chore(deps): Bump the python-dependencies group across 1 directory with 3 updates

[dependabot]

Updates the requirements on ruff, numpy and mcp to permit the latest version.
Updates ruff to 0.16.3

Release notes

Sourced from ruff's releases.

0.16.3

Release Notes

Released on 2026-08-13.

Preview features

• [pylint] Fix false negatives on negative numbers (PLR6104) (#27251)
• [pyupgrade] Add rule to replace while 1 with while True (UP048) (#27190)

Bug fixes

• [flake8-bandit] Also check keyword arguments (S602, S603, S607, S609) (#27687)
• [pylint] Allow continue in finally on Python 3.8 (#27626)
• [pylint] Fix PLE1307 false positive with bools (#27651)
• [pylint] Fix false positives and negatives with %b format character (PLE1300, PLE1307) (#27560)
• [pylint] Improve handling of concatenated strings (PLE1300) (#27659)

Rule changes

• [numpy] Make np.chararray autofix backwards-compatible (NPY201) (#27527)

Performance

• Enable PGO for Linux x86-64 Ruff releases (#27570)
• Enable PGO for Linux ARM64 Ruff releases (#27574)
• Enable PGO for Windows x86-64 Ruff releases (#27573)
• Enable PGO for macOS ARM64 Ruff releases (#27572)
• Reduce Expr size to 64 bytes (#27591)

CLI

• Hyperlink rule codes in ruff check --statistics output (#27646)

Documentation

• [ruff] Also suggest asyncio.TaskGroup (RUF006) (#27461)

Other changes

• Use mimalloc v3 (#27586)

Contributors

• @​Andrej730
• @​alonfaraj
• @​romero-deshaw
• @​Avasam
• @​tjkuson
• @​charliermarsh

... (truncated)

Changelog

Sourced from ruff's changelog.

0.16.3

Released on 2026-08-13.

Preview features

• [pylint] Fix false negatives on negative numbers (PLR6104) (#27251)
• [pyupgrade] Add rule to replace while 1 with while True (UP048) (#27190)

Bug fixes

• [flake8-bandit] Also check keyword arguments (S602, S603, S607, S609) (#27687)
• [pylint] Allow continue in finally on Python 3.8 (#27626)
• [pylint] Fix PLE1307 false positive with bools (#27651)
• [pylint] Fix false positives and negatives with %b format character (PLE1300, PLE1307) (#27560)
• [pylint] Improve handling of concatenated strings (PLE1300) (#27659)

Rule changes

• [numpy] Make np.chararray autofix backwards-compatible (NPY201) (#27527)

Performance

• Enable PGO for Linux x86-64 Ruff releases (#27570)
• Enable PGO for Linux ARM64 Ruff releases (#27574)
• Enable PGO for Windows x86-64 Ruff releases (#27573)
• Enable PGO for macOS ARM64 Ruff releases (#27572)
• Reduce Expr size to 64 bytes (#27591)

CLI

• Hyperlink rule codes in ruff check --statistics output (#27646)

Documentation

• [ruff] Also suggest asyncio.TaskGroup (RUF006) (#27461)

Other changes

• Use mimalloc v3 (#27586)

Contributors

• @​Andrej730
• @​alonfaraj
• @​romero-deshaw
• @​Avasam
• @​tjkuson
• @​charliermarsh
• @​chirizxc

... (truncated)

Commits

• b0e4702 Bump 0.16.3 (#27723)
• ecdd401 [ty] Separate script and uv modules from project metadata (#27720)
• 1263524 [ty] Simplify display implementations with std::fmt::from_fn (#27718)
• 59196ba [ty] Unify polarity-aware relation construction (#27707)
• b8c5e73 [ty] Disable CodSpeed cycle estimation for instrumented benchmarks (#27706)
• 2b0d210 [ty] Centralize matched argument relations (#27705)
• a9130f3 [pyupgrade] Add rule to replace while 1 with while True (while-one, `...
• c64c7d6 [ty] Model try exception flow with operation checkpoints (#27471)
• 9dea5ef [ty] Avoid deriving sequents for typevars with concrete bounds (#27587)
• 9798e88 [ty] Preserve enum exhaustiveness with custom missing methods (#27700)
• Additional commits viewable in compare view

Updates numpy to 2.5.2

Release notes

Sourced from numpy's releases.

v2.5.2 (Aug 9, 2026)

NumPy 2.5.2 Release Notes

The NumPy 2.5.2 is a patch release that fixes bugs discovered after the 2.5.1 release. The big news is that it includes wheels for the newly released Python 3.15.0rc1.

This release supports Python versions 3.12-3.15

C API changes

PyArray_StringDTypeObject is opaque under the abi3t stable ABI

The PyArray_StringDTypeObject was accidentally exposed in NumPy 2.5 when targeting the free-threading-compatible stable ABI (Py_TARGET_ABI3T). PyArray_StringDTypeObject is now an opaque struct: extensions compiled that way cannot access its fields, since the struct layout depends on the size of the object header. Any code that accessed PyArray_StringDTypeObject fields in an abi3t build would have crashed, so we are making this API change in a bugfix release.

The NpyString allocator API remains usable by passing the descriptor object pointer, e.g. NpyString_acquire_allocator((PyArray_StringDTypeObject *)descr).

(gh-31771)

Contributors

A total of 16 people contributed to this release. People with a "+" by their names contributed a patch for the first time.

• Abhijeetsingh Meena +
• Charalampos Stratakis
• Charles Harris
• Chris Ninham +
• David Woods
• Geonho +
• Gopu Yeshwanth Reddy +
• Iason Krommydas
• Ijtihed Kilani
• Jelle Zijlstra +
• Joren Hammudoglu
• Kumar Aditya
• Mike Boyle
• Nathan Goldbaum
• Raghuveer Devulapalli
• Sebastian Berg

... (truncated)

Changelog

Sourced from numpy's changelog.

This is a walkthrough of the NumPy 2.4.0 release on Linux, which will be the first feature release using the numpy/numpy-release <https://github.com/numpy/numpy-release>__ repository.

The commands can be copied into the command line, but be sure to replace 2.4.0 with the correct version. This should be read together with the :ref:general release guide <prepare_release>.

Facility preparation

Before beginning to make a release, use the requirements/*_requirements.txt files to ensure that you have the needed software. Most software can be installed with pip, but some will require apt-get, dnf, or whatever your system uses for software. You will also need a GitHub personal access token (PAT) to push the documentation. There are a few ways to streamline things:

• Git can be set up to use a keyring to store your GitHub personal access token. Search online for the details.

Prior to release

Add/drop Python versions

When adding or dropping Python versions, multiple config and CI files need to be edited in addition to changing the minimum version in pyproject.toml. Make these changes in an ordinary PR against main and backport if necessary. We currently release wheels for new Python versions after the first Python RC once manylinux and cibuildwheel support that new Python version.

Backport pull requests

Changes that have been marked for this release must be backported to the maintenance/2.4.x branch.

Update 2.4.0 milestones

Look at the issues/prs with 2.4.0 milestones and either push them off to a later version, or maybe remove the milestone. You may need to add a milestone.

Check the numpy-release repo

... (truncated)

Commits

• 48fecee REL: Prepare for the NumPy 2.5.2 release (#32226)
• ecf599c Merge pull request #32221 from charris/backport-32151
• 3c7ac97 Merge pull request #32220 from charris/backport-32205
• 23b30f4 BUG: avoid segfaults when legacy copyswap slot is not defined (#32151)
• 4964ca8 TYP: isclose shape-typing fix for 2d array-likes (#32205)
• c37ed94 MAINT: Skip limited_api tests on some platforms. (#32214)
• 5cfd73b Merge pull request #32206 from charris/update-cibuildwheel
• d8262bc MAINT: Update cibuildwheel to v4.2.0
• 988d94d Merge pull request #32158 from charris/backport-32133
• b2e4f97 BUG: avoid possible stack overflow in arraydescr_dealloc (#32133)
• Additional commits viewable in compare view

Updates mcp to 2.0.0

Release notes

Sourced from mcp's releases.

v2.0.0

MCP Python SDK v2 Stable Release

This is v2.0.0, the stable v2 release of the MCP Python SDK. It supports the 2026-07-28 revision of the Model Context Protocol and serves every earlier revision from the same server. pip install mcp now installs 2.x.

pip install "mcp[cli]"
# or
uv add "mcp[cli]"

Documentation Rewrite

The documentation has the full tutorial and API reference. Coming from v1? What's new in v2 is the tour of what changed and why, and the migration guide lists every breaking change with before-and-after code.

V1 Maintenance mode

v1.x is in maintenance mode and will only receive security fixes from now on The 1.x line lives on the v1.x branch, continues to receive critical bug fixes and security patches, and is documented at https://py.sdk.modelcontextprotocol.io/v1/. If your project is not ready to migrate, keep a <2 upper bound on your requirement (for example mcp>=1.28,<2).

Highlights

One SDK, both protocol eras

v2 speaks the 2026-07-28 revision (stateless requests with no handshake, server/discover, subscriptions/listen, multi-round-trip requests) and still serves every 2025-era client from the same MCPServer, over Streamable HTTP and stdio, with nothing to configure. Client(target) negotiates the version automatically.

FastMCP is now MCPServer, and there is a first-class Client

The decorator API is unchanged; the low-level Server is rebuilt around a shared dispatcher engine, and one Client object replaces v1's transport-plus-ClientSession-plus-initialize() layering. It connects to a URL, a stdio subprocess, a custom transport, or straight to a server object in memory for tests.

Multi-round-trip requests and resolver dependency injection

At 2026-07-28 the server can no longer call the client, so tools return the question instead. A Resolve(fn) parameter is filled by your function invisibly to the model and can put a question to the user; one tool body serves both eras.

Extension APIs, OpenTelemetry, and a standalone types package

Servers and clients compose protocol extensions through pluggable extension APIs (MCP Apps built in); OpenTelemetry tracing ships on by default; every protocol type is its own package, mcp-types (imported as mcp_types), published in lock-step with mcp.

Hardened stdio and auth

stdio servers keep handler subprocesses and stray prints off the wire, and stdout is diverted to stderr while serving. OAuth adds RFC 9207 issuer validation, the SEP-990 identity-assertion flow, and the client-credentials extension.

Coming from a v2 pre-release

Since the last release candidate: the per-version wire packages are private (mcp_types._v*), mcp.types is a permanent alias for mcp_types, the auth registration request model is split from the registered-client record, cancelled requests are no longer answered, and log notifications are gated on the per-request log-level opt-in at 2026-07-28. Since the betas: Client(cache=False) is now cache=None with CacheConfig() the default; Context.client_id, RFC7523OAuthClientProvider, and OAuthClientProvider(timeout=) are removed; the client-credentials providers take scope=; message_handler receives notifications and exceptions only; FileResource(is_binary=) becomes encoding; MCP_* env vars are gone with pydantic-settings; Streamable HTTP servers reject bodies over 4 MiB with HTTP 413. The migration guide covers all of it.

Known gaps

The tasks extension (SEP-2663) is not part of this release. On the client, the DPoP proof binding (SEP-1932) and the workload-identity jwt-bearer grant are not implemented; both are additive and can land in 2.x.

Feedback

... (truncated)

Commits

• 6f69a37 Present v2 as the stable release across the README, docs, and policies (#3178)
• 78e6fbb Serve v2 docs at the site root, with permanent per-major paths (#3176)
• af06330 Remove unused StreamableHTTPTransport.get_session_id() (#3205)
• 68ca87e Document the two-line release process for stable v2 (#3179)
• c9c431b Expose the middleware chain on MCPServer and stop sending unrequested change ...
• 528e366 Fail fast on server-to-client requests in JSON-response mode instead of hangi...
• 27f5cc7 Remove unused mcpserver.exceptions.ValidationError (#3199)
• 89c5e70 Gate log notifications on the per-request log-level opt-in at 2026-07-28 (#3198)
• b61ce38 docs: fix off-by-one hl_lines in apps.md (#3196)
• b7c9a91 Add mcp.types as a permanent alias for mcp_types (#3190)
• Additional commits viewable in compare view

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[arapov]

Superseded by the mcp 2.0 migration on master: mcp_server.py now uses mcp.server.mcpserver.MCPServer (the renamed FastMCP), and the same floors this PR proposed (numpy 2.5.2, mcp>=2.0.0,<3.0.0, ruff ^0.16.3) landed with it — with green CI, which this PR couldn't have without the code change.

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