Tags: JuliaHealth/KomaMRI.jl
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[Diff since v0.8.1](v0.8.1...v0.8.2) **Merged pull requests:** - Documentation restructure (#377) (@beorostica) - Update Koma package versions (#379) (@beorostica) **Closed issues:** - Modify Literate Examples Generation (#251) - `plot_seq` not plotting Gx if Gy is not on and vice-versa (#374) - KomaMRI errors when using Julia nightly (#375) - Simulation crashes when trying to simulate soft-RF (get_rf_center) (#378)
[Diff since v0.8.0](v0.8.0...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-wide `CODECOV_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, use `sort!(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)
[Diff since v0.7.5](v0.7.5...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` and `image` 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)
[Diff since v0.7.4](v0.7.4...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)
[Diff since v0.7.3](v0.7.3...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)
[Diff since v0.7.1](v0.7.1...v0.7.2) **Closed issues:** - Default number of threads for CPU parallelization (#141) **Merged pull requests:** - Literate (#140) (@beorostica)
[Diff since v0.6.7](v0.6.7...v0.7.0) **Closed issues:** - RF implementation with GPU acceleration (#2) - Documentation versions (stable & dev) (#115) - Move `gpu` function calls to `simulate` (#116) - Solve edge-case for one acquisition sample (#117) - T2 decay was incorrectly calculated for the first sample after a delay. (#118) - Move `get_grad` and `get_rfs` function calls to `simulate`, to used them only once. (Low priority) (#119) - Type stability in core simulation types and functions (Phantom, DiscreteSequence, Magnetization). (#120) **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])
[Diff since v0.6.6](v0.6.6...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)
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