Bump the pip group in /src with 11 updates

Bumps the pip group in /src with 11 updates:

| Package | From | To |
| --- | --- | --- |
| [beautifulsoup4](https://www.crummy.com/software/BeautifulSoup/bs4/) | `4.13.4` | `4.13.5` |
| [certifi](https://github.com/certifi/python-certifi) | `2025.7.14` | `2025.8.3` |
| [cryptography](https://github.com/pyca/cryptography) | `45.0.5` | `45.0.7` |
| [jsonschema](https://github.com/python-jsonschema/jsonschema) | `4.25.0` | `4.25.1` |
| [plotly](https://github.com/plotly/plotly.py) | `6.2.0` | `6.3.0` |
| [pandas](https://github.com/pandas-dev/pandas) | `2.3.1` | `2.3.2` |
| [pymongo](https://github.com/mongodb/mongo-python-driver) | `4.13.2` | `4.14.1` |
| [requests](https://github.com/psf/requests) | `2.32.4` | `2.32.5` |
| [tornado](https://github.com/tornadoweb/tornado) | `6.5.1` | `6.5.2` |
| [coverage](https://github.com/nedbat/coveragepy) | `7.10.1` | `7.10.6` |
| [ruff](https://github.com/astral-sh/ruff) | `0.12.7` | `0.12.11` |


Updates `beautifulsoup4` from 4.13.4 to 4.13.5

Updates `certifi` from 2025.7.14 to 2025.8.3
- [Commits](certifi/python-certifi@2025.07.14...2025.08.03)

Updates `cryptography` from 45.0.5 to 45.0.7
- [Changelog](https://github.com/pyca/cryptography/blob/main/CHANGELOG.rst)
- [Commits](pyca/cryptography@45.0.5...45.0.7)

Updates `jsonschema` from 4.25.0 to 4.25.1
- [Release notes](https://github.com/python-jsonschema/jsonschema/releases)
- [Changelog](https://github.com/python-jsonschema/jsonschema/blob/main/CHANGELOG.rst)
- [Commits](python-jsonschema/jsonschema@v4.25.0...v4.25.1)

Updates `plotly` from 6.2.0 to 6.3.0
- [Release notes](https://github.com/plotly/plotly.py/releases)
- [Changelog](https://github.com/plotly/plotly.py/blob/main/CHANGELOG.md)
- [Commits](plotly/plotly.py@v6.2.0...v6.3.0)

Updates `pandas` from 2.3.1 to 2.3.2
- [Release notes](https://github.com/pandas-dev/pandas/releases)
- [Commits](pandas-dev/pandas@v2.3.1...v2.3.2)

Updates `pymongo` from 4.13.2 to 4.14.1
- [Release notes](https://github.com/mongodb/mongo-python-driver/releases)
- [Changelog](https://github.com/mongodb/mongo-python-driver/blob/master/doc/changelog.rst)
- [Commits](mongodb/mongo-python-driver@4.13.2...4.14.1)

Updates `requests` from 2.32.4 to 2.32.5
- [Release notes](https://github.com/psf/requests/releases)
- [Changelog](https://github.com/psf/requests/blob/main/HISTORY.md)
- [Commits](psf/requests@v2.32.4...v2.32.5)

Updates `tornado` from 6.5.1 to 6.5.2
- [Changelog](https://github.com/tornadoweb/tornado/blob/master/docs/releases.rst)
- [Commits](tornadoweb/tornado@v6.5.1...v6.5.2)

Updates `coverage` from 7.10.1 to 7.10.6
- [Release notes](https://github.com/nedbat/coveragepy/releases)
- [Changelog](https://github.com/nedbat/coveragepy/blob/master/CHANGES.rst)
- [Commits](nedbat/coveragepy@7.10.1...7.10.6)

Updates `ruff` from 0.12.7 to 0.12.11
- [Release notes](https://github.com/astral-sh/ruff/releases)
- [Changelog](https://github.com/astral-sh/ruff/blob/main/CHANGELOG.md)
- [Commits](astral-sh/ruff@0.12.7...0.12.11)

---
updated-dependencies:
- dependency-name: beautifulsoup4
  dependency-version: 4.13.5
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: pip
- dependency-name: certifi
  dependency-version: 2025.8.3
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: pip
- dependency-name: cryptography
  dependency-version: 45.0.7
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: pip
- dependency-name: jsonschema
  dependency-version: 4.25.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: pip
- dependency-name: plotly
  dependency-version: 6.3.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: pip
- dependency-name: pandas
  dependency-version: 2.3.2
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: pip
- dependency-name: pymongo
  dependency-version: 4.14.1
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: pip
- dependency-name: requests
  dependency-version: 2.32.5
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: pip
- dependency-name: tornado
  dependency-version: 6.5.2
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: pip
- dependency-name: coverage
  dependency-version: 7.10.6
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: pip
- dependency-name: ruff
  dependency-version: 0.12.11
  dependency-type: direct:development
  update-type: version-update:semver-patch
  dependency-group: pip
...

Signed-off-by: dependabot[bot] <support@github.com>

Author: dependabot[bot]

src/requirements-dev.txt

@@ -1,7 +1,7 @@
-coverage==7.10.1
+coverage==7.10.6
 pytest==8.4.1
 pytest-cov==6.2.1
 pytest-recording==0.13.4
 requests-mock==1.12.1
-ruff==0.12.7
+ruff==0.12.11
 vcrpy==7.0.0

src/requirements.txt

@@ -1,16 +1,16 @@
 appdirs==1.4.4
-beautifulsoup4==4.13.4
+beautifulsoup4==4.13.5
 biopython==1.85
 bokeh==3.6.2
-certifi==2025.7.14
+certifi==2025.8.3
 chardet==5.2.0
 chart_studio==1.1.0
-cryptography==45.0.5
+cryptography==45.0.7
 decorator==5.2.1
 ete3==3.1.3
 html5lib==1.1
 idna==3.10
-jsonschema==4.25.0
+jsonschema==4.25.1
 markdown==3.8.2
 markupsafe==3.0.2
 ndg-httpsclient==0.5.1
@@ -19,7 +19,7 @@ numpy==2.2.3
 pexpect==4.9.0
 pickleshare==0.7.5
 pillow==11.3.0
-plotly==6.2.0
+plotly==6.3.0
 pyasn1==0.6.1
 pycurl==7.45.6
 pygments==2.19.2
@@ -43,10 +43,10 @@ ipywidgets==8.1.7
 jinja2==3.1.6
 # N.b. notebook version must stay under 7
 notebook==6.5.7
-pandas==2.3.1
-pymongo==4.13.2
+pandas==2.3.2
+pymongo==4.14.1
 pyyaml==6.0.2
-requests==2.32.4
+requests==2.32.5
 scikit-learn==1.6.1
 statsmodels==0.14.5
-tornado==6.5.1
+tornado==6.5.2