Enhanced support multi head spect projection data #1579
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
- Trying to enhance support for the multi-head SPECT systems. - Modifications to the open_read_file function: - set the number of projections as the number of detector heads times the number of frames per detector. - Retrieve the axial positions array from every item (i.e detector head) in the Detector Information Sequence. -- A new function GetDetectorInfo() was created in the fashion of existing methods, e.g. GetRadionuclideInfo(), to handle this.
… the SPECT_dicom_to_interfile utilitly was failing to set the full extent of rotation in the presence of multiple detector heads. The Scan Arc DICOM Tag (0018,1143), represents the "The effective angular range of the scan data" and is limited to the range of motion of only a single head. Since STIR determine the azimuthal position of the each projection view using the extent of rotation and the number of views, the total angular range among all detector heads is required. This commit introduces a change to the SPECT_dicom_to_interfile utilitly such that the extent of rotation written to the output interfile is determined as the product of the number of detectors and the scan arc. (cherry picked from commit 69178f599610bbb14db5471f636ecf204aa61c54) (cherry picked from commit 63064ff)
… DICOM data. - It now detects whether the data are compressed, and if so it rewrites the file using a non-compressed transfer syntax UID and re-reads the file. - The get_proj_data function is now recursive as it calls itself to re-read the non-compressed DICOM projection data.
…nt smart pointers for calls to gdcm::DataElement::GertValueAsSQ()
… on to the latest STIR master.
- remove duplicate code in SPECTDICOMData::open_dicom_file()
-- Gave precedence to my changes related to setting the num_of_projections variable which accounts for multiple detector heads
-- Gave precedence to my changes related to setting the rotation_radius variable, which accounts for multiple detector heads
- remove unecessary { } blocks in SPECTDICOMData::open_dicom_file()
- moved the DICOM reads associated with isotope name, actual frame duration (string), and energy windows outside of the if (!is_planar) block. Consistent with STIR master.
- modified SPECTDICOMData::open_proj_data() such that it no longer needs to write the uncompressed pixel data to a file. The change of DICOM transfer syntax is managed in memory. As a result this function no longer calls itself recursively when decompression is required. - removed the optional input argument from the SPECTDICOMData::open_proj_data() method, no longer needed due to previous change. - refactorerd the code block in SPECTDICOMData::open_proj_data() that was responsible for populate the float vector - pixel_data_as_float, into a separate function as it is now invoked in separate if-blocks depending on whether decompression was required. - included initialization values for several more member variavles of the SPECTDICOMData class. - removed the unused member variable SPECTDICOMData::num_dimensions.
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Changes in this pull request
This changes is related to #1184: SPECT projection DICOM: support multiple heads.
Changes have been introduced in the SPECT_dicom_to_interfile utility to accommodate such datasets.
Relevant details have been described here.
Additional changes include:
Testing performed
The code was executed on several multi-head SPECT projection datasets, including those with and without compressed pixel data.
White-box testing was performed to confirm that exception handling was working as expected in the function: SPECTDICOMData::get_proj_data(const std::string& output_file).
Related issues
This change fixes #1184.
Checklist before requesting a review