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Bump the all-julia-packages group across 2 directories with 15 updates #7

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Updates the requirements on Documenter, LiveServer, DocumenterTools, FiniteVolumeMethod1D, SciMLBase, NonlinearSolve, LinearSolve, DomainSets, ReferenceTests, CairoMakie, MethodOfLines, OrdinaryDiffEq, ModelingToolkit, SpecialFunctions and SafeTestsets to permit the latest version.
Updates Documenter to 1.16.1

Release notes

Sourced from Documenter's releases.

v1.16.1

The changes are documented in the CHANGELOG.md file.

Diff since v1.16.0

Changelog

Sourced from Documenter's changelog.

Version [v1.16.1] - 2025-11-21

Fixed

  • The -g is now passed to curl when checking links, to disable globbing, which could cause undesirable behavior when checking links containing characters like for example [, {, & or ?. (#2839, #2842)
  • Fixed insufficient paragraph spacing in HTML output for @docs blocks. ([#2845, #2847])
  • Don't expand details admonition by default. ([#2846, #2847])
  • Removed superfluous vertical space at end of @docs blocks. (#2849)

Version [v1.16.0] - 2025-11-14

Added

  • Added option treat_markdown_warnings_as_error which throws an error when encountering a markdown/interpolation warning (#2792, #2751)
  • Footnotes can now be previewed by hovering over the link. (#2080)
  • The version selector now attempts to stay on the same page when switching between documentation versions. If the page doesn't exist in the target version, it falls back to the version homepage. (#2801)
  • Allow named @eval blocks: such a block shares its execution context with all other @eval, @example, @repl and @setup blocks on the same page which use the same name. (#2074, #2812)

Changed

  • Page category is removed from the search index and now everything is in section category. (#2762, #2413)
  • Changed the docstring block accordions from a custom implementation to HTML details+summary tag. (#2772, #2773)
  • Improved the search tokenizer and custom trimmer to improve search results. (#1457, #2114, #2744)
  • Improved several warning/error messages to (more accurately) report the location (filename, line range) in which the warning/error originated. (#2426, #2752, #2793, #2803, #2809)
  • Warn/error if jldoctest starts with an empty line; or lacks empty line between two REPL prompts. (#2031, #2083, #2679, #2808)
  • The forcepush=true option to deploydocs now uses --force-with-lease instead of --force. (#2817)
  • Improved the generation of anchors for admonitions in HTML output to be more stable and e.g. not change due to changes of the internal representation across different Julia versions. (#2710)

Fixed

  • Modules for @example environments are now generated by eval'ing an expression, rather than invoking the Module constructor, which is not recommended. (#2683)

  • Fix handling of expandfirst entries containing slashes as path separators on Windows. (#1725, #2804)

  • Changed the header crossref step to eagerly fail when encountering a non-unique header slug. (#2668, #2787)

    This is potentially breaking and may cause some documentation builds to fail. Those previously passed but generated incorrect cross-references. You can fix this by ensuring that you have distinct headers across your markdown pages, or by using the @id syntax to give the headers unique slugs.

  • Changed CSS for the navigation "breadcrumbs" at the top of each page to avoid an issue where code blocks in there were missing spacing around them. (#1614, #2813)

  • Commit status for pull request previews publishing in GitHub Actions for out-of-repo deployment now works correctly. (#2814, #2816)

  • Fix assertions resp. errors being raised in @example, @eval, @repl blocks that are empty or contain code with syntax errors. (#2206, #2731, #2827)

Version [v1.15.0] - 2025-10-22

Changed

  • Created a warning for when the search index size is too big (500Kib). (#2423, #2753)
  • In the HTML output, the search modal can now be navigated using up and down keys. (#2761)

Other

... (truncated)

Commits
  • 55b500f Set version to 1.16.1 (#2848)
  • 56c72d8 Guide users to use workspaces when setting up Documenter (#2830)
  • a8b1479 Removed superfluous vertical space at end of @docs blocks (#2849)
  • a397e12 Fix spacing in @docs blocks; don't expand details admonition by default (...
  • 050ce55 Pass -g option to curl in linkchecker (#2842)
  • 26d0051 Build Julia HTML manual in regression tests (#2724)
  • a9af48e Set version to 1.16.0 (#2841)
  • a0665d5 Update changelog (#2840)
  • 1aecd99 Restore cd inside @eval, and add a test for it (#2837)
  • 4b6ff9d Add syntax highlight tags to docs/src/man/other-formats.md (#2838)
  • Additional commits viewable in compare view

Updates LiveServer to 1.5.0

Release notes

Sourced from LiveServer's releases.

v1.5.0

LiveServer v1.5.0

Diff since v1.4.0

Merged pull requests:

Closed issues:

  • Website with docs not working (#186)
  • Preventing refresh after making edit to files? (#196)
Commits

Updates DocumenterTools to 0.1.21

Release notes

Sourced from DocumenterTools's releases.

v0.1.21

DocumenterTools v0.1.21

Diff since v0.1.20

Merged pull requests:

Changelog

Sourced from DocumenterTools's changelog.

Version [v0.1.21] -- 2025-10-28

Other

  • The package now requires at least Julia 1.10. (#99)
  • The package now supports OpenSSH_jll v10. (#97, #99)

Version [v0.1.20] -- 2024-09-24

Changed

  • Allow OpenSSH_jll 9 as dependency. (#74, #91)
  • Git.jl is now used (instead of git from the system) for running git commands. (#70, #92)

Version [v0.1.19] -- 2024-01-28

Changed

  • Update the instructions about the GitHub interface genkeys prints. (#84, #85)

Version [v0.1.18] -- 2023-09-27

Changed

  • Declare compatibility with Documenter 1.0. (#80, #81)

Version [v0.1.17] -- 2023-06-29

Changed

  • The compiled CSS files generated by DocumenterTools are now minified. (#71)

Version [v0.1.16] -- 2022-09-14

Fixed

  • DocumenterTools now runs ssh-keygen in a temporary directory (rather than current working directory), avoiding issues with filesystem permissions or existing files. (#64, #65)

Version [v0.1.15] -- 2022-07-24

Changed

  • Declare compatibility with DocStringExtensions 0.9. (#59)
  • Declare compatibility with AbstractTrees 0.4. (#60)

Version [v0.1.14] -- 2022-05-08

Changed

... (truncated)

Commits

Updates FiniteVolumeMethod1D to 1.1.4

Release notes

Sourced from FiniteVolumeMethod1D's releases.

v1.1.4

Full Changelog: v1.1.3...v1.1.4

Commits

Updates SciMLBase to 2.128.0

Release notes

Sourced from SciMLBase's releases.

v2.128.0

SciMLBase v2.128.0

Diff since v2.127.0

Merged pull requests:

Commits
  • cb77833 Update Project.toml
  • 037518f Merge pull request #1181 from SciML/unitfulvalue
  • 35e1992 fix unitfulvalue shadowing
  • 8a5ed89 Merge pull request #1180 from SciML/dependabot/github_actions/actions/checkout-6
  • a93c746 Bump actions/checkout from 4 to 6
  • e414904 Merge pull request #1175 from abhro/link-https
  • c274d72 Merge pull request #1177 from abhro/bvp-docstrings
  • 30d2205 Merge pull request #1178 from abhro/docstring-md-list
  • 5410e38 Make struct field docs single-line
  • 240182e Make boundary condition specs for BVPs clearer
  • Additional commits viewable in compare view

Updates NonlinearSolve to 4.12.0

Release notes

Sourced from NonlinearSolve's releases.

v4.12.0

NonlinearSolve v4.12.0

Diff since v4.11.0

Merged pull requests:

Closed issues:

  • SCC does not transfer residuals to solution object (#706)
Commits

Updates LinearSolve to 3.48.0

Release notes

Sourced from LinearSolve's releases.

v3.48.0

LinearSolve v3.48.0

Diff since v3.47.0

Merged pull requests:

Commits
  • 0c0f1e4 Update version from 3.47.0 to 3.48.0
  • cf2c23b Merge pull request #832 from SciML/dependabot/github_actions/actions/checkout-6
  • 9223658 Bump actions/checkout from 4 to 6
  • 1cff753 Merge pull request #829 from jClugstor/blas_errors_fix
  • 77330fe remove unused ErrorLevel export
  • 2e107ba change errors to warnlevel
  • 5c87a24 Merge pull request #828 from ChrisRackauckas-Claude/fix-sparse-cuda-defaults-827
  • f6c26d8 Check cudss_loaded() and error instead of falling back to Krylov
  • a0668de Apply JuliaFormatter with SciMLStyle to changed files
  • aca3737 Fix default algorithm for sparse CUDA matrices to LUFactorization
  • Additional commits viewable in compare view

Updates DomainSets to 0.7.16

Release notes

Sourced from DomainSets's releases.

v0.7.16

DomainSets v0.7.16

Diff since v0.7.15

  • update compat entry for Makie
  • move rand to extension package

Merged pull requests:

Closed issues:

  • Don't use ×? (#67)
  • Don't export jacobian (#87)
  • Factor out Map's (#92)
  • Fix codecov (#164)
Commits
  • b68ee03 Merge pull request #172 from jaakkor2/compatsForMakie
  • 50473d0 Merge pull request #174 from JuliaApproximation/dh/randext
  • 66a6ed9 move random to extension
  • bdd8e76 Add compat for Makie 0.23, 0.24
  • 793535e version bump
  • a53aebc Merge pull request #170 from jaakkor2/makie0p22
  • f598cf1 Add compat for Makie 0.22
  • 5f55dd6 Merge pull request #169 from jishnub/jishnub/CI_lts
  • ebc9c88 Use setup julia v2 in CI
  • 2724337 Merge pull request #168 from jishnub/jishnub/CI_lts
  • Additional commits viewable in compare view

Updates ReferenceTests to 0.10.6

Commits

Updates CairoMakie to 0.15.7

Commits

Updates MethodOfLines to 0.11.9

Commits

Updates OrdinaryDiffEq to 6.103.0

Release notes

Sourced from OrdinaryDiffEq's releases.

v6.103.0

OrdinaryDiffEq v6.103.0

Diff since v6.102.1

Merged pull requests:

Closed issues:

  • Efficient implementation of Gauss Collocation (#1004)
  • Standardize fields in AbstractDiffEqInterpolation (#2750)
  • Big slowdown and type instabilities of AD through ODE solver (#2837)
  • Automated linearization of ODEProblems with Linearize (#2874)
  • Example in OrdinaryDiffEqLinear documentation does not run (#2877)
  • using print callback saves solution vector (even when save_everystep=false) (#2882)
  • CI tests fail due to precompilation errors in OrdinaryDiffEq.jl et co (#2887)
Commits
  • c46429d Bump version from 6.102.1 to 6.103.0
  • 01f6703 Update OrdinaryDiffEq.jl
  • 701061a Merge pull request #2896 from KeshavVenkatesh/rkv76iia_3
  • 3e7b6d6 Removing mismatched tableaus
  • 8086a25 Merge pull request #2878 from KeshavVenkatesh/rkv76iia
  • 631d34d Update lib/OrdinaryDiffEqVerner/test/ode_verner_tests.jl
  • 8bbbe55 Update Project.toml
  • 748393b Update lib/OrdinaryDiffEqVerner/test/ode_verner_tests.jl
  • fad6914 Update lib/OrdinaryDiffEqVerner/test/ode_verner_tests.jl
  • 6f7f733 Update lib/OrdinaryDiffEqVerner/test/ode_verner_tests.jl
  • Additional commits viewable in compare view

Updates ModelingToolkit to 10.30.0

Release notes

Sourced from ModelingToolkit's releases.

v10.30.0

ModelingToolkit v10.30.0

Diff since v10.29.0

Merged pull requests:

Closed issues:

  • JuMP/InfiniteOpt dynamic optimization interface issues with parameter estimation (#3939)
Changelog

Sourced from ModelingToolkit's changelog.

ModelingToolkit v10 Release Notes

Callbacks

Callback semantics have changed.

  • There is a new Pre operator that is used to specify which values are before the callback. For example, the affect A ~ A + 1 should now be written as A ~ Pre(A) + 1. This is required to be specified - A ~ A + 1 will now be interpreted as an equation to be satisfied after the callback (and will thus error since it is unsatisfiable).

  • All parameters that are changed by a callback must be declared as discrete parameters to the callback constructor, using the discrete_parameters keyword argument.

event = SymbolicDiscreteCallback(
    [t == 1] => [p ~ Pre(p) + 1], discrete_parameters = [p])

New mtkcompile and @mtkcompile

structural_simplify is now renamed to mtkcompile. @mtkbuild is renamed to @mtkcompile. Their functionality remains the same. However, instead of a second positional argument structural_simplify(sys, (inputs, outputs)) the inputs and outputs should be specified via keyword arguments as mtkcompile(sys; inputs, outputs, disturbance_inputs).

Reduce reliance on metadata in mtkcompile

Previously, mtkcompile (formerly structural_simplify) used to rely on the metadata of symbolic variables to identify variables/parameters/brownians. This was regardless of what the system expected the variable to be. Now, it respects the information in the system.

Unified System type

There is now a single common System type for all types of models except PDEs, for which PDESystem still exists. It follows the same syntax as ODESystem and NonlinearSystem did. System(equations, t[, vars, pars]) will construct a time-dependent system. System(equations[, vars, pars]) will construct a time-independent system. Refer to the docstring for System for further information.

Utility constructors are defined for:

  • NonlinearSystem(sys) to convert a time-dependent system to a time-independent one for its steady state.
  • SDESystem(sys, noise_eqs) to add noise to a system
  • JumpSystem(jumps, ...) to define a system with jumps. Note that normal equations can also be passed to jumps.
  • OptimizationSystem(cost, ...) to define a system for optimization.

All problem constructors validate that the system matches the expected structure for

... (truncated)

Commits
  • 5a49e93 Merge pull request #4035 from SciML/as/bump-version-1
  • bbc6c15 build: bump minor version
  • e8ff564 Merge pull request #4017 from SebastianM-C/smc/dynopt
  • ed73524 Merge pull request #4033 from SciML/distinputs
  • 7d99618 extend from the correct package
  • 90d2f8c Merge pull request #4032 from SciML/dependabot/github_actions/actions/checkout-6
  • ee4dbf3 Merge pull request #4034 from SciML/fix_hybrid_jump_test_bug
  • 074b85e Fix test bug for hybrid jump tests
  • 111ec0e increase flexibility in disturbance-argument codegen
  • 58388bd build(deps): bump actions/checkout from 4 to 6
  • Additional commits viewable in compare view

Updates SpecialFunctions to 2.6.1

Release notes

Sourced from SpecialFunctions's releases.

v2.6.1

SpecialFunctions v2.6.1

Diff since v2.6.0

Merged pull requests:

Closed issues:

  • Julia 1.12 / JET v0.10.7 warns that local variable nadj may be undefined (#502)
Commits

Updates SafeTestsets to 0.1.0

Release notes

Sourced from SafeTestsets's releases.

v0.1.0

SafeTestsets v0.1.0

Diff since v0.0.1

Closed issues:

  • Macro in test undefined (#3)
  • Using include() with a computed value (#7)

Merged pull requests:

Commits
  • f7897d5 Update Project.toml
  • 4cc3962 Update Project.toml
  • 4b6882e Update Project.toml
  • 36da15d Merge pull request #9 from YingboMa/myb/onemorelevel
  • 08d1b17 Update README.md
  • 5f24b73 Make inline testing backward compatible
  • 667b675 Merge pull request #8 from staticfloat/sf/modern_project_toml
  • ab306b0 Update package to moden Julia Project.toml format
  • e553edc Merge pull request #2 from JuliaTagBot/master
  • f4714be Install TagBot as a GitHub Action
  • Additional commits viewable in compare view

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@dependabot
Bump the all-julia-packages group across 2 directories with 15 updates
529a0d9 
Updates the requirements on [Documenter](https://github.com/JuliaDocs/Documenter.jl), [LiveServer](https://github.com/JuliaDocs/LiveServer.jl), [DocumenterTools](https://github.com/JuliaDocs/DocumenterTools.jl), [FiniteVolumeMethod1D](https://github.com/SciML/FiniteVolumeMethod1D.jl), [SciMLBase](https://github.com/SciML/SciMLBase.jl), [NonlinearSolve](https://github.com/SciML/NonlinearSolve.jl), [LinearSolve](https://github.com/SciML/LinearSolve.jl), [DomainSets](https://github.com/JuliaApproximation/DomainSets.jl), [ReferenceTests](https://github.com/JuliaTesting/ReferenceTests.jl), [CairoMakie](https://github.com/MakieOrg/Makie.jl), [MethodOfLines](https://github.com/SciML/MethodOfLines.jl), [OrdinaryDiffEq](https://github.com/SciML/OrdinaryDiffEq.jl), [ModelingToolkit](https://github.com/SciML/ModelingToolkit.jl), [SpecialFunctions](https://github.com/JuliaMath/SpecialFunctions.jl) and [SafeTestsets](https://github.com/YingboMa/SafeTestsets.jl) to permit the latest version.

Updates `Documenter` to 1.16.1
- [Release notes](https://github.com/JuliaDocs/Documenter.jl/releases)
- [Changelog](https://github.com/JuliaDocs/Documenter.jl/blob/master/CHANGELOG.md)
- [Commits](JuliaDocs/Documenter.jl@v0.1.0...v1.16.1)

Updates `LiveServer` to 1.5.0
- [Release notes](https://github.com/JuliaDocs/LiveServer.jl/releases)
- [Commits](JuliaDocs/LiveServer.jl@v0.1.0...v1.5.0)

Updates `DocumenterTools` to 0.1.21
- [Release notes](https://github.com/JuliaDocs/DocumenterTools.jl/releases)
- [Changelog](https://github.com/JuliaDocs/DocumenterTools.jl/blob/master/CHANGELOG.md)
- [Commits](JuliaDocs/DocumenterTools.jl@v0.1.0...v0.1.21)

Updates `FiniteVolumeMethod1D` to 1.1.4
- [Release notes](https://github.com/SciML/FiniteVolumeMethod1D.jl/releases)
- [Commits](v1.1.0...v1.1.4)

Updates `SciMLBase` to 2.128.0
- [Release notes](https://github.com/SciML/SciMLBase.jl/releases)
- [Commits](SciML/SciMLBase.jl@v1.0.0...v2.128.0)

Updates `NonlinearSolve` to 4.12.0
- [Release notes](https://github.com/SciML/NonlinearSolve.jl/releases)
- [Commits](SciML/NonlinearSolve.jl@SCCNonlinearSolve-v1.1.0...v4.12.0)

Updates `LinearSolve` to 3.48.0
- [Release notes](https://github.com/SciML/LinearSolve.jl/releases)
- [Commits](SciML/LinearSolve.jl@v0.1.0...v3.48.0)

Updates `DomainSets` to 0.7.16
- [Release notes](https://github.com/JuliaApproximation/DomainSets.jl/releases)
- [Commits](JuliaApproximation/DomainSets.jl@v0.0.1...v0.7.16)

Updates `ReferenceTests` to 0.10.6
- [Release notes](https://github.com/JuliaTesting/ReferenceTests.jl/releases)
- [Commits](https://github.com/JuliaTesting/ReferenceTests.jl/commits)

Updates `CairoMakie` to 0.15.7
- [Release notes](https://github.com/MakieOrg/Makie.jl/releases)
- [Changelog](https://github.com/MakieOrg/Makie.jl/blob/master/CHANGELOG.md)
- [Commits](https://github.com/MakieOrg/Makie.jl/commits)

Updates `MethodOfLines` to 0.11.9
- [Release notes](https://github.com/SciML/MethodOfLines.jl/releases)
- [Commits](https://github.com/SciML/MethodOfLines.jl/commits)

Updates `OrdinaryDiffEq` to 6.103.0
- [Release notes](https://github.com/SciML/OrdinaryDiffEq.jl/releases)
- [Commits](SciML/OrdinaryDiffEq.jl@v0.0.1...v6.103.0)

Updates `ModelingToolkit` to 10.30.0
- [Release notes](https://github.com/SciML/ModelingToolkit.jl/releases)
- [Changelog](https://github.com/SciML/ModelingToolkit.jl/blob/master/NEWS.md)
- [Commits](SciML/ModelingToolkit.jl@v0.0.1...v10.30.0)

Updates `SpecialFunctions` to 2.6.1
- [Release notes](https://github.com/JuliaMath/SpecialFunctions.jl/releases)
- [Commits](JuliaMath/SpecialFunctions.jl@v0.0.1...v2.6.1)

Updates `SafeTestsets` to 0.1.0
- [Release notes](https://github.com/YingboMa/SafeTestsets.jl/releases)
- [Commits](YingboMa/SafeTestsets.jl@v0.0.1...v0.1.0)

---
updated-dependencies:
- dependency-name: Documenter
  dependency-version: 1.16.1
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: LiveServer
  dependency-version: 1.5.0
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: DocumenterTools
  dependency-version: 0.1.21
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: FiniteVolumeMethod1D
  dependency-version: 1.1.4
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: SciMLBase
  dependency-version: 2.128.0
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: NonlinearSolve
  dependency-version: 4.12.0
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: LinearSolve
  dependency-version: 3.48.0
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: DomainSets
  dependency-version: 0.7.16
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: ReferenceTests
  dependency-version: 0.10.6
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: CairoMakie
  dependency-version: 0.15.7
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: MethodOfLines
  dependency-version: 0.11.9
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: OrdinaryDiffEq
  dependency-version: 6.103.0
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: ModelingToolkit
  dependency-version: 10.30.0
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: SpecialFunctions
  dependency-version: 2.6.1
  dependency-type: direct:production
  dependency-group: all-julia-packages
- dependency-name: SafeTestsets
  dependency-version: 0.1.0
  dependency-type: direct:production
  dependency-group: all-julia-packages
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot dependabot bot added dependencies Pull requests that update a dependency file julia Pull requests that update julia code labels Dec 2, 2025
@DanielVandH
Remove JULIA_NUM_THREADS from CI workflow
730d95d 
Removed JULIA_NUM_THREADS environment variable from CI job.
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dependabot bot commented on behalf of github Dec 11, 2025

Dependabot tried to update this pull request, but something went wrong. We're looking into it, but in the meantime you can retry the update by commenting @dependabot recreate.

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Dependabot tried to update this pull request, but something went wrong. We're looking into it, but in the meantime you can retry the update by commenting @dependabot recreate.

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dependabot bot commented on behalf of github Dec 29, 2025

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

@dependabot dependabot bot closed this Dec 30, 2025
@dependabot dependabot bot deleted the dependabot/julia/docs/all-julia-packages-d04729437b branch December 30, 2025 00:00
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