build: bring workspace dependencies up to date

[hkad98]

Brings the workspace dependency tree up to date in three commits. The first touches constraints, lock, hooks and CI versions only; the other two each pair a tool upgrade with the source changes it forces. pandas deliberately stays on 2.x.

What this implements

Three commits, each green on its own and each droppable on its own. 71 locked packages change version.

Ruff and ty are split out rather than folded into the dependency commit deliberately. Both force source changes, and pairing a bump with its own fallout is what keeps every commit independently passing. Folding ruff into the first would have left that commit red, since ruff 0.16 surfaces 89 findings in gooddata-pipelines.

$ git log --oneline master..HEAD
c35a0ced build: take ty 0.0.78 and work around astral-sh/ty#4016
cf701f34 build: move to ruff 0.16 and put gooddata-pipelines on the workspace config
f0c22a96 build: bring workspace dependencies up to date

declared constraint changes
  attrs                 >=21.4.0,<=24.2.0  ->  >=21.4.0,<=26.1.0    sdk, dbt
  cattrs                >=22.1.0,<=24.1.1  ->  >=22.1.0,<=26.1.0    sdk, dbt
  structlog             >=24.0.0,<25.0.0   ->  >=24.0.0,<=26.1.0    flight-server, flexconnect
  prometheus-client     ~=0.20.0           ->  ~=0.26.0             flight-server
  tabulate              ~=0.8.10           ->  >=0.8.10,<1.0.0      dbt
  pytest                ~=8.3.4            ->  ~=9.1.1              all members
  pytest-cov            ~=6.0.0            ->  ~=7.1.0              all members
  deepdiff              ~=8.5.0            ->  ~=9.1.0              sdk
  pytest-order          ~=1.3.0            ->  ~=1.5.0              root, sdk, pandas
  vcrpy                 ~=8.2.1            ->  ~=8.3.0              sdk, pandas, fdw
  urllib3               ~=2.6.0            ->  ~=2.7.0              sdk, pandas
  python-dotenv         ~=1.0.0            ->  ~=1.2.3              sdk, pandas
  pre-commit            ~=4.6.0            ->  ~=4.6.2              root
  ruff                  ~=0.15.20          ->  ~=0.16.6             root
  tox                   ~=4.56.1           ->  ~=4.61.2             root
  tox-uv-bare           ~=1.35.2           ->  ~=1.36.0             root
  ty                    ~=0.0.55           ->  ~=0.0.78             root

notable relocks, no constraint change needed
  gooddata-code-convertors  11.35.0a2 -> 11.55.0   off a pre-release onto a stable release
  pyarrow                   23.0.1    -> 25.0.1
  pydantic                  2.12.5    -> 2.13.5

hooks and CI
  pre-commit-hooks     v5.0.0  -> v6.0.0
  ruff-pre-commit      v0.15.20 -> v0.16.6     kept in step with the locked ruff
  uv-pre-commit        0.12.5  -> 0.12.9
  astral-sh/setup-uv   v7      -> v10.0.1      7 call sites across 5 workflows
  Sphinx (docs reqs)   ~=5.1.1 -> ~=9.1.0      pandas and fdw

Verification, run after each commit rather than only at the end:

$ make test
  40 tox environments across 8 packages, py310 through py314, all OK

$ make type-check && make test-docs-scripts
  All checks passed!
  92 passed

$ ruff check . && ruff format --check .
  All checks passed!
  574 files already formatted

$ sphinx-build -b html packages/gooddata-{pandas,fdw}/docs ...   # sphinx 9.1, not run by CI
  build succeeded, 61 warnings.
  build succeeded, 8 warnings.
  # warnings are pre-existing content issues (malformed markup, an autodoc
  # module-resolution complaint), not deprecations from the version jump

Decisions

1. pandas stays on 2.x.
3.0 is available but carries real API implications for gooddata-pandas, which is a data-frame library wrapping it.

• This PR stays a dependency bump rather than becoming a behaviour change.
• The pandas 3 migration keeps its own PR, its own test pass and its own reviewer.

2. ty goes to 0.0.78, and CatalogAttribute.find_label binds its result to a local to work around astral-sh/ty#4016.
From ty 0.0.60 that method errors with Attribute 'obj_id' is not defined on 'None' in union 'CatalogLabel | None', even though self.labels is declared list[CatalogLabel]. The None from the declared return type flows backwards through next's _T | _VT into filter's _T; list[CatalogLabel] is assignable to Iterable[CatalogLabel | None] by covariance, so nothing rejects it.

Reduced to 13 lines, clean on 0.0.59 and erroring on 0.0.78:

from typing import Union

class Label:
    obj_id: str

def find(labels: list[Label]) -> Union[Label, None]:
    return next(filter(lambda x: len(x.obj_id) > 0, labels), None)

Four things must coincide: a declared T | None return type, the next(..., None) wrapper, a filter with a lambda, and the attribute access appearing as an argument to a nested call. That last one is easy to miss:

x.obj_id                      passes
x.obj_id == "a"               passes
len(x.obj_id) > 0             errors
id_obj_to_key(x.obj_id) == k  errors   <- the real code

• Upstream is ty#4016: open, milestone Stable, labels generics / bidirectional inference / callables, reported against 0.0.60 which matches the bisect. Not fixed on main as of 0.0.78. The real fix is an Astral draft PR touching 42 files, so waiting is not a plan and a new report would duplicate.
• The fix is to bind the result to a local, which removes the declared return type as type context. No cast, no suppression, and the local still infers as CatalogLabel | None, so type safety is unchanged. The comment at the site links the issue and says to inline it again once fixed.
• This is still shaping source around a checker defect. A local binding reads as ordinary code where a cast or a noqa would not, but if you would rather hold ty instead, this commit drops on its own.
• Two real cleanups the newer ty found: an unused blanket # type: ignore on the pyarrow ipc fallback, and a redundant cast(bytes, ...) around download_blob().readall() whose typing.cast import was then unused. See packages/gooddata-sdk/src/gooddata_sdk/catalog/workspace/entity_model/content_objects/dataset.py.

3. setup-uv is pinned to the exact tag v10.0.1, not to v10.
Most actions publish a moving tag per major version: @v7 points at a v7 tag the maintainer re-points at each new 7.x, so you get patches without editing the workflow. setup-uv did that up to v7 and then stopped. Its v8.0.0 release lists "Remove update-major-minor-tags workflow" as a breaking change, and that workflow is what published those tags.

The tags bear it out: v7, v7.0 through v7.6 all exist, while v8, v9 and v10 have none at all, only full versions like v10.0.1. So @v10 was not a major-version reference, it was a tag that does not exist. GitHub resolves the action during job setup, found nothing, and three jobs died in "Set up job" in under four seconds without running a step.

$ gh api repos/astral-sh/setup-uv/git/refs/tags --jq '.[].ref' | grep -E 'v(7|8|9|10)(\.[0-9]+)?$'
v7  v7.0  v7.1  v7.2  v7.3  v7.4  v7.5  v7.6     # nothing for v8, v9, v10

• Costs the automatic patch pickup @v7 gave. Bumps to this action are now manual, or a job for whatever bot updates action versions.
• v9.0.0 also flipped the prune-cache default from true to false, so the bump silently stopped pruning. prune-cache: true is now set explicitly at all seven call sites to restore the old behaviour rather than track a default that has already moved once.
• Reversible only if upstream reinstates those tags. Their README now pins by full commit SHA with the version in a trailing comment, which is GitHub's advised practice, so the direction of travel is away from moving tags.
• Moving the repo to SHA pinning for this action would be tighter still, but that is a convention change for all actions here and belongs in its own PR.

4. attrs, cattrs and structlog keep an inclusive <= cap, moved up to the current release rather than converted to a semver-style range.
These three are CalVer, not semver: the leading number is the calendar year, so it carries no compatibility promise.

attrs      23.2.0 -> 2023-12-31   24.x -> 2024   25.x -> 2025   26.1.0 -> 2026-03-19
cattrs     24.1.0 -> 2024-08-28   25.x -> 2025                  26.1.0 -> 2026-02-18
structlog  24.2.0 -> 2024-05-27   25.x -> 2025                  26.1.0 -> 2026-06-06

That is why the repo's existing <= shape is right and a <27.0.0 range would not be. A major-version cap on a CalVer project is a date fence that expires when the next year line opens, not a statement about compatibility. An inclusive cap says the thing actually meant: this is the newest release we have tested against.

• The caps therefore stay, just refreshed: attrs and cattrs to <=26.1.0, structlog to <=26.1.0.
• The trade-off is that a person has to raise them, which is how they had drifted to 24.2.0 in the first place. Worth folding into whatever cadence refreshes the lock.
• Locked versions are unchanged: attrs 26.1.0, cattrs 26.1.0, structlog 26.1.0. Only the recorded specifiers move.

5. tabulate keeps a <1.0.0 bound rather than the <0.10.0 a reviewer suggested.
0.10.0 is the current latest release, so capping below it ships a stale constraint on day one, which is the exact pattern commit 3 exists to remove. The single call site was run against 0.10.0 and is unaffected.

• The lock still resolves 0.9.0, because tbump pulls cli-ui which caps tabulate; that constrains only the release group, not consumers of gooddata-dbt.
• Happy to be reversed if someone knows of a real 0.10 incompatibility. I could not find one.

6. gooddata-pipelines moves onto the workspace ruff config instead of keeping its own.
The quirk that caused this: a package declaring its own [tool.ruff] table becomes a separate ruff configuration root and inherits nothing from the workspace, rule selection included. gooddata-pipelines was the only member with such a table, and it existed only to set line-length = 80. The side effect was that it had never been linted with the workspace rules at all, only with whatever ruff happened to default to. Ruff 0.16 widened those defaults and surfaced 89 findings in code nobody had touched, which is what exposed the drift.

Removing the table puts the package on the same footing as every other member and deletes the implicit coupling to ruff's defaults.

• Line length goes 80 to 120 with the rest of the workspace. That is what reformats 51 files; it is mechanical ruff format output with no behaviour change.
• 47 lint findings were auto-fixable. The hand-fixed rest: nested conditionals collapsed, append loops turned into comprehensions, one function-local import hoisted to match the top-level-imports rule the workspace already enforces.
• Two D417 findings turned out to be stale docs, not missing ones: the docstrings named raw_dataset_definitions and raw_field_definitions after those parameters had been renamed. The fix corrects the names rather than adding prose.
• PERF203 is suppressed at four sites, each with a reason. All four are deliberate per-item error handling in provisioning loops, where one user, group or filter may fail without stopping the rest, or the failing id is needed for the error context. The try cannot leave the loop without changing behaviour, so the rule does not apply. See packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/.
• Kept as its own commit so it can be dropped without losing the dependency work.

7. Markdown is excluded from the ruff formatter.
Ruff 0.16 began formatting python code blocks inside markdown. Left alone it rewrites 72 documentation files, including published code samples.

• Docs prose stays under human control; a formatter version bump does not rewrite published examples as a side effect.
• Only one copy of the exclusion is needed now that gooddata-pipelines is no longer a separate config root.
• Reversible as its own change if the team wants ruff formatting docs snippets; that is a deliberate call, not a dependency one. See pyproject.toml.

What comes next

• pandas 3.x for gooddata-pandas — the API review this PR deliberately avoids.
• Explicit encoding="utf-8" in gooddata-pipelines utils/file_utils.py — JsonUtils and YamlUtils open files with the process default encoding on both read and write. Latent bug on a non-UTF-8 locale, predates this PR, wants a regression test with non-ASCII content. Raised in review here.
• Inline the find_label local again — once astral-sh/ty#4016 ships. The comment at the site says so, so this should not need remembering.
• Ten inert pytest.mark.dependency markers in the sdk catalog tests — pytest-dependency is not in the lock, so they do nothing while reading as if they declare ordering. Decide whether to add the plugin or delete them, then consider pytest 9's strict_markers so unregistered markers fail instead of warn.

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📝 Walkthrough

Walkthrough

The pull request updates workflow actions, development dependencies, package constraints, Ruff settings, and formatting across gooddata-pipelines. It reports no intended runtime behavior changes.

Changes

Toolchain, dependency, and formatting refresh

Layer / File(s)	Summary
Tooling and dependency configuration .github/workflows/*, .pre-commit-config.yaml, pyproject.toml, packages/*/pyproject.toml, packages/*/docs/requirements.txt	Pinned setup-uv to v10.0.1, updated tool and dependency constraints, and adjusted Ruff configuration.
Source formatting and type modernization packages/gooddata-pipelines/src/gooddata_pipelines/...	Reformatted source code, replaced selected typing.Type annotations with built-in type[...], and preserved reported behavior.
Formatting and test updates packages/gooddata-pipelines/tests/...	Reformatted tests and updated equivalent imports, annotations, comprehensions, context managers, and file-opening calls.

Estimated code review effort: 2 (Simple) | ~15 minutes

Merge Risk: 🟡 Moderate · up to b2499

This refresh updates dependencies, CI tooling, and formatting, but unresolved dependency constraints may prevent supported Docker or package environments from working correctly, while the setup-uv change can increase CI cache usage. Resolve or explicitly accept these deployment and dependency risks before merge.

Poem

A rabbit checks each workflow step
New tools and packages join the prep
Source lines curl into tidy rows
Tests keep the same expected shows
Clean hops through every file

🚥 Pre-merge checks | ✅ 4 | ❌ 1

❌ Failed checks (1 warning)

Check name	Status	Explanation	Resolution
Docstring Coverage	⚠️ Warning	Docstring coverage is 69.92% which is insufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff. Analyzed 256 functions across 50 files. (7 skipped…	Write docstrings for the functions missing them to satisfy the coverage threshold.

✅ Passed checks (4 passed)

Check name	Status	Explanation
Linked Issues check	✅ Passed	Check skipped because no linked issues were found for this pull request.
Out of Scope Changes check	✅ Passed	Check skipped because no linked issues were found for this pull request.
Description Check	✅ Passed	Check skipped - CodeRabbit’s high-level summary is enabled.
Title check	✅ Passed	The title clearly summarizes the primary change: updating workspace dependencies and related tooling. It is concise and specific enough for a teammate scanning the project history.

Full details: Docstring Coverage

Explanation

Docstring coverage is 69.92% which is insufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff. Analyzed 256 functions across 50 files. (7 skipped: 1 unsupported, 6 over the file limit.)

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In @.github/workflows/staging-tests.yaml:
- Line 53: Verify that the runners-small image uses an Actions runner version
v2.327.1 or newer before retaining setup-uv@v10; otherwise replace it with a
setup-uv release compatible with the current runner runtime.

In `@packages/gooddata-dbt/pyproject.toml`:
- Line 18: Update the tabulate dependency constraint to use an upper bound below
0.10.0, preserving the existing minimum version requirement.

In `@pyproject.toml`:
- Line 20: Align the Dockerfile’s uv image tag with the pyproject.toml
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• .github/workflows/rw-python-tests.yaml
• .github/workflows/staging-tests.yaml
• .pre-commit-config.yaml
• packages/gooddata-dbt/pyproject.toml
• packages/gooddata-fdw/docs/requirements.txt
• packages/gooddata-fdw/pyproject.toml
• packages/gooddata-flexconnect/pyproject.toml
• packages/gooddata-flight-server/pyproject.toml
• packages/gooddata-pandas/docs/requirements.txt
• packages/gooddata-pandas/pyproject.toml
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Codecov Report

❌ Patch coverage is 59.68254% with 127 lines in your changes missing coverage. Please review.
✅ Project coverage is 81.59%. Comparing base (45892f7) to head (c35a0ce).

Files with missing lines	Patch %	Lines
...ines/provisioning/entities/workspaces/workspace.py	31.81%	15 Missing ⚠️
...ng/entities/user_data_filters/user_data_filters.py	22.22%	14 Missing ⚠️
...pelines/provisioning/entities/users/user_groups.py	17.64%	14 Missing ⚠️
...elines/backup_and_restore/storage/azure_storage.py	21.42%	11 Missing ⚠️
...ata_pipelines/backup_and_restore/backup_manager.py	25.00%	9 Missing ⚠️
...ta_pipelines/backup_and_restore/restore_manager.py	73.07%	7 Missing ⚠️
...oning/entities/workspaces/workspace_data_parser.py	33.33%	6 Missing ⚠️
...pelines/src/gooddata_pipelines/api/gooddata_api.py	61.53%	5 Missing ⚠️
...pipelines/backup_and_restore/storage/s3_storage.py	28.57%	5 Missing ⚠️
...ning/entities/workspaces/workspace_data_filters.py	64.28%	5 Missing ⚠️
... and 16 more

Additional details and impacted files

@@           Coverage Diff           @@
##           master    #1775   +/-   ##
=======================================
  Coverage   81.58%   81.59%           
=======================================
  Files         275      275           
  Lines       19863    19848   -15     
=======================================
- Hits        16205    16194   -11     
+ Misses       3658     3654    -4     

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Inline comments:
In @.github/workflows/staging-tests.yaml:
- Line 53: Set prune-cache to true for every setup-uv@v10.0.1 usage in
.github/workflows/staging-tests.yaml:53, .github/workflows/bump-version.yaml:39,
.github/workflows/dev-release.yaml:40, and the three usages in
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Inline comments:
In `@packages/gooddata-pipelines/src/gooddata_pipelines/utils/file_utils.py`:
- Line 38: Update the file-opening calls in JsonUtils.load and
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📒 Files selected for processing (59)

• packages/gooddata-pipelines/pyproject.toml
• packages/gooddata-pipelines/src/gooddata_pipelines/api/gooddata_api.py
• packages/gooddata-pipelines/src/gooddata_pipelines/api/gooddata_api_wrapper.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/backup_input_processor.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/backup_manager.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/base_manager.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/constants.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/csv_reader.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/models/storage.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/restore_manager.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/storage/azure_storage.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/storage/base_storage.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/storage/local_storage.py
• packages/gooddata-pipelines/src/gooddata_pipelines/backup_and_restore/storage/s3_storage.py
• packages/gooddata-pipelines/src/gooddata_pipelines/ldm_extension/input_processor.py
• packages/gooddata-pipelines/src/gooddata_pipelines/ldm_extension/input_validator.py
• packages/gooddata-pipelines/src/gooddata_pipelines/ldm_extension/ldm_extension_manager.py
• packages/gooddata-pipelines/src/gooddata_pipelines/ldm_extension/models/custom_data_object.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/user_data_filters/user_data_filters.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/users/models/permissions.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/users/models/user_groups.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/users/permissions.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/users/user_groups.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/users/users.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/workspaces/models.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/workspaces/workspace.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/workspaces/workspace_data_filters.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/workspaces/workspace_data_parser.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/entities/workspaces/workspace_data_validator.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/generic/config.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/provisioning.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/utils/exceptions.py
• packages/gooddata-pipelines/src/gooddata_pipelines/provisioning/utils/utils.py
• packages/gooddata-pipelines/src/gooddata_pipelines/utils/decorators.py
• packages/gooddata-pipelines/src/gooddata_pipelines/utils/file_utils.py
• packages/gooddata-pipelines/src/gooddata_pipelines/utils/rate_limiter.py
• packages/gooddata-pipelines/tests/backup_and_restore/test_backup.py
• packages/gooddata-pipelines/tests/backup_and_restore/test_backup_input_processor.py
• packages/gooddata-pipelines/tests/backup_and_restore/test_restore.py
• packages/gooddata-pipelines/tests/conftest.py
• packages/gooddata-pipelines/tests/panther/test_api_wrapper.py
• packages/gooddata-pipelines/tests/panther/test_sdk_wrapper.py
• packages/gooddata-pipelines/tests/provisioning/entities/users/test_permissions.py
• packages/gooddata-pipelines/tests/provisioning/entities/users/test_user_groups.py
• packages/gooddata-pipelines/tests/provisioning/entities/users/test_users.py
• packages/gooddata-pipelines/tests/provisioning/entities/workspaces/test_workspace.py
• packages/gooddata-pipelines/tests/provisioning/entities/workspaces/test_workspace_data_filters.py
• packages/gooddata-pipelines/tests/provisioning/entities/workspaces/test_workspace_data_parser.py
• packages/gooddata-pipelines/tests/provisioning/entities/workspaces/test_workspace_data_validator.py
• packages/gooddata-pipelines/tests/provisioning/test_provisioning.py
• packages/gooddata-pipelines/tests/test_ldm_extension/conftest.py
• packages/gooddata-pipelines/tests/test_ldm_extension/test_input_processor.py
• packages/gooddata-pipelines/tests/test_ldm_extension/test_input_validator.py
• packages/gooddata-pipelines/tests/test_ldm_extension/test_ldm_extension_manager.py
• packages/gooddata-pipelines/tests/test_ldm_extension/test_merge_ldm.py
• packages/gooddata-pipelines/tests/test_ldm_extension/test_models/test_analytical_object.py
• packages/gooddata-pipelines/tests/test_ldm_extension/test_models/test_custom_data_object.py
• packages/gooddata-pipelines/tests/utils/test_decorators.py
• packages/gooddata-pipelines/tests/utils/test_rate_limiter.py

💤 Files with no reviewable changes (3)

• packages/gooddata-pipelines/tests/test_ldm_extension/conftest.py
• packages/gooddata-pipelines/tests/panther/test_api_wrapper.py
• packages/gooddata-pipelines/pyproject.toml

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