 return m.hexdigest() | |
203 | |
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204 def UncompressImage(data): |
83 | 205 if (sys.version_info >= (3, 0)): |
206 return Image.open(BytesIO(data)) | |
207 else: | |
208 return Image.open(StringIO(data)) | |
0 | 209 |
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210 def GetImage(orthanc, uri, headers = {}): |
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211 # http://www.pythonware.com/library/pil/handbook/introduction.htm |
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212 return UncompressImage(DoGet(orthanc, uri, headers = headers)) |
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213 |
0 | 214 def GetArchive(orthanc, uri): |
215 # http://stackoverflow.com/a/1313868/881731 | |
216 s = DoGet(orthanc, uri) | |
83 | 217 |
218 if (sys.version_info >= (3, 0)): | |
219 return zipfile.ZipFile(BytesIO(s), "r") | |
220 else: | |
221 return zipfile.ZipFile(StringIO(s), "r") | |
0 | 222 |
192 | 223 def PostArchive(orthanc, uri, body): |
224 # http://stackoverflow.com/a/1313868/881731 | |
225 s = DoPost(orthanc, uri, body) | |
226 | |
227 if (sys.version_info >= (3, 0)): | |
228 return zipfile.ZipFile(BytesIO(s), "r") | |
229 else: | |
230 return zipfile.ZipFile(StringIO(s), "r") | |
231 | |
1 | 232 def IsDefinedInLua(orthanc, name): |
0 | 233 s = DoPost(orthanc, '/tools/execute-script', 'print(type(%s))' % name, 'application/lua') |
234 return (s.strip() != 'nil') | |
235 | |
1 | 236 def WaitEmpty(orthanc): |
0 | 237 while True: |
1 | 238 if len(DoGet(orthanc, '/instances')) == 0: |
0 | 239 return |
240 time.sleep(0.1) | |
241 | |
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242 def WaitJobDone(orthanc, job): |
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243 while True: |
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244 s = DoGet(orthanc, '/jobs/%s' % job) ['State'] |
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245 |
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246 if s == 'Success': |
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247 return True |
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248 elif s == 'Failure': |
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249 return False |
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250 |
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251 time.sleep(0.1) |
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252 |
138 | 253 def MonitorJob(orthanc, func): # "func" is a lambda |
254 a = set(DoGet(orthanc, '/jobs')) | |
255 func() | |
256 b = set(DoGet(orthanc, '/jobs')) | |
257 | |
258 diff = list(b - a) | |
259 if len(diff) != 1: | |
260 print('No job was created!') | |
261 return False | |
262 else: | |
263 return WaitJobDone(orthanc, diff[0]) | |
264 | |
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265 def MonitorJob2(orthanc, func): # "func" is a lambda |
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266 a = set(DoGet(orthanc, '/jobs')) |
181 | 267 job = func() |
179
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268 b = set(DoGet(orthanc, '/jobs')) |
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269 |
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270 diff = list(b - a) |
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271 if len(diff) != 1: |
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272 print('No job was created!') |
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273 return None |
181 | 274 elif (not 'ID' in job or |
275 diff[0] != job['ID']): | |
276 print('Mismatch in the job ID') | |
277 return None | |
179
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278 elif WaitJobDone(orthanc, diff[0]): |
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279 return diff[0] |
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280 else: |
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281 print('Error while executing the job') |
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282 return None |
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283 |
220 | 284 def WaitAllNewJobsDone(orthanc, func): # "func" is a lambda |
285 a = set(DoGet(orthanc, '/jobs')) | |
286 func() | |
287 | |
288 first = True | |
289 | |
290 while True: | |
291 b = set(DoGet(orthanc, '/jobs')) | |
292 | |
293 diff = list(b - a) | |
294 if len(diff) == 0: | |
295 if first: | |
296 raise Exception('No job was created') | |
297 else: | |
298 return # We're done | |
299 else: | |
300 first = False | |
301 | |
302 if WaitJobDone(orthanc, diff[0]): | |
303 a.add(diff[0]) | |
304 else: | |
305 raise Exception('Error while executing the job') | |
306 | |
307 | |
1 | 308 def GetDockerHostAddress(): |
309 route = subprocess.check_output([ '/sbin/ip', 'route' ]) | |
310 m = re.search(r'default via ([0-9.]+)', route) | |
311 if m == None: | |
312 return 'localhost' | |
313 else: | |
314 return m.groups()[0] | |
4 | 315 |
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316 def FindExecutable(name): |
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317 p = os.path.join('/usr/local/bin', name) |
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318 if os.path.isfile(p): |
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319 return p |
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320 |
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321 p = os.path.join('/usr/local/sbin', name) |
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322 if os.path.isfile(p): |
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323 return p |
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324 |
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325 return name |
4 | 326 |
173 | 327 def IsOrthancVersionAbove(orthanc, major, minor, revision): |
328 v = DoGet(orthanc, '/system')['Version'] | |
329 | |
330 if v == 'mainline': | |
331 return True | |
332 else: | |
333 tmp = v.split('.') | |
334 a = int(tmp[0]) | |
335 b = int(tmp[1]) | |
336 c = int(tmp[2]) | |
337 return (a > major or | |
338 (a == major and b > minor) or | |
339 (a == major and b == minor and c >= revision)) | |
4 | 340 |
341 | |
342 class ExternalCommandThread: | |
343 @staticmethod | |
344 def ExternalCommandFunction(arg, stop_event, command, env): | |
318
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345 with open(os.devnull, 'w') as devnull: |
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346 external = subprocess.Popen(command, env = env, stderr = devnull) |
4 | 347 |
318
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348 while (not stop_event.is_set()): |
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349 error = external.poll() |
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350 if error != None: |
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351 # http://stackoverflow.com/a/1489838/881731 |
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352 os._exit(-1) |
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353 stop_event.wait(0.1) |
4 | 354 |
83 | 355 print('Stopping the external command') |
4 | 356 external.terminate() |
9 | 357 external.communicate() # Wait for the command to stop |
4 | 358 |
359 def __init__(self, command, env = None): | |
360 self.thread_stop = threading.Event() | |
361 self.thread = threading.Thread(target = self.ExternalCommandFunction, | |
362 args = (10, self.thread_stop, command, env)) | |
9 | 363 #self.daemon = True |
4 | 364 self.thread.start() |
365 | |
366 def stop(self): | |
367 self.thread_stop.set() | |
368 self.thread.join() | |
220 | 369 |
370 | |
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371 def AssertAlmostEqualRecursive(self, a, b, places = 7, ignoreKeys = []): |
220 | 372 if type(a) is dict: |
373 self.assertTrue(type(b) is dict) | |
374 self.assertEqual(a.keys(), b.keys()) | |
375 for key, value in a.items(): | |
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376 if not key in ignoreKeys: |
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377 AssertAlmostEqualRecursive(self, a[key], b[key], places) |
220 | 378 |
379 elif type(a) is list: | |
380 self.assertTrue(type(b) is list) | |
381 self.assertEqual(len(a), len(b)) | |
382 for i in range(len(a)): | |
383 AssertAlmostEqualRecursive(self, a[i], b[i], places) | |
384 | |
385 else: | |
386 self.assertAlmostEqual(a, b, places = places) | |
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387 |
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388 |
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389 def GetTransferSyntax(dicom): |
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390 with tempfile.NamedTemporaryFile(delete = True) as f: |
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391 f.write(dicom) |
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392 f.flush() |
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393 |
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394 with open(os.devnull, 'w') as devnull: |
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395 data = subprocess.check_output([ FindExecutable('dcm2xml'), f.name ], |
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396 stderr = devnull) |
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397 |
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398 return re.search('<data-set xfer="(.*?)"', data).group(1) |
304 | 399 |
400 | |
401 def HasGdcmPlugin(orthanc): | |
402 plugins = DoGet(orthanc, '/plugins') | |
403 return ('gdcm' in plugins) | |
404 | |
405 | |
406 def _GetMaxImageDifference(im1, im2): | |
407 h = ImageChops.difference(im1, im2).histogram() | |
408 | |
409 if len(h) < 256: | |
410 raise Exception() | |
411 | |
412 i = len(h) - 1 | |
413 while h[i] == 0: | |
414 i -= 1 | |
415 | |
416 return i | |
417 | |
418 | |
419 def GetMaxImageDifference(im1, im2): | |
420 if im1.mode != im2.mode: | |
421 raise Exception('Incompatible image modes') | |
422 | |
423 if im1.mode == 'RGB': | |
424 red1, green1, blue1 = im1.split() | |
425 red2, green2, blue2 = im2.split() | |
426 return max([ _GetMaxImageDifference(red1, red2), | |
427 _GetMaxImageDifference(green1, green2), | |
428 _GetMaxImageDifference(blue1, blue2) ]) | |
429 else: | |
430 return _GetMaxImageDifference(im1, im2) |