[smart_holder] Fix terrible merge accident: `PYBIND11_INTERNALS_SH_DEF` missing in `PYBIND11_INTERNALS_ID` and `PYBIND11_MODULE_LOCAL_ID` (#5159)

* Fix oversight: Add `-DCMAKE_CXX_FLAGS="-DPYBIND11_USE_SMART_HOLDER_AS_DEFAULT"` for new `manylinux` job (Manylinux on 🐍 3.13t • GIL).

* Fix terrible merge accident introduced with pybind/pybind11#5085: `PYBIND11_INTERNALS_SH_DEF` was accidentally removed from `PYBIND11_INTERNALS_ID` and `PYBIND11_MODULE_LOCAL_ID`.

* Add a pybing function to clear a list.

* Add required error handling.

* Add `/* py-non-const */` as suggested by @Skylion007

---------

Co-authored-by: Ralf W. Grosse-Kunstleve <rwgk@google.com>

* fix(cmake): do not use Python::Interpreter when cross-compiling

* chore: apply cmake-format to pybind11NewTools.cmake

* fix(cmake): do not look for Python Interpreter component when cross-compiling

* feat(cmake): guess Python extension suffix

* fix: add pybind11GuessPythonExtSuffix.cmake to packaging test

* Use PYBIND11_CROSSCOMPILING instead of CMAKE_CROSSCOMPILING

* refactor: require PYBIND11_USE_CROSSCOMPILING

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

---------

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>
Co-authored-by: Henry Schreiner <henryschreineriii@gmail.com>

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.4.5 → v0.4.7](https://github.com/astral-sh/ruff-pre-commit/compare/v0.4.5...v0.4.7

)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* ci: try Python 3.13t

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* fix: support Python 3.13t

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* fix: patch PyPy

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* tests: one more int cast

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* tests: cleanup

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* refactor: use named constant in tests for immortal refcounts

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* docs: move comment about free threaded Python

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

---------

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* Added check on iterator end position

* Always use assert without conditional check

* Addressing code review comments

* style: pre-commit fixes

* Remove assert and throw

* Changed style slightly

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

* ci: add Python 3.13

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* tests: run the gc for 3.13+

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* Revert "tests: run the gc for 3.13+"

This reverts commit fe8a3ce3d133f69582e8244b737456ff57559e55.

* ci: drop macos ARM for now, need pin updates

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* fix: use Python 3.13 API if on 3.13

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

---------

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

updated-dependencies:
- dependency-name: requests
  dependency-type: indirect
...

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* chore(deps): update pre-commit hooks

updates:
- [github.com/pre-commit/mirrors-clang-format: v18.1.2 → v18.1.4](https://github.com/pre-commit/mirrors-clang-format/compare/v18.1.2...v18.1.4)
- [github.com/astral-sh/ruff-pre-commit: v0.3.5 → v0.4.3](https://github.com/astral-sh/ruff-pre-commit/compare/v0.3.5...v0.4.3)
- [github.com/pre-commit/mirrors-mypy: v1.9.0 → v1.10.0](https://github.com/pre-commit/mirrors-mypy/compare/v1.9.0...v1.10.0)
- [github.com/pre-commit/pre-commit-hooks: v4.5.0 → v4.6.0](https://github.com/pre-commit/pre-commit-hooks/compare/v4.5.0...v4.6.0)
- [github.com/python-jsonschema/check-jsonschema: 0.28.1 → 0.28.2](https://github.com/python-jsonschema/check-jsonschema/compare/0.28.1...0.28.2

)

* style: pre-commit fixes

* Update .pre-commit-config.yaml

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Henry Schreiner <HenrySchreinerIII@gmail.com>

* chore(deps): bump the actions group with 1 update

Bumps the actions group with 1 update: [actions/labeler](https://github.com/actions/labeler).


Updates `actions/labeler` from 4 to 5
- [Release notes](https://github.com/actions/labeler/releases)
- [Commits](https://github.com/actions/labeler/compare/v4...v5

)

---
updated-dependencies:
- dependency-name: actions/labeler
  dependency-type: direct:production
  update-type: version-update:semver-major
  dependency-group: actions
...

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* ci: fix labeler

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* ci: move eigen to 64-bit only

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

---------

Signed-off-by: dependabot[bot] <support@github.com>
Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Henry Schreiner <henryschreineriii@gmail.com>

Bumps [jinja2](https://github.com/pallets/jinja) from 3.1.3 to 3.1.4.
- [Release notes](https://github.com/pallets/jinja/releases)
- [Changelog](https://github.com/pallets/jinja/blob/main/CHANGES.rst)
- [Commits](https://github.com/pallets/jinja/compare/3.1.3...3.1.4

)

---
updated-dependencies:
- dependency-name: jinja2
  dependency-type: indirect
...

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

Bumps [idna](https://github.com/kjd/idna) from 3.6 to 3.7.
- [Release notes](https://github.com/kjd/idna/releases)
- [Changelog](https://github.com/kjd/idna/blob/master/HISTORY.rst)
- [Commits](https://github.com/kjd/idna/compare/v3.6...v3.7

)

---
updated-dependencies:
- dependency-name: idna
  dependency-type: indirect
...

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Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

Committed via https://github.com/asottile/all-repos

This was actually released in 2024!

This was noticed only when manually reviewing the diffs with the Google review tools.

* chore(deps): update pre-commit hooks

updates:
- [github.com/pre-commit/mirrors-clang-format: v17.0.6 → v18.1.2](https://github.com/pre-commit/mirrors-clang-format/compare/v17.0.6...v18.1.2)
- [github.com/astral-sh/ruff-pre-commit: v0.2.0 → v0.3.5](https://github.com/astral-sh/ruff-pre-commit/compare/v0.2.0...v0.3.5)
- [github.com/pre-commit/mirrors-mypy: v1.8.0 → v1.9.0](https://github.com/pre-commit/mirrors-mypy/compare/v1.8.0...v1.9.0)
- [github.com/Lucas-C/pre-commit-hooks: v1.5.4 → v1.5.5](https://github.com/Lucas-C/pre-commit-hooks/compare/v1.5.4...v1.5.5)
- [github.com/sirosen/texthooks: 0.6.4 → 0.6.6](https://github.com/sirosen/texthooks/compare/0.6.4...0.6.6)
- [github.com/shellcheck-py/shellcheck-py: v0.9.0.6 → v0.10.0.1](https://github.com/shellcheck-py/shellcheck-py/compare/v0.9.0.6...v0.10.0.1)
- [github.com/PyCQA/pylint: v3.0.3 → v3.1.0](https://github.com/PyCQA/pylint/compare/v3.0.3...v3.1.0)
- [github.com/python-jsonschema/check-jsonschema: 0.28.0 → 0.28.1](https://github.com/python-jsonschema/check-jsonschema/compare/0.28.0...0.28.1

)

* style: pre-commit fixes

* fix(types): correction for better typing

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

---------

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Henry Schreiner <henryschreineriii@gmail.com>

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* chore: prepare 2.12.0

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* docs: more info on numpy 2

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* docs: mention NumPy 2 in README

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* docs: add release date

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* docs: add 4955

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* Update changelog.rst

* docs: address review comments

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

---------

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* Call concat with proper namespace in cast.h

* Apply suggestions from code review

* tests: add test for ADL on concat

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

* fix: fully qualify all usages of concat

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

---------

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>
Co-authored-by: Henry Schreiner <HenrySchreinerIII@gmail.com>

* Transfer bug fixes from #4888 wholesale. Full test coverage for all fixes is still missing.

* Add cmake option(PYBIND11_DISABLE_HANDLE_TYPE_NAME_DEFAULT_IMPLEMENTATION) and use in some tests.

* API: Make `numpy.h` compatible with both NumPy 1.x and 2.x

* TST: Update numpy dtype flags test to not covert flags to char

* API: Add `numpy2.h` instead and make `numpy.h` safe

This means that users of `numpy.h` cannot be broken, but need to
update to `numpy2.h` if they want to compile for NumPy 2.

Using Macros simply and didn't bother to try to remove unnecessary
code paths.

* API: Rather than `numpy2.h` use a define for the user.

* Thread `PYBIND11_NUMPY2_SUPPORT` through things and try to adept test matrix

* Small fixups (shouldn't matter)?

* Fixup.  Does upgrading scipy help?  (it shouldn't?)

(Some other small fixup)

* Use NumPy 2 nightlies for ubuntu-latest job also

* BUG: Fix numpy.bool check

* TST: Fix complexwarning

* BUG: Fix the fact that only the 50 slot is filled with the copy alias

(There were 3 functions all doing the same, only this slot survived 2.x)

* TST: One more test tweak

* TST: Use "long" name for long, since it changed on windows

* TST: Apparently we didn't always have ulong, so just use `L`

* TST: Enforce dtype='l' for test as default isn't long anymore on windows

* Rename macro and invert logic to PYBIND11_NUMPY_1_ONLY

* PYBIND11_INTERNAL_NUMPY_1_ONLY_DETECTED

* Test and code comment expansion

* CI: Use pre-releases of numpy/scipy from pip via explicit version

* CI: NumPy 2 only available on almalinux (as it is Python >=3.9)

* MAINT: Match name more exactly and adopt error phrasing

* MAINT: Pushed early, move helper to be private member

* fix error message compilation when using NumPy 1.x-only backcompat

* silence name shadowing warning

* chore: minor optimization

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>

---------

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>
Co-authored-by: Ralf W. Grosse-Kunstleve <rwgk@google.com>
Co-authored-by: Henry Schreiner <henryschreineriii@gmail.com>

Signed-off-by: Henry Schreiner <henryschreineriii@gmail.com>