Tags: JanWP/KomaMRI.jl
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[Diff since v0.8.1](JuliaHealth/KomaMRI.jl@v0.8.1...v0.8.2) **Merged pull requests:** - Documentation restructure (JuliaHealth#377) (@beorostica) - Update Koma package versions (JuliaHealth#379) (@beorostica) **Closed issues:** - Modify Literate Examples Generation (JuliaHealth#251) - `plot_seq` not plotting Gx if Gy is not on and vice-versa (JuliaHealth#374) - KomaMRI errors when using Julia nightly (JuliaHealth#375) - Simulation crashes when trying to simulate soft-RF (get_rf_center) (JuliaHealth#378)
[Diff since v0.8.0](JuliaHealth/KomaMRI.jl@v0.8.0...v0.8.1) **Merged pull requests:** - Add GPU tested compatibility in documentation (JuliaHealth#300) (@beorostica) - Update codecov to consider all subdirectories (JuliaHealth#303) (@beorostica) - read and store signature in seq.DEF["signature"] (JuliaHealth#313) (@aTrotier) - Fixes for no gradients in seq file. (JuliaHealth#314) (@curtcorum) - KomaMRIFiles: RF phase read with the opposite sign from Pulseq (JuliaHealth#315) (@beorostica) - Hot fix empty grad (JuliaHealth#316) (@beorostica) - Hot version updates (JuliaHealth#317) (@beorostica) - Upsample phantoms (JuliaHealth#319) (@curtcorum) - Incorrect gradient interpretation when waveforms do not end in zero (JuliaHealth#321) (@beorostica) - Remove deprecation warning for sort function (JuliaHealth#327) (@beorostica) - Fix colormap bug when ploting phantom maps (JuliaHealth#330) (@beorostica) - Remove air tissue from pelvis phantom example (JuliaHealth#331) (@beorostica) - Refactor moment functions (JuliaHealth#332) (@beorostica) - CI: Set up Dependabot to auto-update pinned GitHub Actions (JuliaHealth#336) (@DilumAluthge) - CI: Update `codecov-action` to v4.1.1, and pass the organization-wide `CODECOV_TOKEN` secret (JuliaHealth#337) (@DilumAluthge) - CI: Add a manual (`workflow_dispatch`) trigger for CompatHelper; also don't run CompatHelper on PRs (JuliaHealth#338) (@DilumAluthge) - Bump actions/checkout from 3 to 4 (JuliaHealth#340) (@dependabot[bot]) - Bump actions/cache from 3 to 4 (JuliaHealth#341) (@dependabot[bot]) - Anisotropic Phantoms (JuliaHealth#342) (@curtcorum) - Add an example Buildkite pipeline file (JuliaHealth#344) (@DilumAluthge) - Julia formatter (JuliaHealth#369) (@cncastillo) - Update Docs (JuliaHealth#370) (@beorostica) **Closed issues:** - Incorrect interpretation of time shaped RFs (JuliaHealth#200) - Empty sequence adds an undesired block (JuliaHealth#203) - Unnecessary samples are considered when concatenating sequences (JuliaHealth#205) - Resolve Circular Dependencies in Tests Environments (JuliaHealth#237) - Google Summer of Code (GSoC) (JuliaHealth#243) - Refactor functions for computing moments (JuliaHealth#268) - Compatible, tested or recommended julia versions for CPU and GPU? (JuliaHealth#295) - Default simulate fails after clean install of KomaMRI version 0.7.5 (JuliaHealth#298) - MRIReco.jl v0.8.0 incorrect initialization with multiple threads (JuliaHealth#299) - Update codecov to consider new subpackages (JuliaHealth#302) - Reduce spins for pelvis Phantom (JuliaHealth#306) - Interpretation of '.seq' files is not matching with sequence designed on PyPulseq (JuliaHealth#320) - Warning: `sort(d::Dict; args...)` is deprecated, use `sort!(OrderedDict(d); args...)` instead. (JuliaHealth#326) - Can't define colormap ranges when plotting phantom object (JuliaHealth#328) - [BUG] CodeCov Not Working (JuliaHealth#335) - Refactor get_Mk to compute 't' and 'tadc' more efficiently (JuliaHealth#345) - Performance improvements for plot_seq (function and UI) (JuliaHealth#365)
[Diff since v0.7.5](JuliaHealth/KomaMRI.jl@v0.7.5...v0.8.0) **Merged pull requests:** - Improve UI Observables management (JuliaHealth#210) (@beorostica) - Fix StackOverflow error plots of big sequences (JuliaHealth#220) (@gabuzi) - KomaMRIIO subpackage (JuliaHealth#231) (@beorostica) - Add contibuting guidelines (JuliaHealth#234) (@beorostica) - KomaMRIBase (JuliaHealth#239) (@cncastillo) - KomaMRIBase/KomaMRIFiles: Avoid Circular Deps (JuliaHealth#240) (@beorostica) - Add contributors in README and GUI (JuliaHealth#247) (@beorostica) - Add educational example to docs (JuliaHealth#248) (@beorostica) - Create Template for Issues (JuliaHealth#249) (@beorostica) - Add Template for Issues (JuliaHealth#250) (@beorostica) - Add educational Pluto example (JuliaHealth#253) (@beorostica) - Templates for Issues (JuliaHealth#254) (@beorostica) - Update Issue Templates (JuliaHealth#257) (@beorostica) - Fix multiple docs warnings (JuliaHealth#258) (@beorostica) - Include Koma subpackages in CompatHelper (JuliaHealth#259) (@beorostica) - CompatHelper: bump compat for Adapt to 4 for package KomaMRICore, (keep existing compat) (JuliaHealth#261) (@github-actions[bot]) - CompatHelper: bump compat for Interpolations to 0.15 for package KomaMRICore, (keep existing compat) (JuliaHealth#262) (@github-actions[bot]) - CompatHelper: bump compat for Interpolations to 0.15 for package KomaMRIPlots, (keep existing compat) (JuliaHealth#263) (@github-actions[bot]) - Fix URL for educational Pluto example (JuliaHealth#266) (@beorostica) - Pluto Educational Example (JuliaHealth#267) (@beorostica) - Update README.md (JuliaHealth#269) (@pabloirarrazaval) - Fixing precompilation problems in Julia 1.10.0 (JuliaHealth#277) (@cncastillo) - Add test for `simulate_slice_profile` function (JuliaHealth#280) (@beorostica) - Run nightly CI on push trigger (JuliaHealth#283) (@beorostica) - Transform text to path in .svg image (JuliaHealth#285) (@beorostica) - Update koma subdir image (JuliaHealth#289) (@beorostica) - Patch CI for compat (JuliaHealth#290) (@beorostica) - CompatHelper: bump compat for Interpolations to 0.15 for package KomaMRIBase, (keep existing compat) (JuliaHealth#292) (@github-actions[bot]) - Improve the visualization of the contributors in the UI (JuliaHealth#294) (@beorostica) - Display Koma package versions in issue template (JuliaHealth#296) (@beorostica) **Closed issues:** - Annoying random update of plots in GUI (JuliaHealth#66) - Separate KomaMRI into simpler subpackages (JuliaHealth#92) - Add contributors to UI (JuliaHealth#191) - Be more clear about the package versions in the UI (JuliaHealth#192) - Koma logo in the docs is incorrect (JuliaHealth#193) - Update pipeline figure to show the current organization of the Koma submodules (JuliaHealth#194) - GUI gets stuck when simulating twice (JuliaHealth#198) - Unattractive group of legends and colors in subplots (JuliaHealth#199) - Add Contributing Guidelines (JuliaHealth#209) - Add the ability to modify the `seq`, `obj`, `sys`, `raw` and `image` used in the UI from the REPL (JuliaHealth#211) - MRD Data opened in Python appears corrupted (JuliaHealth#214) - StackOverflowError on plots of large sequences (JuliaHealth#221) - Precompiling KomaMRIPlots hangs on Windows (JuliaHealth#225) - Add a template for reporting issues (JuliaHealth#228) - KomaMRIFiles (JuliaHealth#232) - Additional `<userParameters>` tag within XML header of exported MRD (JuliaHealth#236) - Upload educational Pluto notebook (JuliaHealth#242) - Update Subpackages in README (JuliaHealth#244) - Update CompatHelper to also check subpacakge's compat (JuliaHealth#245) - Add MRI together's talk to News section in README (JuliaHealth#246) - Generete a test for slice simulation (JuliaHealth#252) - Avoid Warnings During Document Generation (JuliaHealth#255) - KomaMRIBase (JuliaHealth#265) - Basic trapezoidal `Grad` usage, parameter definition with a plot. (JuliaHealth#270) - KomaMRIPlots doesn't precompile in Julia 1.10.0 (JuliaHealth#274) - Move Julia compat to 1.9 (JuliaHealth#275) - Use nightly tests in CI (JuliaHealth#281) - Increment code coverage (JuliaHealth#282) - Improve the visualization of contributors and colors in the UI (JuliaHealth#293)
[Diff since v0.7.4](JuliaHealth/KomaMRI.jl@v0.7.4...v0.7.5) **Merged pull requests:** - Use reshape() instead of ;; (JuliaHealth#177) (@beorostica) - Fix long names displayed in the sidebar (JuliaHealth#180) (@beorostica) - UI update. (JuliaHealth#181) (@cncastillo) - Update README.md [skip ci] (JuliaHealth#182) (@cncastillo) - Update README.md [skip ci] (JuliaHealth#185) (@cncastillo) - CompatHelper: bump compat for MRIReco to 0.8, (keep existing compat) (JuliaHealth#186) (@github-actions[bot]) - KomaMRIPlots Pluto compatibility (JuliaHealth#195) (@cncastillo) **Closed issues:** - Edge cases arise during simple 1-spin simulation (JuliaHealth#85) - Plots fail when used in Pluto notebooks (JuliaHealth#166) - Default KomaUI sequence is different in julia versions 1.6 and 1.9 (JuliaHealth#175) - Long file names overflow from UI's navbar (JuliaHealth#176) - Adding code style, compatible Julia version, and license to README.md (JuliaHealth#188) - Add KomaMRI.jl to MRHub (JuliaHealth#196) - Bug with Δf in RF_sinc function (JuliaHealth#197) - Replicate pulseq functions to create sequences (JuliaHealth#206)
[Diff since v0.7.3](JuliaHealth/KomaMRI.jl@v0.7.3...v0.7.4) **Closed issues:** - Exporting results to .mat from the GUI (JuliaHealth#70) - Solve edge-case for avoiding additional delay in the acquisition (JuliaHealth#88) - Separate simulation base to KomaMRIBase subpackage (JuliaHealth#92) - Problem with ADC next to RF object (JuliaHealth#161) - Discretization of gradient waveform fails for square gradients / very high slew rates (JuliaHealth#162) - KomaUI not working in Julia 1.9 (JuliaHealth#168) **Merged pull requests:** - Modules KomaMRICore and KomaMRIPlots (JuliaHealth#148) (@beorostica) - Fix for no-gpu devices (JuliaHealth#153) (@beorostica) - CompatHelper: add new compat entry for KomaMRICore at version 0.7, (keep existing compat) (JuliaHealth#154) (@github-actions[bot]) - Change UUID of KomaMRIPlots subpackage (JuliaHealth#156) (@beorostica) - Add compat version 0.7 for KomaMRICore (JuliaHealth#157) (@beorostica) - Apidocs (JuliaHealth#158) (@beorostica) - CompatHelper: add new compat entry for KomaMRIPlots at version 0.7, (keep existing compat) (JuliaHealth#159) (@github-actions[bot]) - Update ci.yml for codecov subpackages (JuliaHealth#160) (@beorostica) - KomaMRI v0.7.4: Bug fixes and minor features (JuliaHealth#163) (@cncastillo) - Avoid dialog (JuliaHealth#171) (@beorostica) - CompatHelper: add new compat entry for MAT at version 0.10, (keep existing compat) (JuliaHealth#172) (@github-actions[bot]) - Update Project.toml for KomaMRIPlots to v0.7.6 (JuliaHealth#173) (@beorostica)
[Diff since v0.7.1](JuliaHealth/KomaMRI.jl@v0.7.1...v0.7.2) **Closed issues:** - Default number of threads for CPU parallelization (JuliaHealth#141) **Merged pull requests:** - Literate (JuliaHealth#140) (@beorostica)
[Diff since v0.6.7](JuliaHealth/KomaMRI.jl@v0.6.7...v0.7.0) **Closed issues:** - RF implementation with GPU acceleration (#2) - Documentation versions (stable & dev) (JuliaHealth#115) - Move `gpu` function calls to `simulate` (JuliaHealth#116) - Solve edge-case for one acquisition sample (JuliaHealth#117) - T2 decay was incorrectly calculated for the first sample after a delay. (JuliaHealth#118) - Move `get_grad` and `get_rfs` function calls to `simulate`, to used them only once. (Low priority) (JuliaHealth#119) - Type stability in core simulation types and functions (Phantom, DiscreteSequence, Magnetization). (JuliaHealth#120) **Merged pull requests:** - Update make.jl (JuliaHealth#114) (@beorostica) - CompatHelper: add new compat entry for Adapt at version 3, (keep existing compat) (JuliaHealth#122) (@github-actions[bot]) - CompatHelper: add new compat entry for Functors at version 0.4, (keep existing compat) (JuliaHealth#123) (@github-actions[bot]) - CompatHelper: add new compat entry for Parameters at version 0.12, (keep existing compat) (JuliaHealth#124) (@github-actions[bot])
[Diff since v0.6.6](JuliaHealth/KomaMRI.jl@v0.6.6...v0.6.7) **Closed issues:** - Margins of plot_signal are not consistent with plot_seq (JuliaHealth#84) - Plot functions throw error in Julia REPL (JuliaHealth#86) - Reconstructing without simulating first gives an error (JuliaHealth#91) - [Important] Simulation inconsistency in GUI due to thread racing condition (JuliaHealth#94) - Progress bar in GUI is not working (JuliaHealth#95) **Merged pull requests:** - CompatHelper: bump compat for MRIReco to 0.6, (keep existing compat) (JuliaHealth#93) (@github-actions[bot]) - Removed simulation inconsistency and other fixes (JuliaHealth#96) (@cncastillo) - CompatHelper: add new compat entry for Scanf at version 0.5, (keep existing compat) (JuliaHealth#98) (@github-actions[bot]) - CompatHelper: add new compat entry for ThreadsX at version 0.1, (keep existing compat) (JuliaHealth#99) (@github-actions[bot]) - Fix JuliaHealth#86 (JuliaHealth#101) (@beorostica) - Add MRIReco v0.7 compatibility (JuliaHealth#103) (@beorostica) - Fix bug for Reconstruct button (JuliaHealth#104) (@beorostica) - Add codecov.yml configuration file (JuliaHealth#106) (@beorostica) - Remove target in codecov configuration (JuliaHealth#107) (@beorostica) - Add patch threshold to codecov settings (JuliaHealth#108) (@beorostica) - Set patch as informational in codecov configuration (JuliaHealth#109) (@beorostica) - Update API docstrings (JuliaHealth#110) (@beorostica) - Add 3D simulation example (JuliaHealth#111) (@beorostica) - Clean Packages (JuliaHealth#112) (@beorostica)
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