Mercurial > hg > orthanc
changeset 4684:e3810750dc9d
simplified DicomModification::RelationshipsVisitor
author | Sebastien Jodogne <s.jodogne@gmail.com> |
---|---|
date | Tue, 08 Jun 2021 14:42:09 +0200 |
parents | 7182f5732480 |
children | 693f049729ba |
files | OrthancFramework/Sources/DicomParsing/DicomModification.cpp OrthancFramework/Sources/DicomParsing/DicomModification.h |
diffstat | 2 files changed, 96 insertions(+), 65 deletions(-) [+] |
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--- a/OrthancFramework/Sources/DicomParsing/DicomModification.cpp Tue Jun 08 12:37:48 2021 +0200 +++ b/OrthancFramework/Sources/DicomParsing/DicomModification.cpp Tue Jun 08 14:42:09 2021 +0200 @@ -69,23 +69,14 @@ { private: DicomModification& that_; - - bool IsEnabled(const DicomTag& tag) const + + // This method is only applicable to first-level tags + bool IsManuallyModified(const DicomTag& tag) const { - return (!that_.IsCleared(tag) && - !that_.IsRemoved(tag) && - !that_.IsReplaced(tag)); - } - - void RemoveIfEnabled(ParsedDicomFile& dicom, - const DicomTag& tag) const - { - if (IsEnabled(tag)) - { - dicom.Remove(tag); - } - } - + return (that_.IsCleared(tag) || + that_.IsRemoved(tag) || + that_.IsReplaced(tag)); + } public: explicit RelationshipsVisitor(DicomModification& that) : @@ -145,56 +136,85 @@ ValueRepresentation vr, const std::string& value) { - // Note that all the tags in "uids_" have the VR UI (unique - // identifier), and are considered as strings - - if (!IsEnabled(tag)) - { - return Action_None; - } - else if (!parentTags.empty() && // Don't anonymize twice the anonymization done by "MapDicomTags()" - tag == DICOM_TAG_STUDY_INSTANCE_UID) - { - newValue = that_.MapDicomIdentifier(value, ResourceType_Study); - return Action_Replace; - } - else if (!parentTags.empty() && // Don't anonymize twice the anonymization done by "MapDicomTags()" - tag == DICOM_TAG_SERIES_INSTANCE_UID) + /** + * Note that all the tags in "uids_" have the VR UI (unique + * identifier), and are considered as strings. + * + * Also, the tags "SOP Instance UID", "Series Instance UID" and + * "Study Instance UID" are *never* included in "uids_", as they + * are separately handed by "MapDicomTags()". + **/ + + assert(that_.uids_.find(DICOM_TAG_STUDY_INSTANCE_UID) == that_.uids_.end()); + assert(that_.uids_.find(DICOM_TAG_SERIES_INSTANCE_UID) == that_.uids_.end()); + assert(that_.uids_.find(DICOM_TAG_SOP_INSTANCE_UID) == that_.uids_.end()); + + if (parentTags.empty()) { - newValue = that_.MapDicomIdentifier(value, ResourceType_Series); - return Action_Replace; - } - else if (!parentTags.empty() && // Don't anonymize twice the anonymization done by "MapDicomTags()" - tag == DICOM_TAG_SOP_INSTANCE_UID) - { - newValue = that_.MapDicomIdentifier(value, ResourceType_Instance); - return Action_Replace; - } - else if (that_.uids_.find(tag) != that_.uids_.end()) - { - assert(vr == ValueRepresentation_UniqueIdentifier || - vr == ValueRepresentation_NotSupported /* for older versions of DCMTK */); - - if (parentTags.size() == 2 && - parentTags[0] == DICOM_TAG_REFERENCED_FRAME_OF_REFERENCE_SEQUENCE && - parentTags[1] == DICOM_TAG_RT_REFERENCED_STUDY_SEQUENCE && - tag == DICOM_TAG_REFERENCED_SOP_INSTANCE_UID) + // We are on a first-level tag + if (that_.uids_.find(tag) != that_.uids_.end() && + !IsManuallyModified(tag)) { - // in RT-STRUCT, this ReferencedSOPInstanceUID is actually referencing a StudyInstanceUID !! - // (observed in many data sets including: https://wiki.cancerimagingarchive.net/display/Public/Lung+CT+Segmentation+Challenge+2017) - // tested in test_anonymize_relationships_5 - newValue = that_.MapDicomIdentifier(value, ResourceType_Study); + // This is a first-level UID tag that must be anonymized + assert(vr == ValueRepresentation_UniqueIdentifier || + vr == ValueRepresentation_NotSupported /* for older versions of DCMTK */); + newValue = that_.MapDicomIdentifier(value, ResourceType_Instance); + return Action_Replace; } else { - newValue = that_.MapDicomIdentifier(value, ResourceType_Instance); + return Action_None; } - - return Action_Replace; } else { - return Action_None; + // We are within a sequence + if (tag == DICOM_TAG_STUDY_INSTANCE_UID) + { + newValue = that_.MapDicomIdentifier(value, ResourceType_Study); + return Action_Replace; + } + else if (tag == DICOM_TAG_SERIES_INSTANCE_UID) + { + newValue = that_.MapDicomIdentifier(value, ResourceType_Series); + return Action_Replace; + } + else if (tag == DICOM_TAG_SOP_INSTANCE_UID) + { + newValue = that_.MapDicomIdentifier(value, ResourceType_Instance); + return Action_Replace; + } + else if (that_.uids_.find(tag) != that_.uids_.end()) + { + assert(vr == ValueRepresentation_UniqueIdentifier || + vr == ValueRepresentation_NotSupported /* for older versions of DCMTK */); + + if (parentTags.size() == 2 && + parentTags[0] == DICOM_TAG_REFERENCED_FRAME_OF_REFERENCE_SEQUENCE && + parentTags[1] == DICOM_TAG_RT_REFERENCED_STUDY_SEQUENCE && + tag == DICOM_TAG_REFERENCED_SOP_INSTANCE_UID) + { + /** + * In RT-STRUCT, this ReferencedSOPInstanceUID is actually + * referencing a StudyInstanceUID !! (observed in many + * data sets including: + * https://wiki.cancerimagingarchive.net/display/Public/Lung+CT+Segmentation+Challenge+2017) + * Tested in "test_anonymize_relationships_5". Introduced + * in: https://hg.orthanc-server.com/orthanc/rev/3513 + **/ + newValue = that_.MapDicomIdentifier(value, ResourceType_Study); + } + else + { + newValue = that_.MapDicomIdentifier(value, ResourceType_Instance); + } + + return Action_Replace; + } + else + { + return Action_None; + } } } @@ -202,18 +222,27 @@ { for (SetOfTags::const_iterator it = that_.uids_.begin(); it != that_.uids_.end(); ++it) { - if (*it != DICOM_TAG_STUDY_INSTANCE_UID && - *it != DICOM_TAG_SERIES_INSTANCE_UID && - *it != DICOM_TAG_SOP_INSTANCE_UID) + assert(*it != DICOM_TAG_STUDY_INSTANCE_UID && + *it != DICOM_TAG_SERIES_INSTANCE_UID && + *it != DICOM_TAG_SOP_INSTANCE_UID); + + if (!IsManuallyModified(*it)) { - RemoveIfEnabled(dicom, *it); + dicom.Remove(*it); } } // The only two sequences with to the "X/Z/U*" rule in the // basic profile. They were already present in Orthanc 1.9.3. - RemoveIfEnabled(dicom, DICOM_TAG_REFERENCED_IMAGE_SEQUENCE); - RemoveIfEnabled(dicom, DICOM_TAG_SOURCE_IMAGE_SEQUENCE); + if (!IsManuallyModified(DICOM_TAG_REFERENCED_IMAGE_SEQUENCE)) + { + dicom.Remove(DICOM_TAG_REFERENCED_IMAGE_SEQUENCE); + } + + if (!IsManuallyModified(DICOM_TAG_SOURCE_IMAGE_SEQUENCE)) + { + dicom.Remove(DICOM_TAG_SOURCE_IMAGE_SEQUENCE); + } } };
--- a/OrthancFramework/Sources/DicomParsing/DicomModification.h Tue Jun 08 12:37:48 2021 +0200 +++ b/OrthancFramework/Sources/DicomParsing/DicomModification.h Tue Jun 08 14:42:09 2021 +0200 @@ -106,8 +106,6 @@ SetOfTags removals_; SetOfTags clearings_; Replacements replacements_; - SetOfTags uids_; // New in Orthanc 1.9.4 - RemovedRanges removedRanges_; // New in Orthanc 1.9.4 bool removePrivateTags_; ResourceType level_; UidMap uidMap_; @@ -123,6 +121,10 @@ IDicomIdentifierGenerator* identifierGenerator_; + // New in Orthanc 1.9.4 + SetOfTags uids_; + RemovedRanges removedRanges_; + std::string MapDicomIdentifier(const std::string& original, ResourceType level);