Mercurial > hg > orthanc-tests

annotate Plugins/DicomWeb/Run.py @ 184:e244312964d6

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author Sebastien Jodogne <s.jodogne@gmail.com>
date Tue, 13 Nov 2018 11:54:49 +0100
parents 90e5331ddee9
children af8e034f4262
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1 #!/usr/bin/python
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2
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3 # Orthanc - A Lightweight, RESTful DICOM Store
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4 # Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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5 # Department, University Hospital of Liege, Belgium
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6 # Copyright (C) 2017-2018 Osimis S.A., Belgium
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7 #
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8 # This program is free software: you can redistribute it and/or
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9 # modify it under the terms of the GNU General Public License as
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10 # published by the Free Software Foundation, either version 3 of the
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11 # License, or (at your option) any later version.
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12 #
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13 # This program is distributed in the hope that it will be useful, but
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14 # WITHOUT ANY WARRANTY; without even the implied warranty of
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15 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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16 # General Public License for more details.
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17 #
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18 # You should have received a copy of the GNU General Public License
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19 # along with this program. If not, see <http://www.gnu.org/licenses/>.
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23 # You must add the following to the configuration file:
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24 #
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25 # "DicomWeb" : {
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26 # "Servers" : {
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27 # "sample" : [ "http://localhost:8042/dicom-web/", "alice", "orthanctest" ]
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28 # }
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29 # }
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34 import os
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35 import pprint
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36 import sys
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37 import argparse
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38 import unittest
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39 import re
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40 from DicomWeb import *
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42 sys.path.append(os.path.join(os.path.dirname(__file__), '..', '..', 'Tests'))
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43 from Toolbox import *
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46 ##
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47 ## Parse the command-line arguments
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48 ##
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49
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50 parser = argparse.ArgumentParser(description = 'Run the integration tests for the DICOMweb plugin.')
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51
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52 parser.add_argument('--server',
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53 default = 'localhost',
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54 help = 'Address of the Orthanc server to test')
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55 parser.add_argument('--rest',
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56 type = int,
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57 default = 8042,
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58 help = 'Port to the REST API')
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59 parser.add_argument('--username',
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60 default = 'alice',
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61 help = 'Username to the REST API')
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62 parser.add_argument('--password',
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63 default = 'orthanctest',
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64 help = 'Password to the REST API')
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65 parser.add_argument('--wado',
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66 default = '/wado',
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67 help = 'Path to the WADO API')
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68 parser.add_argument('--dicomweb',
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69 default = '/dicom-web/',
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70 help = 'Path to the DICOMweb API')
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71 parser.add_argument('--force', help = 'Do not warn the user',
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72 action = 'store_true')
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73 parser.add_argument('options', metavar = 'N', nargs = '*',
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74 help='Arguments to Python unittest')
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75
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76 args = parser.parse_args()
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78
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79 ##
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80 ## Configure the testing context
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81 ##
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82
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83 if not args.force:
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84 print("""
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85 WARNING: This test will remove all the content of your
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86 Orthanc instance running on %s!
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87
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88 Are you sure ["yes" to go on]?""" % args.server)
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89
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90 if sys.stdin.readline().strip() != 'yes':
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91 print('Aborting...')
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92 exit(0)
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93
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94
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95 ORTHANC = DefineOrthanc(server = args.server,
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96 username = args.username,
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97 password = args.password,
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98 restPort = args.rest)
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99
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100
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101 ##
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102 ## The tests
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103 ##
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104
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105 class Orthanc(unittest.TestCase):
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106 def setUp(self):
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107 if (sys.version_info >= (3, 0)):
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108 # Remove annoying warnings about unclosed socket in Python 3
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109 import warnings
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110 warnings.simplefilter("ignore", ResourceWarning)
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111
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112 DropOrthanc(ORTHANC)
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113
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114 def test_wado_dicom(self):
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115 UploadInstance(ORTHANC, 'Brainix/Flair/IM-0001-0001.dcm')
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116
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117 SIZE = 169478
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118 INSTANCE = '1.3.46.670589.11.0.0.11.4.2.0.8743.5.5396.2006120114314079549'
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119 SERIES = '1.3.46.670589.11.0.0.11.4.2.0.8743.5.5396.2006120114285654497'
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120 STUDY = '2.16.840.1.113669.632.20.1211.10000357775'
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121
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122 self.assertRaises(Exception, lambda: DoGet(ORTHANC, args.wado))
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123 self.assertRaises(Exception, lambda: DoGet(ORTHANC, args.wado + '?requestType=WADO'))
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124 self.assertRaises(Exception, lambda: DoGet(ORTHANC, args.wado + '?objectUID=%s' % INSTANCE))
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125
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126 dicom = DoGet(ORTHANC, args.wado + '?contentType=application/dicom&requestType=WADO&objectUID=%s' % INSTANCE)
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127 self.assertEqual(SIZE, len(dicom))
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128
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129 dicom = DoGet(ORTHANC, args.wado + '?contentType=application/dicom&requestType=WADO&objectUID=%s&seriesUID=%s' % (INSTANCE, SERIES))
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130 self.assertEqual(SIZE, len(dicom))
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131
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132 dicom = DoGet(ORTHANC, args.wado + '?contentType=application/dicom&requestType=WADO&objectUID=%s&seriesUID=%s&studyUID=%s' % (INSTANCE, SERIES, STUDY))
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133 self.assertEqual(SIZE, len(dicom))
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134
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135 dicom = DoGet(ORTHANC, args.wado + '?contentType=application/dicom&requestType=WADO&objectUID=%s&seriesUID=%s' % (INSTANCE, SERIES))
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136 self.assertEqual(SIZE, len(dicom))
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137
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138 dicom = DoGet(ORTHANC, args.wado + '?contentType=application/dicom&requestType=WADO&objectUID=%s&studyUID=%s' % (INSTANCE, STUDY))
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139 self.assertEqual(SIZE, len(dicom))
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140
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141 self.assertRaises(Exception, lambda: DoGet(ORTHANC, args.wado + '?requestType=WADO&objectUID=%s&seriesUID=nope' % INSTANCE))
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142 self.assertRaises(Exception, lambda: DoGet(ORTHANC, args.wado + '?requestType=WADO&objectUID=%s&studyUID=nope' % INSTANCE))
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143 self.assertRaises(Exception, lambda: DoGet(ORTHANC, args.wado + '?requestType=WADO&objectUID=%s&seriesUID=nope&studyUID=nope' % INSTANCE))
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144
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145 def test_wado_image(self):
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146 UploadInstance(ORTHANC, 'Phenix/IM-0001-0001.dcm')
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147 INSTANCE = '1.2.840.113704.7.1.1.6632.1127829031.2'
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148
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149 im = GetImage(ORTHANC, args.wado + '?requestType=WADO&objectUID=%s' % INSTANCE)
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150 self.assertEqual('JPEG', im.format)
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151 self.assertEqual('L', im.mode)
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152 self.assertEqual(512, im.size[0])
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153 self.assertEqual(358, im.size[1])
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154
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155 im = GetImage(ORTHANC, args.wado + '?contentType=image/jpg&requestType=WADO&objectUID=%s' % INSTANCE)
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156 self.assertEqual('JPEG', im.format)
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157
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158 im = GetImage(ORTHANC, args.wado + '?contentType=image/png&requestType=WADO&objectUID=%s' % INSTANCE)
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159 self.assertEqual('PNG', im.format)
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160 self.assertEqual('L', im.mode)
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161 self.assertEqual(512, im.size[0])
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162 self.assertEqual(358, im.size[1])
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163
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164 def test_stow(self):
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165 self.assertEqual(0, len(DoGet(ORTHANC, '/instances')))
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166 SendStow(ORTHANC, args.dicomweb + '/studies', GetDatabasePath('Phenix/IM-0001-0001.dcm'))
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167 self.assertEqual(1, len(DoGet(ORTHANC, '/instances')))
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168 a = SendStow(ORTHANC, args.dicomweb + '/studies', GetDatabasePath('Phenix/IM-0001-0001.dcm'))
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169 self.assertEqual(1, len(DoGet(ORTHANC, '/instances')))
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170
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171 self.assertEqual(0, len(a['00081198']['Value'])) # No error
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172 self.assertEqual(1, len(a['00081199']['Value'])) # 1 success
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173
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174 self.assertTrue(a['00081190']['Value'][0].endswith('studies/2.16.840.1.113669.632.20.1211.10000098591'))
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175 self.assertTrue(a['00081199']['Value'][0]['00081190']['Value'][0].
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176 endswith('series/1.2.840.113704.1.111.5692.1127828999.2/instances/1.2.840.113704.7.1.1.6632.1127829031.2'))
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177
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178 # Remove the "http://localhost:8042" prefix
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179 url = a['00081190']['Value'][0]
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180 url = re.sub(r'(http|https)://[^/]+(/.*)', r'\2', url)
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181
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182 # Get the content-length of all the multiparts of this WADO-RS request
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183 b = DoGet(ORTHANC, url).decode('utf-8', 'ignore')
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184 parts = re.findall(r'^Content-Length:\s*(\d+)\s*', b, re.IGNORECASE | re.MULTILINE)
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185 self.assertEqual(1, len(parts))
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186 self.assertEqual(os.path.getsize(GetDatabasePath('Phenix/IM-0001-0001.dcm')), int(parts[0]))
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187
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188 def test_server_get(self):
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189 UploadInstance(ORTHANC, 'Knee/T1/IM-0001-0001.dcm')
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190
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191 self.assertEqual(1, len(DoGet(ORTHANC, '/dicom-web/servers')))
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192 self.assertTrue('sample' in DoGet(ORTHANC, '/dicom-web/servers'))
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193
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194 serversReadback = DoGet(ORTHANC, '/dicom-web/servers?expand')
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195 self.assertEqual('http://localhost:8042/dicom-web/', serversReadback['sample']['Url'])
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196 self.assertEqual('alice', serversReadback['sample']['Username'])
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197
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198 sample = DoGet(ORTHANC, '/dicom-web/servers/sample')
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199 self.assertEqual(3, len(sample))
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200 self.assertTrue('stow' in sample)
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201 self.assertTrue('retrieve' in sample)
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202 self.assertTrue('get' in sample)
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203
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204 # application/dicom+xml
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205 self.assertEqual(2, len(re.findall('^--', DoGet(ORTHANC, '/dicom-web/studies',
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206 headers = { 'Accept' : 'application/dicom+xml' }),
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207 re.MULTILINE)))
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208 self.assertEqual(2, len(re.findall('^--', DoPost
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209 (ORTHANC, '/dicom-web/servers/sample/get',
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210 { 'Uri' : '/studies',
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211 'HttpHeaders' : { 'Accept' : 'application/dicom+xml' }
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212 }), re.MULTILINE)))
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213
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214 # application/dicom+json
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215 self.assertEqual(1, len(DoGet(ORTHANC, '/dicom-web/studies',
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216 headers = { 'Accept' : 'application/dicom+json' })))
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217 self.assertEqual(1, len(DoPost(ORTHANC, '/dicom-web/servers/sample/get',
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218 { 'Uri' : '/studies',
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219 'HttpHeaders' : { 'Accept' : 'application/dicom+json' }})))
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220
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221 # application/json
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222 self.assertEqual(1, len(DoGet(ORTHANC, '/dicom-web/studies',
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223 headers = { 'Accept' : 'application/json' })))
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224 self.assertEqual(1, len(DoPost(ORTHANC, '/dicom-web/servers/sample/get',
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225 { 'Uri' : '/studies',
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226 'HttpHeaders' : { 'Accept' : 'application/json' }})))
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227
131
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228 # application/dicom+json is the default as of OrthancDicomWeb-0.5
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229 self.assertEqual(1, len(DoGet(ORTHANC, '/dicom-web/studies')))
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230 self.assertEqual(1, len(DoPost(ORTHANC, '/dicom-web/servers/sample/get',
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231 { 'Uri' : '/studies' })))
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232
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233
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234 def test_server_stow(self):
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235 UploadInstance(ORTHANC, 'Knee/T1/IM-0001-0001.dcm')
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236
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237 self.assertRaises(Exception, lambda:
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238 DoPost(ORTHANC, '/dicom-web/servers/sample/stow',
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239 { 'Resources' : [ 'nope' ]})) # inexisting resource
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240
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241 self.assertEqual(0, len(DoPost(ORTHANC, '/dicom-web/servers/sample/stow',
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242 { 'Resources' : [ 'ca29faea-b6a0e17f-067743a1-8b778011-a48b2a17' ]}))) # patient
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243
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244 self.assertEqual(0, len(DoPost(ORTHANC, '/dicom-web/servers/sample/stow',
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245 { 'Resources' : [ '0a9b3153-2512774b-2d9580de-1fc3dcf6-3bd83918' ]}))) # study
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246
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247 self.assertEqual(0, len(DoPost(ORTHANC, '/dicom-web/servers/sample/stow',
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248 { 'Resources' : [ '6de73705-c4e65c1b-9d9ea1b5-cabcd8e7-f15e4285' ]}))) # series
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249
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250 self.assertEqual(0, len(DoPost(ORTHANC, '/dicom-web/servers/sample/stow',
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251 { 'Resources' : [ 'c8df6478-d7794217-0f11c293-a41237c9-31d98357' ]}))) # instance
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252
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253 self.assertEqual(0, len(DoPost(ORTHANC, '/dicom-web/servers/sample/stow',
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254 { 'Resources' : [
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255 'ca29faea-b6a0e17f-067743a1-8b778011-a48b2a17',
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256 '0a9b3153-2512774b-2d9580de-1fc3dcf6-3bd83918',
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257 '6de73705-c4e65c1b-9d9ea1b5-cabcd8e7-f15e4285',
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258 'c8df6478-d7794217-0f11c293-a41237c9-31d98357' ]}))) # altogether
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259
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260
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261 def test_server_retrieve(self):
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262 UploadInstance(ORTHANC, 'Knee/T1/IM-0001-0001.dcm')
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263 UploadInstance(ORTHANC, 'Knee/T1/IM-0001-0002.dcm')
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264 UploadInstance(ORTHANC, 'Knee/T2/IM-0001-0001.dcm')
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265
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266 self.assertRaises(Exception, lambda:
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267 DoPost(ORTHANC, '/dicom-web/servers/sample/retrieve',
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268 { 'Resources' : [ { 'Study' : 'nope' } ]})) # inexisting resource
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269
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270 t = DoPost(ORTHANC, '/dicom-web/servers/sample/retrieve',
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271 { 'Resources' : [ { 'Study' : '2.16.840.1.113669.632.20.121711.10000160881' } ] })
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272 self.assertEqual(3, len(t['Instances']))
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273
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274 # Missing "Study" field
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275 self.assertRaises(Exception, lambda:
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276 DoPost(ORTHANC, '/dicom-web/servers/sample/retrieve',
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277 { 'Resources' : [ { 'Series' : '1.3.46.670589.11.17521.5.0.3124.2008081908564160709' } ]}))
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278
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279 t = DoPost(ORTHANC, '/dicom-web/servers/sample/retrieve',
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280 { 'Resources' : [ { 'Study' : '2.16.840.1.113669.632.20.121711.10000160881',
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281 'Series' : '1.3.46.670589.11.17521.5.0.3124.2008081908564160709' } ] })
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282 self.assertEqual(2, len(t['Instances']))
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283
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284 t = DoPost(ORTHANC, '/dicom-web/servers/sample/retrieve',
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285 { 'Resources' : [ { 'Study' : '2.16.840.1.113669.632.20.121711.10000160881',
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286 'Series' : '1.3.46.670589.11.17521.5.0.3124.2008081909090037350' } ] })
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287 self.assertEqual(1, len(t['Instances']))
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288
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289 t = DoPost(ORTHANC, '/dicom-web/servers/sample/retrieve',
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290 { 'Resources' : [ { 'Study' : '2.16.840.1.113669.632.20.121711.10000160881',
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291 'Series' : '1.3.46.670589.11.17521.5.0.3124.2008081909090037350' },
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292 { 'Study' : '2.16.840.1.113669.632.20.121711.10000160881',
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293 'Series' : '1.3.46.670589.11.17521.5.0.3124.2008081908564160709' } ] })
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294 self.assertEqual(3, len(t['Instances']))
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295
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296 t = DoPost(ORTHANC, '/dicom-web/servers/sample/retrieve',
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297 { 'Resources' : [ { 'Study' : '2.16.840.1.113669.632.20.121711.10000160881',
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298 'Series' : '1.3.46.670589.11.17521.5.0.3124.2008081909090037350',
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299 'Instance' : '1.3.46.670589.11.17521.5.0.3124.2008081909113806560' } ] })
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300 self.assertEqual(1, len(t['Instances']))
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301
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302
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303 def test_bitbucket_issue_53(self):
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304 # DICOMWeb plugin support for "limit" and "offset" parameters in QIDO-RS
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305 # https://bitbucket.org/sjodogne/orthanc/issues/53
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306
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307 UploadInstance(ORTHANC, 'Brainix/Flair/IM-0001-0001.dcm')
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308 UploadInstance(ORTHANC, 'Knee/T1/IM-0001-0001.dcm')
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309
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310 brainix = '2.16.840.1.113669.632.20.1211.10000357775'
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311 knee = '2.16.840.1.113669.632.20.121711.10000160881'
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312
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313 a = DoGet(ORTHANC, '/dicom-web/studies',
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314 headers = { 'accept' : 'application/json' })
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315 self.assertEqual(2, len(a))
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316
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317 b = []
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318 a = DoGet(ORTHANC, '/dicom-web/studies?limit=1',
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319 headers = { 'accept' : 'application/json' })
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320 self.assertEqual(1, len(a))
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321 b.append(a[0]['0020000D']['Value'][0])
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322
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323 a = DoGet(ORTHANC, '/dicom-web/studies?limit=1&offset=1',
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324 headers = { 'accept' : 'application/json' })
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325 self.assertEqual(1, len(a))
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326 b.append(a[0]['0020000D']['Value'][0])
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327
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328 self.assertTrue(brainix in b)
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329 self.assertTrue(knee in b)
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330
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331
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332 def test_bitbucket_issue_111(self):
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333 # According to the standard, section F.2.5
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334 # (http://dicom.nema.org/medical/dicom/current/output/chtml/part18/sect_F.2.5.html),
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335 # null values behave as follows: If an attribute is present in
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336 # DICOM but empty (i.e., Value Length is 0), it shall be
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337 # preserved in the DICOM JSON attribute object containing no
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338 # "Value", "BulkDataURI" or "InlineBinary".
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339 # https://bitbucket.org/sjodogne/orthanc/issues/111/qido-rs-wrong-serialization-of-empty
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340
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341 UploadInstance(ORTHANC, 'ColorTestMalaterre.dcm')
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342
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343 a = DoGet(ORTHANC, '/dicom-web/studies',
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344 headers = { 'accept' : 'application/json' })
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345
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346 pprint.pprint(a)
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347
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348 self.assertEqual(1, len(a))
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349 self.assertTrue('00080050' in a[0]) # AccessionNumber is null
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350 self.assertEqual(1, len(a[0]['00080050'])) # 'vr' is the only field to be present
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351 self.assertEqual('SH', a[0]['00080050']['vr'])
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352
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353 try:
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354 print('\nStarting the tests...')
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355 unittest.main(argv = [ sys.argv[0] ] + args.options)
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356
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357 finally:
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358 print('\nDone')