Highdicom

New features

- Implementation of Key Object Selection Document Storage SOP Class (132)
- Allow users to specify Content Label (130)

Enhancements

- Add Total Pixel Matrix Rows/Columns attributes to Segmentation and Parametric Map objects (131)
- Add anatomy attributes to annotations groups
- Add example for creation of Secondary Capture images
- Enforce Series Number and Instance Number to be positive integers (127)

Bug fixes

- Fix JPEG2000 encoding of frames (119)
- Add missing import statements for Structured Report examples and fix typos in documentation (125)
- Fix Pixel Spacing in Secondary Capture image (128)
- Include API documentation for new packages

New features

* Implement Microscopy Bulk Simple Annotations (114)

Enhancements

* Use Explicit VR Little Endian transfer syntax by default for all SOP classes (114)

Bug fixes

* Use correct attribute in dimension index of segmentation (116)
* Allow reference of more than one frame for segmentation source images of planar regions (118)
* Prevent inclusion of empty content sequence into SR content items (121)

New features

- Add methods and properties for parsing referenced segments in SR document content (104)

Improvements

- Include Image Orientation (Slide) and Total Pixel Matrix Origin Sequence attributes in Segmentation (102)

Bug fixes

- Add missing import statement in example code snippet of documentation (113)
- Correct value types of Volume Surface content item(s) in SR document content (112)
- Fix indentation issue in legacy package (111)

Bug fixes

* Correct code name of Specimen Preparation Step (108)
* Correct attribute name of legacy converted images (105)

Documentation

* Add example on how to create secondary capture image (109)

Bug fixes

* Allow inclusion of content items without Relationship Type into content sequences defined by Acquisition and Protocol templates (107)

New features

* Implement Parametric Map IOD (89)
* Enable construction of *highdicom* objects from existing *pydicom* objects (93)
python
dataset = pydicom.filereader.dcmread(...)
segmentation = hd.seg.Segmentation.from_dataset(dataset)

* Add properties and methods to classes derived from `highdicom.sr.ContentItem` and `highdicom.sr.Template` to facilitate data access
python
document = hd.sr.ComprehensiveSR(...)
measurement_groups = document.content.get_planar_roi_measurements()


Improvements

* Add unit tests
* Improve description of parameters in docstrings
* Add docstrings to enums
* Add image library entries for SR documents based on TID 1500 (77)

Bug fixes

* Fix many mypy errors
* Record `evidence` correctly (Current Requested Procedure Evidence Sequence versus Pertinent Other Evidence Sequence)
* Fix `highdicom.sr.RelationshipType`
* Fix default value for Pixel Origin Interpretation
* Allow Concept Name Code Sequence to be absent
* Write error traceback to stderr instead of stdout

Major changes

* Change implementation of `highdicom.sr.QualitativeEvaluation` (is now derived from `highdicom.sr.Template` rather than `highdicom.sr.ContentItem` for consistency with `highdicom.sr.Measurement`)
* Make `value` and `unit` parameters of `highdicom.sr.NumContentItem` required (the corresponding attributes are required by the standard)
* Change fields of `highdicom.PatientSexValues` to single letters (for consistency with other enums)
* Add references to Current Requested Procedure Evidence Sequence rather than Pertinent Other Evidence Sequence if instances are referenced in the SR document content tree