Releases: JuliaHealth/KomaMRI.jl
Releases · JuliaHealth/KomaMRI.jl
v0.8.2
KomaMRI v0.8.2
Merged pull requests:
- Documentation restructure (#377) (@beorostica)
- Update Koma package versions (#379) (@beorostica)
Closed issues:
v0.8.1
KomaMRI v0.8.1
Merged pull requests:
- Add GPU tested compatibility in documentation (#300) (@beorostica)
- Update codecov to consider all subdirectories (#303) (@beorostica)
- read and store signature in seq.DEF["signature"] (#313) (@aTrotier)
- Fixes for no gradients in seq file. (#314) (@curtcorum)
- KomaMRIFiles: RF phase read with the opposite sign from Pulseq (#315) (@beorostica)
- Hot fix empty grad (#316) (@beorostica)
- Hot version updates (#317) (@beorostica)
- Upsample phantoms (#319) (@curtcorum)
- Incorrect gradient interpretation when waveforms do not end in zero (#321) (@beorostica)
- Remove deprecation warning for sort function (#327) (@beorostica)
- Fix colormap bug when ploting phantom maps (#330) (@beorostica)
- Remove air tissue from pelvis phantom example (#331) (@beorostica)
- Refactor moment functions (#332) (@beorostica)
- CI: Set up Dependabot to auto-update pinned GitHub Actions (#336) (@DilumAluthge)
- CI: Update
codecov-action
to v4.1.1, and pass the organization-wideCODECOV_TOKEN
secret (#337) (@DilumAluthge) - CI: Add a manual (
workflow_dispatch
) trigger for CompatHelper; also don't run CompatHelper on PRs (#338) (@DilumAluthge) - Bump actions/checkout from 3 to 4 (#340) (@dependabot[bot])
- Bump actions/cache from 3 to 4 (#341) (@dependabot[bot])
- Anisotropic Phantoms (#342) (@curtcorum)
- Add an example Buildkite pipeline file (#344) (@DilumAluthge)
- Julia formatter (#369) (@cncastillo)
- Update Docs (#370) (@beorostica)
Closed issues:
- Incorrect interpretation of time shaped RFs (#200)
- Empty sequence adds an undesired block (#203)
- Unnecessary samples are considered when concatenating sequences (#205)
- Resolve Circular Dependencies in Tests Environments (#237)
- Google Summer of Code (GSoC) (#243)
- Refactor functions for computing moments (#268)
- Compatible, tested or recommended julia versions for CPU and GPU? (#295)
- Default simulate fails after clean install of KomaMRI version 0.7.5 (#298)
- MRIReco.jl v0.8.0 incorrect initialization with multiple threads (#299)
- Update codecov to consider new subpackages (#302)
- Reduce spins for pelvis Phantom (#306)
- Interpretation of '.seq' files is not matching with sequence designed on PyPulseq (#320)
- Warning:
sort(d::Dict; args...)
is deprecated, usesort!(OrderedDict(d); args...)
instead. (#326) - Can't define colormap ranges when plotting phantom object (#328)
- [BUG] CodeCov Not Working (#335)
- Refactor get_Mk to compute 't' and 'tadc' more efficiently (#345)
- Performance improvements for plot_seq (function and UI) (#365)
v0.8.0
KomaMRI v0.8.0
Merged pull requests:
- Improve UI Observables management (#210) (@beorostica)
- Fix StackOverflow error plots of big sequences (#220) (@gabuzi)
- KomaMRIIO subpackage (#231) (@beorostica)
- Add contibuting guidelines (#234) (@beorostica)
- KomaMRIBase (#239) (@cncastillo)
- KomaMRIBase/KomaMRIFiles: Avoid Circular Deps (#240) (@beorostica)
- Add contributors in README and GUI (#247) (@beorostica)
- Add educational example to docs (#248) (@beorostica)
- Create Template for Issues (#249) (@beorostica)
- Add Template for Issues (#250) (@beorostica)
- Add educational Pluto example (#253) (@beorostica)
- Templates for Issues (#254) (@beorostica)
- Update Issue Templates (#257) (@beorostica)
- Fix multiple docs warnings (#258) (@beorostica)
- Include Koma subpackages in CompatHelper (#259) (@beorostica)
- CompatHelper: bump compat for Adapt to 4 for package KomaMRICore, (keep existing compat) (#261) (@github-actions[bot])
- CompatHelper: bump compat for Interpolations to 0.15 for package KomaMRICore, (keep existing compat) (#262) (@github-actions[bot])
- CompatHelper: bump compat for Interpolations to 0.15 for package KomaMRIPlots, (keep existing compat) (#263) (@github-actions[bot])
- Fix URL for educational Pluto example (#266) (@beorostica)
- Pluto Educational Example (#267) (@beorostica)
- Update README.md (#269) (@pabloirarrazaval)
- Fixing precompilation problems in Julia 1.10.0 (#277) (@cncastillo)
- Add test for
simulate_slice_profile
function (#280) (@beorostica) - Run nightly CI on push trigger (#283) (@beorostica)
- Transform text to path in .svg image (#285) (@beorostica)
- Update koma subdir image (#289) (@beorostica)
- Patch CI for compat (#290) (@beorostica)
- CompatHelper: bump compat for Interpolations to 0.15 for package KomaMRIBase, (keep existing compat) (#292) (@github-actions[bot])
- Improve the visualization of the contributors in the UI (#294) (@beorostica)
- Display Koma package versions in issue template (#296) (@beorostica)
Closed issues:
- Annoying random update of plots in GUI (#66)
- Separate KomaMRI into simpler subpackages (#92)
- Add contributors to UI (#191)
- Be more clear about the package versions in the UI (#192)
- Koma logo in the docs is incorrect (#193)
- Update pipeline figure to show the current organization of the Koma submodules (#194)
- GUI gets stuck when simulating twice (#198)
- Unattractive group of legends and colors in subplots (#199)
- Add Contributing Guidelines (#209)
- Add the ability to modify the
seq
,obj
,sys
,raw
andimage
used in the UI from the REPL (#211) - MRD Data opened in Python appears corrupted (#214)
- StackOverflowError on plots of large sequences (#221)
- Precompiling KomaMRIPlots hangs on Windows (#225)
- Add a template for reporting issues (#228)
- KomaMRIFiles (#232)
- Additional
<userParameters>
tag within XML header of exported MRD (#236) - Upload educational Pluto notebook (#242)
- Update Subpackages in README (#244)
- Update CompatHelper to also check subpacakge's compat (#245)
- Add MRI together's talk to News section in README (#246)
- Generete a test for slice simulation (#252)
- Avoid Warnings During Document Generation (#255)
- KomaMRIBase (#265)
- Basic trapezoidal
Grad
usage, parameter definition with a plot. (#270) - KomaMRIPlots doesn't precompile in Julia 1.10.0 (#274)
- Move Julia compat to 1.9 (#275)
- Use nightly tests in CI (#281)
- Increment code coverage (#282)
- Improve the visualization of contributors and colors in the UI (#293)
v0.7.5
KomaMRI v0.7.5
Merged pull requests:
- Use reshape() instead of ;; (#177) (@beorostica)
- Fix long names displayed in the sidebar (#180) (@beorostica)
- UI update. (#181) (@cncastillo)
- Update README.md [skip ci] (#182) (@cncastillo)
- Update README.md [skip ci] (#185) (@cncastillo)
- CompatHelper: bump compat for MRIReco to 0.8, (keep existing compat) (#186) (@github-actions[bot])
- KomaMRIPlots Pluto compatibility (#195) (@cncastillo)
Closed issues:
- Edge cases arise during simple 1-spin simulation (#85)
- Plots fail when used in Pluto notebooks (#166)
- Default KomaUI sequence is different in julia versions 1.6 and 1.9 (#175)
- Long file names overflow from UI's navbar (#176)
- Adding code style, compatible Julia version, and license to README.md (#188)
- Add KomaMRI.jl to MRHub (#196)
- Bug with Δf in RF_sinc function (#197)
- Replicate pulseq functions to create sequences (#206)
v0.7.4
KomaMRI v0.7.4
Closed issues:
- Exporting results to .mat from the GUI (#70)
- Solve edge-case for avoiding additional delay in the acquisition (#88)
- Separate simulation base to KomaMRIBase subpackage (#92)
- Problem with ADC next to RF object (#161)
- Discretization of gradient waveform fails for square gradients / very high slew rates (#162)
- KomaUI not working in Julia 1.9 (#168)
Merged pull requests:
- Modules KomaMRICore and KomaMRIPlots (#148) (@beorostica)
- Fix for no-gpu devices (#153) (@beorostica)
- CompatHelper: add new compat entry for KomaMRICore at version 0.7, (keep existing compat) (#154) (@github-actions[bot])
- Change UUID of KomaMRIPlots subpackage (#156) (@beorostica)
- Add compat version 0.7 for KomaMRICore (#157) (@beorostica)
- Apidocs (#158) (@beorostica)
- CompatHelper: add new compat entry for KomaMRIPlots at version 0.7, (keep existing compat) (#159) (@github-actions[bot])
- Update ci.yml for codecov subpackages (#160) (@beorostica)
- KomaMRI v0.7.4: Bug fixes and minor features (#163) (@cncastillo)
- Avoid dialog (#171) (@beorostica)
- CompatHelper: add new compat entry for MAT at version 0.10, (keep existing compat) (#172) (@github-actions[bot])
- Update Project.toml for KomaMRIPlots to v0.7.6 (#173) (@beorostica)
v0.7.3
KomaMRI v0.7.3
Closed issues:
- Two definitions for DiscreteSequence #146 (@cncastillo)
- Hwloc still being used in KomaUI #144 (@cncastillo)
- Blink v0.12.6 removed functions
AtomShell.isinstalled()
andAtomShell.install()
used in KomaMRI.jl #143 (@cncastillo)
v0.7.2
KomaMRI v0.7.2
Closed issues:
- Default number of threads for CPU parallelization (#141) (@cncastillo )
Merged pull requests:
- Literate (#140) (@beorostica)
v0.7.1
KomaMRI v0.7.1
Closed issues:
- DisplayFunctions: RF phase is incorrectly calculated (#130) @cncastillo
- DisplayFunctions: Timings of RF waveform are slightly incorrect when
rf_max_samples
is less than the actual number of samples (#131) @cncastillo - Signal was being conjugated (affected "return_type" => "raw") (#129) @cncastillo
- Pulseq
read_seq
prints unnecessary spaces (#133) @cncastillo - KomaUI prints some unnecessary spaces (#135) @cncastillo
- Clean /examples/ folder (#137) @cncastillo
v0.7.0
KomaMRI v0.7.0
Closed issues:
- RF implementation with GPU acceleration (#2) @cncastillo
- Documentation versions (stable & dev) (#115) @beorostica
- Move
gpu
function calls tosimulate
(#116) @cncastillo - Solve edge-case for one acquisition sample (#117) @cncastillo
- T2 decay was incorrectly calculated for the first sample after a delay. (#118) @cncastillo
- Move
get_grad
andget_rfs
function calls tosimulate
, to used them only once. (Low priority) (#119) @cncastillo - Type stability in core simulation types and functions (Phantom, DiscreteSequence, Magnetization). (#120) @cncastillo
Merged pull requests:
- Update make.jl (#114) (@beorostica)
- CompatHelper: add new compat entry for Adapt at version 3, (keep existing compat) (#122) (@github-actions[bot])
- CompatHelper: add new compat entry for Functors at version 0.4, (keep existing compat) (#123) (@github-actions[bot])
- CompatHelper: add new compat entry for Parameters at version 0.12, (keep existing compat) (#124) (@github-actions[bot])
v0.6.7
KomaMRI v0.6.7
Closed issues:
- Margins of plot_signal are not consistent with plot_seq (#84)
- Plot functions throw error in Julia REPL (#86)
- Reconstructing without simulating first gives an error (#91)
- [Important] Simulation inconsistency in GUI due to thread racing condition (#94)
- Progress bar in GUI is not working (#95)
Merged pull requests:
- CompatHelper: bump compat for MRIReco to 0.6, (keep existing compat) (#93) (@github-actions[bot])
- Removed simulation inconsistency and other fixes (#96) (@cncastillo)
- CompatHelper: add new compat entry for Scanf at version 0.5, (keep existing compat) (#98) (@github-actions[bot])
- CompatHelper: add new compat entry for ThreadsX at version 0.1, (keep existing compat) (#99) (@github-actions[bot])
- Fix #86 (#101) (@beorostica)
- Add MRIReco v0.7 compatibility (#103) (@beorostica)
- Fix bug for Reconstruct button (#104) (@beorostica)
- Add codecov.yml configuration file (#106) (@beorostica)
- Remove target in codecov configuration (#107) (@beorostica)
- Add patch threshold to codecov settings (#108) (@beorostica)
- Set patch as informational in codecov configuration (#109) (@beorostica)
- Update API docstrings (#110) (@beorostica)
- Add 3D simulation example (#111) (@beorostica)
- Clean Packages (#112) (@beorostica)