v0.5.0

NEWS.md

@@ -4,6 +4,11 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## [0.5.0] - May 16, 2023
+
+### Changed
+- Support for Julia versions below v1.9 is dropped
+
 ## [0.4.0] - Jun 23, 2021
 
 ### Changed

Project.toml

@@ -1,7 +1,7 @@
 name = "DECAES"
 uuid = "d84fb938-a666-558e-89d9-d531edc6724f"
 authors = ["Jonathan Doucette <jdoucette@physics.ubc.ca>"]
-version = "0.4.5"
+version = "0.5.0"
 
 [deps]
 ArgParse = "c7e460c6-2fb9-53a9-8c5b-16f535851c63"

api/DECAESApp/Project.toml

@@ -1,7 +1,7 @@
 name = "DECAESApp"
 uuid = "d8797698-3039-405c-b3a8-98519dba00aa"
 authors = ["Jonathan Doucette <jdoucette@physics.ubc.ca>"]
-version = "0.4.5"
+version = "0.5.0"
 
 [deps]
 DECAES = "d84fb938-a666-558e-89d9-d531edc6724f"
@@ -10,5 +10,5 @@ Pkg = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f"
 Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 
 [compat]
-DECAES = "0.4.5"
+DECAES = "0.5.0"
 PackageCompiler = "2"

api/decaes.m

@@ -2,24 +2,24 @@
 %DECAES (DE)composition and (C)omponent (A)nalysis of (E)xponential (S)ignals
 % Call out to the DECAES command line tool. The DECAES.jl Julia package will
 % be installed automatically, if necessary.
-% 
+%
 % See the online documentation for more information on DECAES:
 %   https://jondeuce.github.io/DECAES.jl/dev/
-% 
+%
 % See the mwiexamples github repository for myelin water imaging examples,
 % including sample data:
 %   https://github.com/jondeuce/mwiexamples
-% 
+%
 % If you use DECAES in your research, please cite our work:
 %   https://doi.org/10.1016/j.zemedi.2020.04.001
-% 
+%
 % INPUTS:
 %   Input argument syntax mimics that of the DECAES command line interface.
 %   Arguments must be strings, numeric values, or arrays of numeric values.
 %   For arrays, each element is treated as a separate input argument.
 %   All arguments will be forwarded to DECAES, with the exception of the
 %   following Matlab-specific flags:
-% 
+%
 %   --runtime:  Path to Julia binary runtime. Defaults to 'julia'.
 %   --threads:  Number of computational threads for DECAES to use.
 %               Defaults to 'auto', deferring to Julia to choose the optimal value.
@@ -33,10 +33,10 @@
 %               much friendlier interactive use. The Julia server will be killed
 %               automatically when Matlab exits. Do not use this flag if DECAES
 %               only needs to be run once.
-% 
+%
 % OUTPUTS:
 %   status:     (optional) System call status; see SYSTEM for details
-% 
+%
 % EXAMPLES:
 %   Run DECAES multithreaded on 'image.nii.gz' using command syntax:
 %     * We specify an output folder named 'results' using the '--output'
@@ -52,16 +52,16 @@
 %       parameter using the --Reg flag
 %     * Lastly, we indicate that the regularization parameters should be
 %       saved using the --SaveRegParam flag
-% 
+%
 %       decaes image.nii.gz --output results --mask image_mask.mat --T2map --T2part --TE 7e-3 --nT2 60 --T2Range 7e-3 2.0 --SPWin 7e-3 25e-3 --MPWin 25e-3 200.0e-3 --Reg lcurve --SaveRegParam
-% 
+%
 %   Run the same command using function syntax:
-% 
+%
 %       decaes('image.nii.gz', '--output', 'results', '--mask', 'image_mask.mat', '--T2map', '--T2part', '--TE', 7e-3, '--nT2', 60, '--T2Range', [7e-3, 2.0], '--SPWin', [7e-3, 25e-3], '--MPWin', [25e-3, 200.0e-3], '--Reg', 'lcurve', '--SaveRegParam')
-% 
+%
 %   Create a settings file called 'settings.txt' containing the settings
 %   from the above example (note: only one value or flag per line):
-% 
+%
 %       image.nii.gz
 %       --output
 %       results
@@ -85,14 +85,14 @@
 %       --Reg
 %       lcurve
 %       --SaveRegParam
-% 
+%
 %   Run the example using the above settings file 'settings.txt' on a local Julia server:
-% 
+%
 %       decaes --server @settings.txt
-% 
+%
 %   Note the separation of the Matlab-specific flags from the DECAES settings file.
-% 
-% This version of decaes.m was written for DECAES v0.4.5.
+%
+% This version of decaes.m was written for DECAES v0.5.0.
 % DECAES was written by Jonathan Doucette (jdoucette@physics.ubc.ca).
 % Original MATLAB implementation is by Thomas Prasloski (tprasloski@gmail.com).
 

api/decaes.py

@@ -16,7 +16,7 @@
     # Call methods from the DECAES module as usual, e.g.
     DECAES.T2mapSEcorr(image; kwargs...)
 
-This version of decaes.py was written for DECAES v0.4.3.
+This version of decaes.py was written for DECAES v0.5.0.
 """
 
 import julia

api/decaes.sh

@@ -21,7 +21,7 @@ parser = argparse.ArgumentParser(
 
             python decaes.py @/path/to/decaes_settings_file.txt
 
-    This version of decaes.sh was written for DECAES v0.4.3.
+    This version of decaes.sh was written for DECAES v0.5.0.
     """,
     formatter_class = argparse.RawDescriptionHelpFormatter,
 )