Skip to content

Update Numpy and Pandas Deps #40704

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
jrmccluskey merged 4 commits into from
Oct 23, 2026
Merged

Update Numpy and Pandas Deps #40704

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
4 commits
Select commit Hold shift + click to select a range
0c24d23
Update Numpy and Pandas Deps
jrmccluskey Oct 21, 2026
2fb585c
Merge branch 'master' into bambooBump
jrmccluskey Oct 21, 2026
14039ad
Add context for chosen versions
jrmccluskey Oct 21, 2026
6453b72
Merge branch 'master' into bambooBump
jrmccluskey Oct 22, 2026
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion .github/trigger_files/beam_PostCommit_Python_Dependency.json
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
{
"comment": "Modify this file in a trivial way to cause this test suite to run",
"modification": 8
"modification": 6
}
2 changes: 1 addition & 1 deletion sdks/python/pyproject.toml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -31,7 +31,7 @@ requires = [
# Avoid https://github.com/pypa/virtualenv/issues/2006
"distlib==0.4.4",
# Numpy headers
"numpy>=1.14.3,<2.5.0", # Update setup.py as well.
"numpy>=1.23.2,<2.6.0", # Update setup.py as well.
# having cython here will create wheels that are platform dependent.
"cython>=3.2.6,<4",
## deps for generating external transform wrappers:
Expand Down
15 changes: 8 additions & 7 deletions sdks/python/setup.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -156,12 +156,11 @@ def cythonize(*args, **kwargs):
'pyarrow>=14.0.1,<26.0.0',
]

# Exclude pandas<=1.4.2 since it doesn't work with numpy 1.24.x.
# Exclude 1.5.0 and 1.5.1 because of
# https://github.com/pandas-dev/pandas/issues/45725
# must update the below "docs" and "test" for extras_require
dataframe_dependency = [
'pandas>=1.4.3,!=1.5.0,!=1.5.1,<2.4',
# pandas 2.2.2 is the first version that works with numpy 2.0.0+
# TODO(https://github.com/apache/beam/issues/40709): support pandas 3+
'pandas>=2.2.2,<2.4',

@damccorm damccorm Oct 21, 2026

Copy link
Copy Markdown
Contributor

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Could you add a little more context around these boundaries/why they were chosen?

@jrmccluskey jrmccluskey Oct 21, 2026

Copy link
Copy Markdown
Contributor Author

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

The numpy ranges were updated to cover the first release that provides Python 3.11 wheels all the way up to the latest minor release, which is compatible with our code.

Pandas, on the other hand, has a quirk where the first release that supports Python 3.11, 1.5.3, doesn't contain a restriction for numpy<2 despite actually being incompatible with numpy 2+. Pandas 2.2.2 is the first version that supports numpy>=2 so we avoid the issue of a dependency mismatch that leads to pandas crashing on import. The upper bound for pandas is functionally just bounding to the 2.3.3 release, which was followed by 3.0.0. The dataframes code will need an overhaul to support pandas 3+, so I pinned it here for now.

I can add the context for pandas versions in the code + file a feature request to support pandas 3 if there isn't one already.

@damccorm damccorm Oct 22, 2026

Copy link
Copy Markdown
Contributor

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Thanks, this all makes sense

]

milvus_dependency = ['pymilvus>=2.5.10,<3.0.0']
Expand Down Expand Up @@ -435,7 +434,9 @@ def get_portability_package_data():
'jsonpickle>=3.0.4,<5.0.0',
# numpy can have breaking changes in minor versions.
# Use a strict upper bound.
'numpy>=1.14.3,<2.5.0', # Update pyproject.toml as well.
# Increment the lower bound when the minimum Python version is
# updated.
'numpy>=1.23.2,<2.6.0', # Update pyproject.toml as well.
'objsize>=0.6.1,<0.8.0',
'packaging>=22.0',
'pillow>=12.1.1,<13',
Expand Down Expand Up @@ -490,7 +491,7 @@ def get_portability_package_data():
'docstring-parser>=0.15,<1.0',
'docutils>=0.18.1',
'markdown',
'pandas<2.4.0',
'pandas<2.6.0',
'openai',
'virtualenv-clone>=0.5,<1.0',
],
Expand All @@ -501,7 +502,7 @@ def get_portability_package_data():
'jinja2>=3.0,<3.2',
'joblib>=1.0.1',
'mock>=1.0.1,<6.0.0',
'pandas<2.4.0',
'pandas<2.6.0',
'parameterized>=0.7.1,<0.10.0',
'pydot>=1.2.0,<2',
'pyhamcrest>=1.9,!=1.10.0,<3.0.0',
Expand Down
33 changes: 9 additions & 24 deletions sdks/python/test-suites/tox/py311/build.gradle
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -84,30 +84,15 @@ toxTask "testPy311pyarrow-25", "py311-pyarrow-25", "${posargs}"
test.dependsOn "testPy311pyarrow-25"
postCommitPyDep.dependsOn "testPy311pyarrow-25"

// Create a test task for each supported minor version of pandas
toxTask "testPy311pandas-14", "py311-pandas-14", "${posargs}"
test.dependsOn "testPy311pandas-14"
postCommitPyDep.dependsOn "testPy311pandas-14"

toxTask "testPy311pandas-15", "py311-pandas-15", "${posargs}"
test.dependsOn "testPy311pandas-15"
postCommitPyDep.dependsOn "testPy311pandas-15"

toxTask "testPy311pandas-20", "py311-pandas-20", "${posargs}"
test.dependsOn "testPy311pandas-20"
postCommitPyDep.dependsOn "testPy311pandas-20"

// TODO(https://github.com/apache/beam/issues/31192): Add below suites
// after dependency compat tests suite switches to Python 3.9 or we add
// Python 2.2 support.

// toxTask "testPy311pandas-21", "py311-pandas-21", "${posargs}"
// test.dependsOn "testPy311pandas-21"
// postCommitPyDep.dependsOn "testPy311pandas-21"

// toxTask "testPy311pandas-22", "py311-pandas-22", "${posargs}"
// test.dependsOn "testPy311pandas-22"
// postCommitPyDep.dependsOn "testPy311pandas-22"
// Create a test task for each supported minor version of pandas.
// Keep in sync with [testenv:py311-pandas-...] in tox.ini.
toxTask "testPy311pandas-22", "py311-pandas-22", "${posargs}"
test.dependsOn "testPy311pandas-22"
postCommitPyDep.dependsOn "testPy311pandas-22"

toxTask "testPy311pandas-23", "py311-pandas-23", "${posargs}"
test.dependsOn "testPy311pandas-23"
postCommitPyDep.dependsOn "testPy311pandas-23"

// TODO(https://github.com/apache/beam/issues/30908): Revise what are we testing

Expand Down
16 changes: 7 additions & 9 deletions sdks/python/tox.ini
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -365,16 +365,14 @@ commands =
/bin/sh -c 'pytest -o junit_suite_name={envname} --junitxml=pytest_{envname}.xml -n 6 -m uses_pyarrow {posargs}; ret=$?; [ $ret = 5 ] && exit 0 || exit $ret'


[testenv:py311-pandas-{14,15,20}]
[testenv:py311-pandas-{22,23}]
# Keep in line with dataframe_dependency in setup.py. pandas 2.2.2 is the first
# release compatible with numpy 2.
deps =
14: pandas>=1.4.3,<1.5.0
14: numpy>=1.14.3,<1.27.0
# Exclude 1.5.0 and 1.5.1 because of https://github.com/pandas-dev/pandas/issues/45725
15: pandas>=1.5.2,<1.6.0
15: numpy>=1.14.3,<1.27.0
20: pandas>=2.0.0,<2.1.0
20: pyarrow>=7
20: numpy>=1.14.3,<1.27.0
# Lower bound of the supported range; also keeps numpy 1.x covered.
22: pandas>=2.2.2,<2.3.0
22: numpy>=1.23.2,<2.0.0
23: pandas>=2.3.0,<2.4.0
commands =
# Log pandas and numpy version for debugging
/bin/sh -c "pip freeze | grep -E '(pandas|numpy)'"
Expand Down
Loading