Update pod5 to 0.3.23

[BiocondaBot]

Update pod5: 0.3.15 → 0.3.23

Info	Link or Description
Recipe	recipes/pod5 (click to view/edit other files)
Summary	Oxford Nanopore Technologies Pod5 File Format Python API and Tools.
Home	https://github.com/nanoporetech/pod5-file-format
Releases	https://github.com/nanoporetech/pod5-file-format/releases
Author	@nanoporetech

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This pull request was automatically generated (see docs).

[coderabbitai]

📝 Walkthrough

Walkthrough

The pull request introduces updates to the meta.yaml file for the pod5 package. Specifically, the version number has been changed from 0.3.15 to 0.3.21, indicating a new release of the package. Additionally, the SHA256 checksum for the source tarball has been updated from 85e3196bfc375b7d6eb36787a312af5276b19829ceded551b55e9e193939e8f4 to ff1010dfd2a0ee26d1ee539a9b9a86c03d152e1c8652317f772c0d29c122b3ab. These modifications reflect the necessary adjustments for the package's versioning and integrity verification, aligning with standard practices for package management.

Possibly related PRs

• [biobb_chemistry] update 5.0.0 #51435: Updates the biobb_chemistry package version and SHA256 checksum in the meta.yaml file.
• Update biobb_cmip to 5.0.0 #51455: Updates the biobb_cmip package version and SHA256 checksum in the meta.yaml file.
• Update biobb_chemistry to 5.0.1 #51939: Updates the biobb_chemistry package version and SHA256 checksum in the meta.yaml file.

Suggested reviewers

• martin-g: Suggested reviewer for the changes made in the pod5 package update.

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📜 Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Reviewing files that changed from the base of the PR and between 3d83203 and 47da24f.

📒 Files selected for processing (1)

• recipes/pod5/meta.yaml (1 hunks)

🔇 Additional comments (4)

recipes/pod5/meta.yaml (4)

Line range hint 12-19: Build configuration looks good!

The build configuration is appropriate for a Python package:

• Correctly marked as noarch: python
• Proper entry point configuration
• Appropriate pip install flags
• Correct run_exports pinning

🧰 Tools

🪛 yamllint

[error] 1-1: syntax error: found character '%' that cannot start any token

(syntax)

---

Line range hint 23-38: Verify dependency compatibility with version 0.3.21.

The dependencies have specific version constraints. Let's verify if they're still valid for pod5 0.3.21.

#!/bin/bash
# Description: Check for dependency changes in the new version
# Expected: Should find dependency specifications in setup.py or pyproject.toml

# Search for dependency specifications in the repository
rg -A 5 "install_requires|dependencies" \
  --glob "setup.py" \
  --glob "pyproject.toml" \
  --glob "requirements.txt"

🧰 Tools

🪛 yamllint

[error] 1-1: syntax error: found character '%' that cannot start any token

(syntax)

---

10-10: Verify SHA256 checksum matches the source tarball.

Let's verify the integrity of the source tarball.

---

2-2: Verify version 0.3.21 exists in upstream repository.

The version bump looks correct, but let's verify its existence in the upstream repository.

✅ Verification successful

Version 0.3.21 exists and is correctly referenced

The version has been verified through multiple sources:

• The source URL is accessible (HTTP 302 redirect to codeload.github.com confirms the tag exists)
• The meta.yaml file correctly references the version across all necessary fields:
  • Package version
  • Source URL
  • Run dependency on lib-pod5

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Verify if version 0.3.21 exists in the upstream repository
# Expected: Should find the release tag and assets

# Check if the release tag exists
gh release view v0.3.21 \
  --repo nanoporetech/pod5-file-format \
  --json tagName,assets \
  --template '{{.tagName}} exists with {{len .assets}} assets'

Length of output: 1171

---

Script:

#!/bin/bash
# Let's try a different approach to verify the version using multiple methods

# 1. Check PyPI for the package version
curl --silent "https://pypi.org/pypi/pod5/json" | jq -r '.releases | keys[]' | grep "0.3.21"

# 2. Check the meta.yaml file content to understand the source URL pattern
cat recipes/pod5/meta.yaml

# 3. Try to fetch the source URL directly
curl --silent --head "https://github.com/nanoporetech/pod5-file-format/archive/v0.3.21.tar.gz"

Length of output: 6220

---

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