Update pbmarkdup to 1.1.0

[BiocondaBot]

Update pbmarkdup: 1.0.3 → 1.1.0

Info	Link or Description
Recipe	recipes/pbmarkdup (click to view/edit other files)
Summary	pbmarkdup - Mark duplicate reads from PacBio sequencing of an amplified library
Home	https://github.com/PacificBiosciences/pbbioconda
Releases
Recipe Maintainer(s)	@armintoepfer, @pb-dseifert
Author	@PacificBiosciences

---

This pull request was automatically generated (see docs).

[coderabbitai]

📝 Walkthrough

Walkthrough

The pull request involves an update to the meta.yaml file for the pbmarkdup package. The version number has been changed from "1.0.3" to "1.1.0", indicating a new release of the package. Along with the version increment, the SHA256 checksum has also been updated from "96907ba4873f377c79b3c74128ae45307e75e7c42dd90b0ddf7fe8b4684b723a" to "a6bbcd71cce4a90202f5d7a7882f982e876212dbc237095418a72d0b7eea6e61". This checksum update is essential for ensuring the integrity and authenticity of the new package version. No other changes were made to the file structure, which includes the package metadata, source URL, and additional information.

Possibly related PRs

• Update pbaa version 1.1.0 #51724: Update pbaa version 1.1.0 - This PR updates the version and SHA256 checksum in the meta.yaml file, similar to the changes made in the main PR for the pbmarkdup package.

---

📜 Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between 2290368 and b279127.

📒 Files selected for processing (1)

• recipes/pbmarkdup/meta.yaml (1 hunks)

🔇 Additional comments (4)

recipes/pbmarkdup/meta.yaml (4)

Line range hint 5-24: LGTM! Recipe structure and metadata remain unchanged

The package metadata, license, maintainers, and other configurations are properly maintained.

🧰 Tools

🪛 yamllint

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

(syntax)

---

Line range hint 25-35: LGTM! Build configuration is appropriate

The build configuration is correct:

• Build number properly reset to 0 for the new version
• Platform restrictions and skip-lints are maintained

🧰 Tools

🪛 yamllint

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

(syntax)

---

2-2: Verify the existence of version 1.1.0

The version bump follows semantic versioning. Let's verify that this version exists in the upstream repository.

✅ Verification successful

Version 1.1.0 is correctly specified

The version bump to 1.1.0 is valid as this version exists as an official release (v1.1.0) in the PacificBiosciences/pbmarkdup repository.

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Verify that version 1.1.0 exists in the PacificBiosciences/pbmarkdup repository
gh release view v1.1.0 --repo PacificBiosciences/pbmarkdup

Length of output: 588

---

Script:

#!/bin/bash
# Let's try a different approach to verify the release existence
gh api repos/PacificBiosciences/pbmarkdup/releases | jq -r '.[].tag_name'

Length of output: 110

---

3-3: Verify SHA256 checksum integrity

Let's verify that the SHA256 checksum matches the upstream binary file.

---

Thank you for using CodeRabbit. We offer it for free to the OSS community and would appreciate your support in helping us grow. If you find it useful, would you consider giving us a shout-out on your favorite social media?

❤️ Share

• X
• Mastodon
• Reddit
• LinkedIn

🪧 Tips

Chat

There are 3 ways to chat with CodeRabbit:

• Review comments: Directly reply to a review comment made by CodeRabbit. Example:
  • I pushed a fix in commit <commit_id>, please review it.
  • Generate unit testing code for this file.
  • Open a follow-up GitHub issue for this discussion.
• Files and specific lines of code (under the "Files changed" tab): Tag @coderabbitai in a new review comment at the desired location with your query. Examples:
  • @coderabbitai generate unit testing code for this file.
  • @coderabbitai modularize this function.
• PR comments: Tag @coderabbitai in a new PR comment to ask questions about the PR branch. For the best results, please provide a very specific query, as very limited context is provided in this mode. Examples:
  • @coderabbitai gather interesting stats about this repository and render them as a table. Additionally, render a pie chart showing the language distribution in the codebase.
  • @coderabbitai read src/utils.ts and generate unit testing code.
  • @coderabbitai read the files in the src/scheduler package and generate a class diagram using mermaid and a README in the markdown format.
  • @coderabbitai help me debug CodeRabbit configuration file.

Note: Be mindful of the bot's finite context window. It's strongly recommended to break down tasks such as reading entire modules into smaller chunks. For a focused discussion, use review comments to chat about specific files and their changes, instead of using the PR comments.

CodeRabbit Commands (Invoked using PR comments)

• @coderabbitai pause to pause the reviews on a PR.
• @coderabbitai resume to resume the paused reviews.
• @coderabbitai review to trigger an incremental review. This is useful when automatic reviews are disabled for the repository.
• @coderabbitai full review to do a full review from scratch and review all the files again.
• @coderabbitai summary to regenerate the summary of the PR.
• @coderabbitai resolve resolve all the CodeRabbit review comments.
• @coderabbitai configuration to show the current CodeRabbit configuration for the repository.
• @coderabbitai help to get help.

Other keywords and placeholders

• Add @coderabbitai ignore anywhere in the PR description to prevent this PR from being reviewed.
• Add @coderabbitai summary to generate the high-level summary at a specific location in the PR description.
• Add @coderabbitai anywhere in the PR title to generate the title automatically.

CodeRabbit Configuration File (.coderabbit.yaml)

• You can programmatically configure CodeRabbit by adding a .coderabbit.yaml file to the root of your repository.
• Please see the configuration documentation for more information.
• If your editor has YAML language server enabled, you can add the path at the top of this file to enable auto-completion and validation: # yaml-language-server: $schema=https://coderabbit.ai/integrations/schema.v2.json

Documentation and Community

• Visit our Documentation for detailed information on how to use CodeRabbit.
• Join our Discord Community to get help, request features, and share feedback.
• Follow us on X/Twitter for updates and announcements.

[jmattick]

See #51783

[mencian]

Closing in favor of #51783.