Release note¶

1.0 (commit 8e35aee)¶

Release date: 25 Feb 2022

Release date: 6 May 2021

Release date: 4 Feb 2021

Log file and error message file are now paired (last 15 digits in the extension) instead of sorting in simple numerical order
Log file and error message file are now generated in both GUI and command-based operations (when using sepiaIO)
When running SEPIA, the current directory will temporaily move to the output directory to avoid overwriting temporary files if multiple processings happen simultaneously
A SEPIA pipeline configuration file will be automatically generated using sepiaIO is the output directory does not have any existing configuration file. This would be useful to look up the pipeline used to produce the results when using command-based operation

Bug fix when running FANSI (see here)
Bug fix when getting B0 direction from Sagittal or Coronal acquisition (see here)
Bug fix when running QSM standalone with magnitude image for regularisation (see here)
Bug fix when running MEDI with zeropadding option is not equal to zero

Improved readiility of how the data are loaded in SEPIA, which could make better BIDS compartibility in the future

Release date: 18 July 2020

New layout for input/output panel for data selection
New pipeline configuration file (sepia_config.m), log file (run_sepia.log) and error message file (run_sepia.error)
New feature to load parameters in a pipeline configuration file (sepia_config.m) to the GUI
New option to save unwrapped echo phase
New option to exlcude unreliable voxels
New option to select reference tissue for QSM normalisation/referencing
New option to remove residual B1 field in local field using spherical harmonic function with adjustable order of the fitting

Support developers adding a third-party method as an addon
Introduce tutorial scripts to guide developers on how to adding third-party method in SEPIA
Introduce functions to simplify the workflow of creating new method panel
The order of removal of residual B1 field and mask erosion is interchanged to produce better a fitting result

Bug fix: running SEPIA without parrallel computing toolbox
Bug fix: running MEDI toolbox nonlinear fit echo phase combination with 2 echoes
Bug fix: running MEDI method in SEPIA
Bug fix: running single echo data with exclusion of unreliable voxels option enabled

Please update the MEDI toolbox (Jan 15, 2020) and FANSI toolbox (commit dc68c306) to the lastest version for the best performance.

Release date: 9 Nov 2019

Release date: 4 Jun 2019

Release date: 9 May 2019

Support simple susceptibility weighted imaging (SWI) and susceptibility map weighted imaging (SMWI) as part of the GUI
resolved loading/saving NIfTI issue related to 0.7.0 update
DICOM input is deprecated: the only possible input is NIfTI data
fixed bug when running MEDI with CSF regularisation
fixed bug for single echo SWI
now support automatic magnitude and phase images detection with name containing string “mag” for magnitude image and “ph” for phase image
fixed global phase offset with graph-cut phase unwrapping

Release date: 12 Apr 2019

redesigned log file format; the algorithms and parameters being used are much clearer and neat than before (previous log file cannot work in this version)
resolved ‘.nii.nii’ issue when using STI suite algorithms
resolved no. of iterations with FANSI does not change issue
resolved problematic QSM results with FANSI when an input matrix is an odd number
resolved excluded unreliable voxels issue when 3D best path algorithm doesn’t work
improved build-in VSHARP results when there are masked voxels on the image edges
added image erosion function for background field removal algorithms
get header function is now compatible with the JSON files generated by dcm2niix and dicm2nii

Release date: 1 Sep 2018