v0.5.7

Decapodes v0.5.7

Diff since v0.5.6

Merged pull requests:

• Add Docs for Mesh Loading (#189) (@jpfairbanks)
• Use bool flag in open_operators! (#249) (@lukem12345)
• Add automated benchmarks (#256) (@GeorgeR227)
• Use DocumenterCitations (#260) (@lukem12345)
• DOC: add harmonics explainer (#264) (@jpfairbanks)
• proposing fix by changing variable names (#274) (@quffaro)
• Multigrid inverse Laplacian (includes CombinatorialSpaces.jl v0.6.8 support) (#276) (@GeorgeR227)
• MHD Example (#280) (@lukem12345)
• Initial halfar-melt-ebm coupling and simulation (#283) (@lukem12345)
• Demonstrate model iteration in streamflow NS simulation (#284) (@lukem12345)
• Display composition diagrams in EBM-Melt (#285) (@lukem12345)
• DOCS: add copy for the poisson vorticity docs (#286) (@lukem12345)
• Add keyword argument for contract operators, clean simulation pipeline (#287) (@lukem12345)
• Add FAQ page to Decapodes (#290) (@GeorgeR227)
• Use a KD-tree for nearest neighbor interpolation (#293) (@lukem12345)
• Add Gray-Scott doc page (#295) (@GeorgeR227)
• Balancing Docs between First Principles and Many Examples (#296) (@quffaro)
• Adding Dynamic Buildkite Pipeline (#298) (@quffaro)
• Update CS to 0.7 and GB to 0.5 (#300) (@lukem12345)

Closed issues:

• Visualize VectorFields (#71)
• Decapodes Benchmarking (#255)
• Dependency Graph of Decapodes (#262)
• Hitting out of domain errors when optimizing Decapodes model (#271)
• "u" and "p" variable shadowing in Decapodes (#273)
• Reformat Decapodes Documentation as a Manual (#294)

v0.5.6

Decapodes v0.5.6

Diff since v0.5.5

Merged pull requests:

• Smaller compiler refactoring (#240) (@GeorgeR227)
• Use upstreamed averaging operator (#243) (@lukem12345)
• Reduce size of CUDA tests (#246) (@lukem12345)
• Add optional caching (#247) (@GeorgeR227)
• Fix README.md links (#248) (@GeorgeR227)
• Add Cahn-Hilliard Float32 Example (#253) (@GeorgeR227)
• amending buildkite functionality where agents use their own depot (#254) (@quffaro)
• Generate sum([...]) for large vectors (#259) (@lukem12345)
• change getproperty to setproperty! in simulation (#267) (@jClugstor)
• Use white_list for contract_operators (#268) (@lukem12345)

Closed issues:

• Use upstreamed averaging operator (#242)
• Reduce size of CUDA tests (#245)
• Replace (.+)(vars...) with sum([vars...]) (#257)
• avg₀₁_mat not defined error when generating with preallocation = false (#265)

v0.5.5

Decapodes v0.5.5

Diff since v0.5.4

Merged pull requests:

• In generating simulate, return nothing, for Enzyme compatibility (#244) (@jClugstor)

v0.5.4

Decapodes v0.5.4

Diff since v0.5.3

Merged pull requests:

• added AQUA.jl to Decapodes (#216) (@quffaro)
• Documentation Overhaul (#231) (@GeorgeR227)
• Replace Delta U with Delta V in Brusselator (#235) (@lukem12345)
• Adds relative path to gif (#239) (@GeorgeR227)

Closed issues:

• Remove X as default manifold (#23)
• Adding an Alias table to Decapode ACSet Schema (#155)
• Aqua.jl Report (#213)
• General Documentation Fixes (#220)
• Index doc page not displaying image (#238)

v0.5.3

Decapodes v0.5.3

Diff since v0.5.2

Merged pull requests:

• Two space indentation (#209) (@olynch)
• Couple Halfar and NS (#210) (@lukem12345)
• Edit BSH to not depend on example script (#215) (@lukem12345)
• Added Georges de Prawnm 🦐 (#219) (@quffaro)
• Fixed problems with Constant typing (#222) (@GeorgeR227)
• Cm/canon oncology (#223) (@quffaro)
• Support GPU Simulations (#225) (@GeorgeR227)
• Test allocations in simple simulations (#227) (@lukem12345)
• Vorticity Example from MHS (#230) (@jpfairbanks)

Closed issues:

• Icospheres 6,7,8 (#108)
• Test Allocations (#177)
• Export Canonical Model Zoo (#187)
• Execute Halfar on Greenland, and couple with Navier-Stokes (#204)
• Turn CISM benchmark back into a julia script (#206)
• Buildkite Down (#212)
• GenSim Type Inference Failure due to Constants (#221)
• Docs Builds Hanging (#226)

v0.5.2

Decapodes v0.5.2

Diff since v0.5.1

Merged pull requests:

• Feature buildkite (#186) (@quffaro)
• Cm/docs canon (#193) (@quffaro)
• Upload CISM as docs page (#195) (@lukem12345)
• Some fixes for Decapodes Docs (#196) (@GeorgeR227)
• Update to Latest CairoMakie (#198) (@lukem12345)
• Fixed Inv_Hodge_1 bug (#199) (@GeorgeR227)
• Revisit Oceananigans (#201) (@lukem12345)
• CompatHelper: add new compat entry for DiagrammaticEquations at version 0.1, (keep existing compat) (#207) (@algebraicjuliabot)

Closed issues:

• Expanded Example Tooling (#4)
• Refactoring Roadmap (#37)
• Spherical Weather Simulations (#54)
• Stability Analysis of Advection Diffusion (#57)
• Manage Makie Dependency (#60)
• Download meshes as individual artifacts (#65)
• Support new parameters syntax in composition (#81)
• Verbosity Settings for Decapode Visualization (#89)
• Pre-multiplying Matrices (#93)
• Plasma Physics (#110)
• Docs for Debugging (#133)
• Add support for boundary conditions as Decapode Morphisms (#144)
• Updating Docs to use latest CairoMakie (#181)
• WebGL Backend for Docs (#191)
• Add CISM benchmark to docs (#194)

v0.5.1

Decapodes v0.5.1

Diff since v0.5.0

Merged pull requests:

• The Klausmeier Model (#152) (@lukem12345)
• ENH: wip, convert from Decapodes to DecaExpr (#156) (@jpfairbanks)
• Switch to ComponentArrays (#167) (@ChrisRackauckas)
• clean up dependencies (#168) (@oscardssmith)
• ENH: add pretty printer for DecaExpr (#169) (@jpfairbanks)
• Run Halfar on "Real" Data (#170) (@lukem12345)
• CompatHelper: add new compat entry for ComponentArrays at version 0.15, (keep existing compat) (#172) (@algebraicjuliabot)
• Using PreallocationTools.jl (#173) (@jpfairbanks)
• Remove Catlab.Theories imports (#175) (@lukem12345)
• CompatHelper: add new compat entry for ACSets at version 0.2, (keep existing compat) (#178) (@algebraicjuliabot)
• Gr/wedge improve (#180) (@GeorgeR227)
• Migrate diagrammatic equations (#183) (@quffaro)

Closed issues:

• Serializing Outputs as JLD2 files (#91)
• Refactor into modules? (#139)
• Precompilation warning about identifier conflict (#157)
• Use ComponentArrays.jl (#165)
• Maintain composed operators through Decapode to DecaExpr conversion (#166)
• infer_states double export (#192)

v0.5.0

Decapodes v0.5.0

Diff since v0.3.1

Merged pull requests:

• Add Gray Scott model (#114) (@lukem12345)
• Add docs fixes (#128) (@lukem12345)
• Add example of physics on non-trivial domain (#129) (@lukem12345)
• update fields in Decapodes Language closes #131 (#132) (@jpfairbanks)
• Do not aggressively apply dot (#136) (@lukem12345)
• Use diagonal hodge in docs overview (#141) (@lukem12345)
• Add ASCII support for Unicode ops (#142) (@lukem12345)
• Add Burger's Equation Decapode (#145) (@lukem12345)
• Fix diff_adv link and some poiseuille params (#150) (@lukem12345)
• Compat with Catlab v0.16 (#158) (@epatters)
• CompatHelper: add new compat entry for Artifacts at version 1, (keep existing compat) (#162) (@algebraicjuliabot)

Closed issues:

• Decapods Examples (#5)
• Using the bullet for unnamed objects (#7)
• Function types should have constructors (#14)
• Add Docstrings to Functions (#16)
• General Sum and Projection Operators (#17)
• Refactor DWDs Compilation as Sigma Migration (#25)
• ENH: Resolve type piracy in OpenDiagrams (#27)
• ENH: Improve coverage of testing suite (#32)
• BUG: Docs fail to build locally (#34)
• DOC: Swap to_graphviz with draw_diagram (#38)
• Stability Analysis Experiments (#70)
• Check the stability properties on the Burger's equation (#100)
• Amend Docs (#127)
• Adding field names to DecaExpr types (#131)
• Bug in Open for variables that are derivatives (#134)
• ASCII Support (#138)
• Tag a new release for language changes (#140)
• Gatlab Migration (#153)

v0.3.1

Decapodes v0.3.1

Diff since v0.3.0

Closed issues:

• API Reference docs are broken (#124)

Merged pull requests:

• Ice Dynamics (#123) (@lukem12345)
• Fix docs (#125) (@lukem12345)
• Compose Budyko-Sellers with Halfar (#126) (@lukem12345)

v0.3.0

Decapodes v0.3.0

Diff since v0.2.1

Merged pull requests:

• Llm/catlab0.15 (#121) (@lukem12345)
• fix unnecessary deps (#122) (@mehalter)