Bump the all-julia-dependencies group across 3 directories with 8 updates

[dependabot]

Updates the requirements on LinearAlgebra, OrderedCollections, SparseArrays, Polynomials, Symbolics, OrdinaryDiffEq, Test and Pkg to permit the latest version.
Updates LinearAlgebra to
Updates OrderedCollections to 2.0.1

Release notes

Sourced from OrderedCollections's releases.

v2.0.1

OrderedCollections v2.0.1

Diff since v2.0.0

Merged pull requests:

• avoid rehashing in read-only operations (and fix some bugs) (#169) (@​KristofferC)
• Bump version from 2.0.0 to 2.0.1 (#170) (@​KristofferC)

Commits

• ee78af1 Bump version from 2.0.0 to 2.0.1 (#170)
• 304d5ed avoid rehashing in read-only operations (and fix some bugs) (#169)
• d5d76c7 Merge pull request #164 from JuliaCollections/ox/v2
• 68ab740 Remove depreacations for v2.0 release
• 7bb0847 Bump version from 1.8.1 to 1.8.2
• 6af78d8 OrderedDict: improve performance for non-concrete values and keys (#166)
• 1eaa980 Bump actions/checkout from 5 to 6 (#157)
• 7be2211 Bump actions/checkout from 4 to 5 (#156)
• a25bffa Add Integer type annotation to sizehint! overloads (#155)
• a64f186 issorted(ld; byvalue=true) for LittleDicts (#151)
• Additional commits viewable in compare view

Updates SparseArrays to
Updates Polynomials to 4.1.3

Release notes

Sourced from Polynomials's releases.

v4.1.3

What's Changed

• Document and test the coefficient side for matrix-argument evaluation by @​thomasahle in JuliaMath/Polynomials.jl#638
• version bump; ci adjust by @​jverzani in JuliaMath/Polynomials.jl#639

New Contributors

• @​thomasahle made their first contribution in JuliaMath/Polynomials.jl#638

Full Changelog: JuliaMath/Polynomials.jl@v4.1.2...v4.1.3

Commits

• See full diff in compare view

Updates Symbolics to 7.39.2

Release notes

Sourced from Symbolics's releases.

v7.39.2

Symbolics v7.39.2

Diff since v7.39.1

Bug fixes / compat

• Require SymbolicUtils 4.46.4 so Base.hasha_seed % UInt is used and 32-bit Julia precompile no longer hits InexactError: trunc(UInt32, …).

Merged pull requests:

• Require SymbolicUtils 4.46.4 (32-bit hasha_seed) (#1980) (@​ChrisRackauckas-Claude)

Changelog

Sourced from Symbolics's changelog.

7.37.0

Behavior changes

• is_derivative now unwraps wrapper types before inspecting the expression, so is_derivative(D(x)) is true where it previously returned false (D(x) is a Num, and the old catch-all method answered false for anything that was not a raw expression tree). This applies to any registered wrapper, including Arr. Code that relied on the old answer to distinguish a wrapped value from an unwrapped one should test Symbolics.iswrapped instead.

7.0.0

Breaking changes

• substitute no longer recurses into Differential arguments. This is due to SymbolicUtils.jl v4's default_substitute_filter, which treats Operator subclasses (including Differential) as substitution boundaries. Use the new substitute_in_deriv or substitute_in_deriv_and_depvar functions to substitute inside Differential expressions. See the Derivatives documentation for details.

4.0.0

• Symbolics.jl now supports the latest symbolic computing architecture backed by Metatheory.jl v1.2 and SymbolicUtils.jl v0.18 for generic term rewriting.
• Support for automatic code optimization through Metatheory.jl EGraphs and SymbolicUtils's optimize function.

3.3.0

• adds simplify_fractions which turns an expression into a single fraction and simplifies by dividing the numerator and denominator factors by appropriate GCDs
• Use new fraction_iszero and fraction_isone functions from SymbolicUtils to implement iszero and isone respectively.
• x / x etc. are no more simplified on construction, call simplify_fractions to simplify them.

Commits

• See full diff in compare view

Updates Symbolics to 7.39.2

Release notes

Sourced from Symbolics's releases.

v7.39.2

Symbolics v7.39.2

Diff since v7.39.1

Bug fixes / compat

• Require SymbolicUtils 4.46.4 so Base.hasha_seed % UInt is used and 32-bit Julia precompile no longer hits InexactError: trunc(UInt32, …).

Merged pull requests:

• Require SymbolicUtils 4.46.4 (32-bit hasha_seed) (#1980) (@​ChrisRackauckas-Claude)

Changelog

Sourced from Symbolics's changelog.

7.37.0

Behavior changes

• is_derivative now unwraps wrapper types before inspecting the expression, so is_derivative(D(x)) is true where it previously returned false (D(x) is a Num, and the old catch-all method answered false for anything that was not a raw expression tree). This applies to any registered wrapper, including Arr. Code that relied on the old answer to distinguish a wrapped value from an unwrapped one should test Symbolics.iswrapped instead.

7.0.0

Breaking changes

• substitute no longer recurses into Differential arguments. This is due to SymbolicUtils.jl v4's default_substitute_filter, which treats Operator subclasses (including Differential) as substitution boundaries. Use the new substitute_in_deriv or substitute_in_deriv_and_depvar functions to substitute inside Differential expressions. See the Derivatives documentation for details.

4.0.0

• Symbolics.jl now supports the latest symbolic computing architecture backed by Metatheory.jl v1.2 and SymbolicUtils.jl v0.18 for generic term rewriting.
• Support for automatic code optimization through Metatheory.jl EGraphs and SymbolicUtils's optimize function.

3.3.0

• adds simplify_fractions which turns an expression into a single fraction and simplifies by dividing the numerator and denominator factors by appropriate GCDs
• Use new fraction_iszero and fraction_isone functions from SymbolicUtils to implement iszero and isone respectively.
• x / x etc. are no more simplified on construction, call simplify_fractions to simplify them.

Commits

• See full diff in compare view

Updates OrdinaryDiffEq to 7.8.1

Changelog

Sourced from OrdinaryDiffEq's changelog.

OrdinaryDiffEq.jl v7 / DifferentialEquations.jl v8 Breaking Changes

This release bumps to SciMLBase v3, RecursiveArrayTools v4, and includes breaking changes across DiffEqBase, OrdinaryDiffEqCore, and all solver sublibraries. It also coincides with the DifferentialEquations.jl v8 umbrella release, which is itself a breaking change to the user-facing meta-package.

DifferentialEquations.jl v8: scope reduction

DifferentialEquations.jl v8 no longer re-exports the full SciML solver suite. Previously, using DifferentialEquations pulled in OrdinaryDiffEq, StochasticDiffEq, DelayDiffEq, BoundaryValueDiffEq, Sundials, JumpProcesses, SteadyStateDiffEq, LinearSolve, NonlinearSolve, Optimization, etc. — a large default surface that drove up using time and made it unclear which package any given solver actually came from.

In v8, using DifferentialEquations only loads OrdinaryDiffEq. All other solver families have been removed from the umbrella. If your code relied on DifferentialEquations for SDEs, DDEs, BVPs, jumps, steady states, or any non-ODE solver, you will need to add the topic-specific package to your project explicitly.

Migration

Find the topic you need a solver for and add the corresponding sublib(s) directly. The DiffEqDocs tutorials and solver pages now specify, per algorithm, which package it ships from. Common cases:

Topic	Old (DiffEq v7 umbrella)	New (DiffEq v8)
ODEs	using DifferentialEquations	using OrdinaryDiffEq (or using OrdinaryDiffEqTsit5, OrdinaryDiffEqRosenbrock, … for individual solver families)
Stochastic ODEs	using DifferentialEquations	using StochasticDiffEq
Delay ODEs	using DifferentialEquations	using DelayDiffEq
Boundary value problems	using DifferentialEquations	using BoundaryValueDiffEq (or one of BoundaryValueDiffEqMIRK, BoundaryValueDiffEqFIRK, BoundaryValueDiffEqShooting, …)
Jump processes	using DifferentialEquations	using JumpProcesses
Steady state	using DifferentialEquations	using SteadyStateDiffEq
DAEs (mass matrix or implicit)	using DifferentialEquations	using OrdinaryDiffEq (mass matrix), using Sundials (IDA), or topic sublib
Sundials wrappers (CVODE, IDA, ARKODE)	using DifferentialEquations	using Sundials
Linear / nonlinear / optimization	using DifferentialEquations	using LinearSolve / using NonlinearSolve / using Optimization

For ODE work specifically, prefer importing only the sublib you need (e.g. using OrdinaryDiffEqTsit5: Tsit5) rather than the umbrella using OrdinaryDiffEq — the v7 ecosystem split lets you trim using time substantially. The DiffEqDocs tutorials and solver index annotate every algorithm with its host sublib.

Why

Removing the meta-package's broad re-exports lets each topic's package version cycle independently, eliminates the long using DifferentialEquations precompile chain for users who only need ODEs, and makes the dependency graph for any given script honest about what's actually being loaded.

This change is independent of the OrdinaryDiffEq v7 changes below — OrdinaryDiffEq v7 ships with DifferentialEquations v8, but you can also use OrdinaryDiffEq v7 directly without the umbrella package at all.

OrdinaryDiffEq.jl v7 Breaking Changes

This release bumps to SciMLBase v3, RecursiveArrayTools v4, and includes breaking changes across DiffEqBase, OrdinaryDiffEqCore, and all solver sublibraries.

Themes of the v7 release

Most of the breaking changes fall into a small set of recurring themes. Keep these in mind while reading the migration table — they explain why an individual change exists and often suggest the right migration direction:

• Time to first solve (TTFS) reduction. Direct deps on Static.jl, StaticArrayInterface.jl, Polyester.jl, and StaticArrays.jl were dropped; using OrdinaryDiffEq now loads only the default solver set; ODEFunction switched to AutoSpecialize. All of this means less code loaded and more precompilation caching on first solve.

• Type stability everywhere. All Bool solver/solve keyword arguments (autodiff, verbose, alias, lazy, …) were replaced by typed objects. Passing a Bool no longer changes dispatch in ways the compiler cannot specialize on, and the reverse is no longer allowed to silently fall back through slow generic paths. For example:

  # v6 — a Bool
  Rosenbrock23(autodiff = true)
  solve(prob, alg; verbose = false, alias = true)

... (truncated)

Commits

• 6533afc Release 7.8.1 (#4387)
• 120d5a4 Add preset algorithm tags (#4384)
• 59f69ac test: compare W-prototype solutions on a common grid (#4385)
• 724ffe9 Require vector-backed CallbackSet support (#4374)
• f00aa4d Drop explanatory comments from the added testsets (#4380)
• 3329ae0 Drop stale [compat] majors; do not admit yanked majors (#4383)
• ad67eac Preserve sparse diagnostic Jacobian patterns through zero pruning (#4381)
• 2bb1ccf Release 16 sub-libraries (#4379)
• e4f0c5e Pass the cache to nlsolve! in PDIRK44's out-of-place branch (#4352)
• 53cc394 Pass the integrator and the stage buffer to stage limiters (#4356)
• Additional commits viewable in compare view

Updates LinearAlgebra to
Updates Symbolics to 7.39.2

Release notes

Sourced from Symbolics's releases.

v7.39.2

Symbolics v7.39.2

Diff since v7.39.1

Bug fixes / compat

• Require SymbolicUtils 4.46.4 so Base.hasha_seed % UInt is used and 32-bit Julia precompile no longer hits InexactError: trunc(UInt32, …).

Merged pull requests:

• Require SymbolicUtils 4.46.4 (32-bit hasha_seed) (#1980) (@​ChrisRackauckas-Claude)

Changelog

Sourced from Symbolics's changelog.

7.37.0

Behavior changes

• is_derivative now unwraps wrapper types before inspecting the expression, so is_derivative(D(x)) is true where it previously returned false (D(x) is a Num, and the old catch-all method answered false for anything that was not a raw expression tree). This applies to any registered wrapper, including Arr. Code that relied on the old answer to distinguish a wrapped value from an unwrapped one should test Symbolics.iswrapped instead.

7.0.0

Breaking changes

• substitute no longer recurses into Differential arguments. This is due to SymbolicUtils.jl v4's default_substitute_filter, which treats Operator subclasses (including Differential) as substitution boundaries. Use the new substitute_in_deriv or substitute_in_deriv_and_depvar functions to substitute inside Differential expressions. See the Derivatives documentation for details.

4.0.0

• Symbolics.jl now supports the latest symbolic computing architecture backed by Metatheory.jl v1.2 and SymbolicUtils.jl v0.18 for generic term rewriting.
• Support for automatic code optimization through Metatheory.jl EGraphs and SymbolicUtils's optimize function.

3.3.0

• adds simplify_fractions which turns an expression into a single fraction and simplifies by dividing the numerator and denominator factors by appropriate GCDs
• Use new fraction_iszero and fraction_isone functions from SymbolicUtils to implement iszero and isone respectively.
• x / x etc. are no more simplified on construction, call simplify_fractions to simplify them.

Commits

• See full diff in compare view

Updates Test to
Updates Pkg to

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[dependabot]

Looks like these dependencies are updatable in another way, so this is no longer needed.