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annotate Sphinx/source/plugins/worklists-plugin.rst @ 260:f9e7036d81d0

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updating DICOMweb documentation
author Sebastien Jodogne <s.jodogne@gmail.com>
date Thu, 27 Jun 2019 09:46:04 +0200
parents b879a6274065
children 011b01ccf52d
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1 .. _worklists-plugin:
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4 Sample Modality Worklists plugin
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5 ================================
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7 This page describes the **official sample plugin** turning Orthanc
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8 into a server of DICOM worklists. General information about how
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9 Orthanc supports DICOM worklists through plugins is explained in the
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10 :ref:`FAQ <worklist>`.
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12 The sample plugin will serve the worklists stored in some folder on
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13 the filesystem. This mimics the behavior of the ``wlmscpfs``
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14 command-line tool from the `DCMTK software
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15 <http://support.dcmtk.org/docs/wlmscpfs.html>`__.
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16
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17 The worklists to be served must be put inside the folder of interest
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18 by an external application or script (note: files must have a ``.wl`` extension). ``dump2dcm`` might be a very
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19 `useful companion tool
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20 <http://support.dcmtk.org/docs/dump2dcm.html>`__ to generate such
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21 worklist files. Whenever a C-Find SCP request is issued to Orthanc,
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22 the plugin will read the content of the folder of interest to locate
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23 the worklists that match the request. As a consequence, the external
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24 application can dynamically modify the content of this folder while
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25 Orthanc is running to add/remove worklists.
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27 The source code of this sample plugin is `available in the source
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28 distribution of Orthanc
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29 <https://bitbucket.org/sjodogne/orthanc/src/default/Plugins/Samples/ModalityWorklists/>`__
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30 (GPLv3+ license).
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33 Basic configuration
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34 -------------------
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36 .. highlight:: json
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37
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38 1. First, generate the :ref:`default configuration of Orthanc <configuration>`.
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39 2. Then, modify the ``Plugins`` option to point to the folder containing
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40 the shared library of the plugin.
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41 3. Finally, create a section "ModalityWorklists" in the configuration
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42 file to configure the worklist server.
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43
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44 A basic configuration would read as follows::
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45
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46 {
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47 [...]
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48 "Plugins" : [
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49 "."
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50 ],
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51 "Worklists" : {
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52 "Enable": true,
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53 "Database": "./WorklistsDatabase",
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54 "FilterIssuerAet": false // Some modalities do not specify 'ScheduledStationAETitle (0040,0001)'
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55 // in the C-Find and may receive worklists not related to them. This option
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56 // adds an extra filtering based on the AET of the modality issuing the C-Find.
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57 }
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58 }
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60 The folder ``WorklistsDatabase`` of the `source distribution of
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61 Orthanc
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62 <https://bitbucket.org/sjodogne/orthanc/src/default/Plugins/Samples/ModalityWorklists/>`__
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63 contains a database of sample worklists, that comes from the DCMTK
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64 source distribution, as described in the `FAQ entry #37 of the DCMTK
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65 project <http://forum.dcmtk.org/viewtopic.php?t=84>`__.
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67
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68 Tutorial
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69 --------
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71 .. highlight:: javascript
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72
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73 - Download `DCMTK utilities
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74 <http://dicom.offis.de/download/dcmtk/release/bin/>`__.
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75 - Download sample `worklist files
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76 <https://bitbucket.org/sjodogne/orthanc/src/default/Plugins/Samples/ModalityWorklists/>`__
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77 from the Orthanc source code and copy them in a dedicated folder.
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78 - Generate the :ref:`default configuration of Orthanc <configuration>`.
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79 - Enable the ModalityWorklist plugin in your configuration file by adding this section::
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81 "Worklists" : {
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82 "Enable": true,
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83 "Database": "WorklistsDatabase" // Path to the folder with the worklist files
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84 },
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86 - Add the plugin to the list of plugins to load (this is an example
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87 for Microsoft Windows)::
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89 "Plugins" : [
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90 "OsimisWebViewer.dll",
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91 "ModalityWorklists.dll" // On GNU/Linux, use libModalityWorklists.so
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92 ],
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94 - The tests below will be done using the ``findscu`` command-line tool
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95 from the `DCMTK utilities
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96 <http://support.dcmtk.org/docs/findscu.html>`__. Assuming
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97 ``findscu`` and Orthanc runs on the same computer (i.e. on the
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98 ``127.0.0.1`` localhost), declare the ``FINDSCU`` AET to the list of
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99 know modalities::
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101 "DicomModalities" : {
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102 "horos" : [ "HOROS", "192.168.0.8", 11112 ],
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103 "findscu" : [ "FINDSCU", "127.0.0.1", 1234 ]
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104 },
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106 .. highlight:: bash
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107
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108 - Launch Orthanc as usual, making sure to give the proper
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109 configuration file (e.g. for Microsoft Windows)::
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111 Orthanc.exe config.json
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113 - In another command-line prompt, launch a ``findscu`` request to ask
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114 Orthanc to return all worklists for ``CT`` modalities::
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116 findscu -W -k "ScheduledProcedureStepSequence[0].Modality=CT" 127.0.0.1 4242
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117
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118 The ``-W`` option makes ``findscu`` issue a DICOM worklist query,
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119 the ``-k`` option specifies the query of interest, ``127.0.0.1``
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120 corresponds to the localhost, and ``4242`` corresponds to the
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121 default DICOM TCP port of Orthanc.
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123 - ``findscu`` will display the matching worklists.
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124
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125
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126 How to create a worklist file
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127 -----------------------------
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128
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129 .. highlight:: bash
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130
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131 - Start with an existing worklist file, some samples of which can be
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132 found in the `Orthanc source distribution
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133 <https://bitbucket.org/sjodogne/orthanc/src/default/Plugins/Samples/ModalityWorklists/WorklistsDatabase/>`__
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134 (with ``.wl`` file extensions).
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135 - The worklist file is a DICOM file. Dump its content as a text file
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136 using ``dcmdump``::
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137
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138 dcmdump.exe wklist1.wl > sampleWorklist.txt
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139
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140 - The content of the just-generated ``sampleWorklist.txt`` file should
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141 look similar to this text file::
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142
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143 # Dicom-File-Format
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144
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145 # Dicom-Meta-Information-Header
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146 # Used TransferSyntax: Little Endian Explicit
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147 (0002,0000) UL 202 # 4, 1 FileMetaInformationGroupLength
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148 (0002,0001) OB 00\01 # 2, 1 FileMetaInformationVersion
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149 (0002,0002) UI [1.2.276.0.7230010.3.1.0.1] # 26, 1 MediaStorageSOPClassUID
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150 (0002,0003) UI [1.2.276.0.7230010.3.1.4.2831176407.11154.1448031138.805061] # 58, 1 MediaStorageSOPInstanceUID
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151 (0002,0010) UI =LittleEndianExplicit # 20, 1 TransferSyntaxUID
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152 (0002,0012) UI [1.2.276.0.7230010.3.0.3.6.0] # 28, 1 ImplementationClassUID
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153 (0002,0013) SH [OFFIS_DCMTK_360] # 16, 1 ImplementationVersionName
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154
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155 # Dicom-Data-Set
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156 # Used TransferSyntax: Little Endian Explicit
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157 (0008,0005) CS [ISO_IR 100] # 10, 1 SpecificCharacterSet
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158 (0008,0050) SH [00000] # 6, 1 AccessionNumber
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159 (0010,0010) PN [VIVALDI^ANTONIO] # 16, 1 PatientName
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160 (0010,0020) LO [AV35674] # 8, 1 PatientID
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161 (0010,0030) DA [16780304] # 8, 1 PatientBirthDate
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162 (0010,0040) CS [M] # 2, 1 PatientSex
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163 (0010,2000) LO [METASTASIS] # 10, 1 MedicalAlerts
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164 (0010,2110) LO [TANTAL] # 6, 1 Allergies
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165 (0020,000d) UI [1.2.276.0.7230010.3.2.101] # 26, 1 StudyInstanceUID
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166 (0032,1032) PN [SMITH] # 6, 1 RequestingPhysician
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167 (0032,1060) LO [EXAM6] # 6, 1 RequestedProcedureDescription
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168 (0040,1001) SH [RP454G234] # 10, 1 RequestedProcedureID
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169 (0040,1003) SH [LOW] # 4, 1 RequestedProcedurePriority
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170
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171 - Open ``sampleWorklist.txt`` file in a standard text editor so as to
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172 modify, add or remove some DICOM tags depending on your needs.
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173 - Generate a new DICOM worklist file from your modified file using
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174 ``dump2dcm``::
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175
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176 dump2dcm.exe sampleWorklist.txt newWorklist.wl
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177
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178 - As a last step, copy that file in the folder where Orthanc searches
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179 for its worklist files. Of course, this worklist generation workflow
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180 can be automated using any scripting language.
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181
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182 Troubleshooting C-Find queries
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183 ------------------------------
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184
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185 When trying to retrieve worklists from a modality, one usually don't get debugging capabilities from the modality itself.
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186 Therefore, it is usually convenient to mimic the modality with ``findscu`` (provided by `DCMTK software
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187 <http://support.dcmtk.org/docs/wlmscpfs.html>`__).
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188
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189 - First, you should make sure that you have configured the Worklist plugin correctly and that you have pushed
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190 at least a ``.wl`` file in the worklist database. For this, you should issue this kind of command::
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191
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192 findscu -W 127.0.0.1 4242 -k 0008,0050="*"
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193
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194 This is the most generic C-Find request and should return all AccessionNumber of all the worklists in your database.
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195
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196 Note: you should make sure you have added a ``findscu`` DICOM modality in your configuration file.
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197
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198 ``findscu`` should output something like this::
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199
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200 W: ---------------------------
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201 W: Find Response: 1 (Pending)
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202 W:
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203 W: # Dicom-Data-Set
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204 W: # Used TransferSyntax: Little Endian Explicit
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205 W: (0008,0005) CS [ISO_IR 100] # 10, 1 SpecificCharacterSet
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206 W: (0008,0050) SH [**********] # 10, 1 AccessionNumber
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207 W:
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208
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209 If you don't get any output, you may add ``-v -d`` options to the ``findscu`` command line to get additional details.
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210
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211 - Everytime it receives a C-Find request, Orthanc displays the query parameters in its :ref:`logs <log>`.
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212 With the previous C-Find command, you should expect this kind of output::
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213
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214 I0422 17:16:03.512449 CommandDispatcher.cpp:490] Association Received from AET FINDSCU on IP 127.0.0.1
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215 I0422 17:16:03.514433 CommandDispatcher.cpp:688] Association Acknowledged (Max Send PDV: 16372)
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216 I0422 17:16:03.532062 main.cpp:118] No limit on the number of C-FIND results at the Patient, Study and Series levels
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217 I0422 17:16:03.535986 main.cpp:128] No limit on the number of C-FIND results at the Instance level
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218 I0422 17:16:03.536968 PluginsManager.cpp:171] Received worklist query from remote modality FINDSCU:
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219 {
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220 "0008,0050" : "*"
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221 }
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222 I0422 17:16:03.559539 CommandDispatcher.cpp:891] DUL Peer Requested Release
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223 I0422 17:16:03.560520 CommandDispatcher.cpp:898] Association Release
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224
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225 - Now you may try to issue a C-Find request from your modality and check Orthanc logs. You should then have a better understanding of the query
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226 content and eventually understand why it does not match your worklists. You should also be able re-issue ``findscu`` requests with additional arguments to mimic the requests issued by your modality.
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227
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228 Common problems
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229 ---------------
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230
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231 - C-FIND requests can be modified by implementing the
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232 ``IncomingWorklistRequestFilter`` :ref:`Lua callback
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233 <lua-fix-cfind>` since Orthanc 1.4.2. This can be useful to
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234 fix/sanitize worklist queries.
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235
119
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236 - According to the `specification
121
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237 <http://dicom.nema.org/MEDICAL/Dicom/2015c/output/chtml/part02/sect_B.4.2.2.3.html>`__,
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238 modalities should not include their AET name in
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239 ``ScheduledStationAETitle`` on user initiated queries. Therefore,
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240 they do receive worklists that do not concern them. This may be
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241 handled by the ``FilterIssuerAet`` configuration option. Note that
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242 the default behavior might in some cases be intended.
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243
165
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244 - Orthanc <= 1.4.1 might behave unexpectedly in the presence of
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245 ``Generic group length (0x????, 0x0000)`` tags. Please upgrade.