From 700b904e47c924bf0138887cce64eefda2f7715d Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Mon, 1 Jun 2026 20:32:49 +0000
Subject: [PATCH] Bump the dependencies group with 21 updates

Updates the requirements on [ruff](https://github.com/astral-sh/ruff), [tox](https://github.com/tox-dev/tox), [boto3](https://github.com/boto/boto3), [botocore](https://github.com/boto/botocore), [certifi](https://github.com/certifi/python-certifi), [click](https://github.com/pallets/click), [coverage](https://github.com/coveragepy/coveragepy), [docutils](https://github.com/rtfd/recommonmark), [idna](https://github.com/kjd/idna), [mpmath](https://github.com/mpmath/mpmath), [narwhals](https://github.com/narwhals-dev/narwhals), [paramiko](https://github.com/paramiko/paramiko), [platformdirs](https://github.com/tox-dev/platformdirs), [pydantic-core](https://github.com/pydantic/pydantic), [pymongo](https://github.com/mongodb/mongo-python-driver), [python-discovery](https://github.com/tox-dev/python-discovery), [rpds-py](https://github.com/crate-py/rpds), [s3transfer](https://github.com/boto/s3transfer), [snowballstemmer](https://github.com/snowballstem/snowball), [virtualenv](https://github.com/pypa/virtualenv) and [ipython](https://github.com/ipython/ipython) to permit the latest version.

Updates `ruff` from 0.15.13 to 0.15.15
- [Release notes](https://github.com/astral-sh/ruff/releases)
- [Changelog](https://github.com/astral-sh/ruff/blob/main/CHANGELOG.md)
- [Commits](https://github.com/astral-sh/ruff/compare/0.15.13...0.15.15)

Updates `tox` from 3.28.0 to 4.55.0
- [Release notes](https://github.com/tox-dev/tox/releases)
- [Changelog](https://github.com/tox-dev/tox/blob/main/docs/changelog.rst)
- [Commits](https://github.com/tox-dev/tox/compare/3.28.0...4.55.0)

Updates `boto3` from 1.43.10 to 1.43.19
- [Release notes](https://github.com/boto/boto3/releases)
- [Commits](https://github.com/boto/boto3/compare/1.43.10...1.43.19)

Updates `botocore` from 1.43.10 to 1.43.19
- [Commits](https://github.com/boto/botocore/compare/1.43.10...1.43.19)

Updates `certifi` from 2026.4.22 to 2026.5.20
- [Commits](https://github.com/certifi/python-certifi/compare/2026.04.22...2026.05.20)

Updates `click` from 8.4.0 to 8.4.1
- [Release notes](https://github.com/pallets/click/releases)
- [Changelog](https://github.com/pallets/click/blob/main/CHANGES.rst)
- [Commits](https://github.com/pallets/click/compare/8.4.0...8.4.1)

Updates `coverage` from 7.14.0 to 7.14.1
- [Release notes](https://github.com/coveragepy/coveragepy/releases)
- [Changelog](https://github.com/coveragepy/coveragepy/blob/main/CHANGES.rst)
- [Commits](https://github.com/coveragepy/coveragepy/compare/7.14.0...7.14.1)

Updates `docutils` from 0.22.4 to 0.23
- [Changelog](https://github.com/readthedocs/recommonmark/blob/master/CHANGELOG.md)
- [Commits](https://github.com/rtfd/recommonmark/commits)

Updates `idna` from 3.15 to 3.17
- [Release notes](https://github.com/kjd/idna/releases)
- [Changelog](https://github.com/kjd/idna/blob/master/HISTORY.md)
- [Commits](https://github.com/kjd/idna/compare/v3.15...v3.17)

Updates `mpmath` from 1.3.0 to 1.4.1
- [Release notes](https://github.com/mpmath/mpmath/releases)
- [Changelog](https://github.com/mpmath/mpmath/blob/master/CHANGES)
- [Commits](https://github.com/mpmath/mpmath/compare/1.3.0...1.4.1)

Updates `narwhals` from 2.21.2 to 2.22.0
- [Release notes](https://github.com/narwhals-dev/narwhals/releases)
- [Commits](https://github.com/narwhals-dev/narwhals/compare/v2.21.2...v2.22.0)

Updates `paramiko` from 3.5.1 to 5.0.0
- [Commits](https://github.com/paramiko/paramiko/compare/3.5.1...5.0.0)

Updates `platformdirs` from 4.9.6 to 4.10.0
- [Release notes](https://github.com/tox-dev/platformdirs/releases)
- [Changelog](https://github.com/tox-dev/platformdirs/blob/main/docs/changelog.rst)
- [Commits](https://github.com/tox-dev/platformdirs/compare/4.9.6...4.10.0)

Updates `pydantic-core` from 2.46.4 to 2.47.0
- [Release notes](https://github.com/pydantic/pydantic/releases)
- [Changelog](https://github.com/pydantic/pydantic/blob/main/HISTORY.md)
- [Commits](https://github.com/pydantic/pydantic/commits)

Updates `pymongo` from 4.10.1 to 4.17.0
- [Release notes](https://github.com/mongodb/mongo-python-driver/releases)
- [Changelog](https://github.com/mongodb/mongo-python-driver/blob/master/doc/changelog.rst)
- [Commits](https://github.com/mongodb/mongo-python-driver/compare/4.10.1...4.17.0)

Updates `python-discovery` from 1.3.1 to 1.4.0
- [Release notes](https://github.com/tox-dev/python-discovery/releases)
- [Changelog](https://github.com/tox-dev/python-discovery/blob/main/docs/changelog.rst)
- [Commits](https://github.com/tox-dev/python-discovery/compare/1.3.1...1.4.0)

Updates `rpds-py` from 0.30.0 to 2026.5.1
- [Release notes](https://github.com/crate-py/rpds/releases)
- [Changelog](https://github.com/crate-py/rpds/blob/main/release.toml)
- [Commits](https://github.com/crate-py/rpds/compare/v0.30.0...v2026.5.1)

Updates `s3transfer` from 0.17.0 to 0.18.0
- [Changelog](https://github.com/boto/s3transfer/blob/develop/CHANGELOG.rst)
- [Commits](https://github.com/boto/s3transfer/compare/0.17.0...0.18.0)

Updates `snowballstemmer` from 3.0.1 to 3.1.0
- [Changelog](https://github.com/snowballstem/snowball/blob/main/NEWS)
- [Commits](https://github.com/snowballstem/snowball/compare/v3.0.1...v3.1.0)

Updates `virtualenv` from 21.3.3 to 21.4.2
- [Release notes](https://github.com/pypa/virtualenv/releases)
- [Changelog](https://github.com/pypa/virtualenv/blob/main/docs/changelog.rst)
- [Commits](https://github.com/pypa/virtualenv/compare/21.3.3...21.4.2)

Updates `ipython` to 9.14.0
- [Release notes](https://github.com/ipython/ipython/releases)
- [Commits](https://github.com/ipython/ipython/compare/9.3.0...9.14.0)

---
updated-dependencies:
- dependency-name: ruff
  dependency-version: 0.15.15
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: dependencies
- dependency-name: tox
  dependency-version: 4.55.0
  dependency-type: direct:production
  update-type: version-update:semver-major
  dependency-group: dependencies
- dependency-name: boto3
  dependency-version: 1.43.19
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: dependencies
- dependency-name: botocore
  dependency-version: 1.43.19
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: dependencies
- dependency-name: certifi
  dependency-version: 2026.5.20
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: click
  dependency-version: 8.4.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: dependencies
- dependency-name: coverage
  dependency-version: 7.14.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: dependencies
- dependency-name: docutils
  dependency-version: '0.23'
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: idna
  dependency-version: '3.17'
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: mpmath
  dependency-version: 1.4.1
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: narwhals
  dependency-version: 2.22.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: paramiko
  dependency-version: 5.0.0
  dependency-type: direct:production
  update-type: version-update:semver-major
  dependency-group: dependencies
- dependency-name: platformdirs
  dependency-version: 4.10.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: pydantic-core
  dependency-version: 2.47.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: pymongo
  dependency-version: 4.17.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: python-discovery
  dependency-version: 1.4.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: rpds-py
  dependency-version: 2026.5.1
  dependency-type: direct:production
  update-type: version-update:semver-major
  dependency-group: dependencies
- dependency-name: s3transfer
  dependency-version: 0.18.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: snowballstemmer
  dependency-version: 3.1.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: virtualenv
  dependency-version: 21.4.2
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: dependencies
- dependency-name: ipython
  dependency-version: 9.14.0
  dependency-type: direct:production
  dependency-group: dependencies
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 docs/requirements.txt |  2 +-
 pyproject.toml        |  2 +-
 requirements.txt      | 40 ++++++++++++++++++++--------------------
 3 files changed, 22 insertions(+), 22 deletions(-)

diff --git a/docs/requirements.txt b/docs/requirements.txt
index 724ce2f8..fc0479db 100644
--- a/docs/requirements.txt
+++ b/docs/requirements.txt
@@ -12,6 +12,6 @@ phreeqpython>=1.5.2
 sphinx>=3.2.1
 nbsphinx
 sphinx-rtd-theme
-ipython>=9.3.0
+ipython>=9.14.0
 myst-parser[linkify]
 sphinx-immaterial # Material theme
diff --git a/pyproject.toml b/pyproject.toml
index 5ae1ed4d..d2aeda18 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -45,7 +45,7 @@ testing = [
   "black",
   "mypy>1",
   "ruff>0.0.100",
-  "tox<4",
+  "tox<5",
 ]
 docs = ["sphinx>=3.2.1", "sphinx-rtd-theme", "myst-parser[linkify]"]
 full = ["rich"]
diff --git a/requirements.txt b/requirements.txt
index b8679621..6605e127 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -21,13 +21,13 @@ bibtexparser==1.4.4
     # via pymatgen-core
 black==26.5.1
     # via pyeql (pyproject.toml)
-boto3==1.43.10
+boto3==1.43.19
     # via maggma
-botocore==1.43.10
+botocore==1.43.19
     # via
     #   boto3
     #   s3transfer
-certifi==2026.4.22
+certifi==2026.5.20
     # via requests
 cffi==2.0.0
     # via
@@ -37,11 +37,11 @@ cfgv==3.5.0
     # via pre-commit
 charset-normalizer==3.4.7
     # via requests
-click==8.4.0
+click==8.4.1
     # via black
 contourpy==1.3.3
     # via matplotlib
-coverage==7.14.0
+coverage==7.14.1
     # via pytest-cov
 cryptography==48.0.0
     # via paramiko
@@ -53,7 +53,7 @@ dnspython==2.8.0
     # via
     #   maggma
     #   pymongo
-docutils==0.22.4
+docutils==0.23
     # via
     #   myst-parser
     #   sphinx
@@ -75,7 +75,7 @@ iapws==1.5.5
     # via pyeql (pyproject.toml)
 identify==2.6.19
     # via pre-commit
-idna==3.15
+idna==3.17
     # via requests
 imagesize==2.0.0
     # via sphinx
@@ -126,7 +126,7 @@ monty==2026.5.18
     #   pyeql (pyproject.toml)
     #   maggma
     #   pymatgen-core
-mpmath==1.3.0
+mpmath==1.4.1
     # via sympy
 msgpack==1.1.2
     # via maggma
@@ -138,7 +138,7 @@ mypy-extensions==1.1.0
     #   mypy
 myst-parser==5.1.0
     # via pyeql (pyproject.toml)
-narwhals==2.21.2
+narwhals==2.22.0
     # via plotly
 networkx==3.6.1
     # via pymatgen-core
@@ -176,7 +176,7 @@ pandas==3.0.3
     # via
     #   maggma
     #   pymatgen-core
-paramiko==3.5.1
+paramiko==5.0.0
     # via
     #   maggma
     #   sshtunnel
@@ -192,7 +192,7 @@ pillow==12.2.0
     # via matplotlib
 pint==0.25.3
     # via pyeql (pyproject.toml)
-platformdirs==4.9.6
+platformdirs==4.10.0
     # via
     #   black
     #   pint
@@ -215,7 +215,7 @@ pydantic==2.13.4
     # via
     #   maggma
     #   pydantic-settings
-pydantic-core==2.46.4
+pydantic-core==2.47.0
     # via pydantic
 pydantic-settings==2.14.1
     # via maggma
@@ -227,7 +227,7 @@ pygments==2.20.0
     #   sphinx
 pymatgen-core==2026.5.18
     # via pyeql (pyproject.toml)
-pymongo==4.10.1
+pymongo==4.17.0
     # via maggma
 pynacl==1.6.2
     # via paramiko
@@ -251,7 +251,7 @@ python-dateutil==2.9.0.post0
     #   maggma
     #   matplotlib
     #   pandas
-python-discovery==1.3.1
+python-discovery==1.4.0
     # via virtualenv
 python-dotenv==1.2.2
     # via pydantic-settings
@@ -275,7 +275,7 @@ requests==2.34.2
     #   sphinx
 roman-numerals==4.1.0
     # via sphinx
-rpds-py==0.30.0
+rpds-py==2026.5.1
     # via
     #   jsonschema
     #   referencing
@@ -283,9 +283,9 @@ ruamel-yaml==0.19.1
     # via
     #   maggma
     #   monty
-ruff==0.15.13
+ruff==0.15.15
     # via pyeql (pyproject.toml)
-s3transfer==0.17.0
+s3transfer==0.18.0
     # via boto3
 scipy==1.17.1
     # via
@@ -300,7 +300,7 @@ six==1.17.0
     # via
     #   python-dateutil
     #   tox
-snowballstemmer==3.0.1
+snowballstemmer==3.1.0
     # via sphinx
 spglib==2.7.0
     # via pymatgen-core
@@ -332,7 +332,7 @@ sympy==1.14.0
     # via pymatgen-core
 tabulate==0.10.0
     # via pymatgen-core
-tox==3.28.0
+tox==4.55.0
     # via pyeql (pyproject.toml)
 tqdm==4.67.3
     # via
@@ -362,7 +362,7 @@ urllib3==2.7.0
     # via
     #   botocore
     #   requests
-virtualenv==21.3.3
+virtualenv==21.4.2
     # via
     #   pre-commit
     #   tox