bftools #51960
bftools #51960
Conversation
|
Warning Rate limit exceeded@bgruening has exceeded the limit for the number of commits or files that can be reviewed per hour. Please wait 6 minutes and 14 seconds before requesting another review. ⌛ How to resolve this issue?After the wait time has elapsed, a review can be triggered using the We recommend that you space out your commits to avoid hitting the rate limit. 🚦 How do rate limits work?CodeRabbit enforces hourly rate limits for each developer per organization. Our paid plans have higher rate limits than the trial, open-source and free plans. In all cases, we re-allow further reviews after a brief timeout. Please see our FAQ for further information. 📝 Walkthrough📝 Walkthrough📝 WalkthroughWalkthroughThe pull request introduces updates to the Possibly related PRs
Suggested labels
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? 🪧 TipsChatThere are 3 ways to chat with CodeRabbit:
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)
Other keywords and placeholders
CodeRabbit Configuration File (
|
![coderabbitai[bot]](https://avatars.githubusercontent.com/in/347564?s=60&v=4){kind=small}
There was a problem hiding this comment.
Actionable comments posted: 1
📜 Review details
Configuration used: CodeRabbit UI
Review profile: CHILL
📒 Files selected for processing (1)
recipes/bftools/meta.yaml(2 hunks)
🧰 Additional context used
🪛 yamllint
recipes/bftools/meta.yaml
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
🔇 Additional comments (3)
recipes/bftools/meta.yaml (3)
10-11: Improved security and maintainability
Good changes:
- Switched to HTTPS for secure downloads
- Simplified URL structure using version variable directly
16-17: Good addition of run_exports
The addition of run_exports with max_pin="x.x" is excellent. This ensures:
- Automatic runtime dependency management
- Protection against ABI breaks by constraining to minor version updates
1-2: Verify compatibility with downstream dependencies
The version bump from 6.7.0 to 8.0.0 is a major version change that might introduce breaking changes. The added run_exports will help, but we should verify the impact.
🧰 Tools
🪛 yamllint
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
recipes/bftools/meta.yaml
Outdated
| ##- bfconvert a.fake a.tiff | ||
| - domainlist | ||
| - formatlist | ||
| # - ijview | ||
| - mkfake test | ||
| - showinf -nopix a.fake | ||
| - tiffcomment a.tiff | ||
| # - xmlindent | ||
| # - xmlvalid |
There was a problem hiding this comment.
🛠️ Refactor suggestion
Enhance test reliability
The test commands need improvement:
- Several commands are commented out without explanation
- Commands like
showinf -nopix a.fakeandtiffcomment a.tiffreference files that don't exist
Consider these improvements:
test:
commands:
- bfconvert -version
- ##- bfconvert a.fake a.tiff
- domainlist
- formatlist
- # - ijview
- mkfake test
- - showinf -nopix a.fake
- - tiffcomment a.tiff
- # - xmlindent
- # - xmlvalid
+ # Create test files first
+ - mkfake test.fake
+ - bfconvert test.fake test.tiff
+ - showinf -nopix test.fake
+ - tiffcomment test.tiff📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| ##- bfconvert a.fake a.tiff | |
| - domainlist | |
| - formatlist | |
| # - ijview | |
| - mkfake test | |
| - showinf -nopix a.fake | |
| - tiffcomment a.tiff | |
| # - xmlindent | |
| # - xmlvalid | |
| - bfconvert -version | |
| - domainlist | |
| - formatlist | |
| - mkfake test | |
| # Create test files first | |
| - mkfake test.fake | |
| - bfconvert test.fake test.tiff | |
| - showinf -nopix test.fake | |
| - tiffcomment test.tiff |
Describe your pull request here
Please read the guidelines for Bioconda recipes before opening a pull request (PR).
General instructions
@BiocondaBot please add labelcommand.@bioconda/corein a comment.Instructions for avoiding API, ABI, and CLI breakage issues
Conda is able to record and lock (a.k.a. pin) dependency versions used at build time of other recipes.
This way, one can avoid that expectations of a downstream recipe with regards to API, ABI, or CLI are violated by later changes in the recipe.
If not already present in the meta.yaml, make sure to specify
run_exports(see here for the rationale and comprehensive explanation).Add a
run_exportssection like this:with
...being one of:{{ pin_subpackage("myrecipe", max_pin="x") }}{{ pin_subpackage("myrecipe", max_pin="x.x") }}{{ pin_subpackage("myrecipe", max_pin="x.x") }}(in such a case, please add a note that shortly mentions your evidence for that){{ pin_subpackage("myrecipe", max_pin="x.x.x") }}(in such a case, please add a note that shortly mentions your evidence for that){{ pin_subpackage("myrecipe", max_pin=None) }}while replacing
"myrecipe"with eithernameif aname|lowervariable is defined in your recipe or with the lowercase name of the package in quotes.Bot commands for PR management
Please use the following BiocondaBot commands:
Everyone has access to the following BiocondaBot commands, which can be given in a comment:
@BiocondaBot please update@BiocondaBot please add labelplease review & mergelabel.@BiocondaBot please fetch artifactsYou can use this to test packages locally.
Note that the
@BiocondaBot please mergecommand is now depreciated. Please just squash and merge instead.Also, the bot watches for comments from non-members that include
@bioconda/<team>and will automatically re-post them to notify the addressed<team>.