fix: provide proper error messages if output file preparation (pipe, mkdir) fails#3309
Merged
johanneskoester merged 3 commits intomainfrom Feb 27, 2025
Merged
fix: provide proper error messages if output file preparation (pipe, mkdir) fails#3309johanneskoester merged 3 commits intomainfrom
johanneskoester merged 3 commits intomainfrom
Conversation
Contributor
|
Warning Rate limit exceeded@johanneskoester has exceeded the limit for the number of commits or files that can be reviewed per hour. Please wait 13 minutes and 2 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. 📒 Files selected for processing (2)
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 (
|
Contributor
|
Please format your code with black: |
|
johanneskoester
pushed a commit
that referenced
this pull request
Feb 27, 2025
🤖 I have created a release *beep* *boop* --- ## [8.29.0](v8.28.0...v8.29.0) (2025-02-27) ### Features * provide mechanism to link between report items (snakemake.report_href, see docs) ([#3224](#3224)) ([a024e60](a024e60)) * toggles for binary labels in report ([#3296](#3296)) ([7690998](7690998)) ### Bug Fixes * add missing [@conda](https://github.com/conda) annotations ([#3298](#3298)) ([0b541cc](0b541cc)) * properly handle remote storage when waiting for pipes ([#3317](#3317)) ([9f7e092](9f7e092)) * provide proper error messages if output file preparation (pipe, mkdir) fails ([#3309](#3309)) ([77ef176](77ef176)) * record file extension (e.g. .tsv) in between workflow cache records in order to avoid that files of the wrong format are erroneously returned by the cache. This will lead to some cache misses. But avoiding errors induced by the previous behavior of ignoring file extensions when seeking for cache records is more important. ([#3314](#3314)) ([4912f00](4912f00)) * sort results lexicographically by labels in their order of appearance ([#3293](#3293)) ([a19a0ac](a19a0ac)) ### Documentation * update best practices ([7270eb3](7270eb3)) --- This PR was generated with [Release Please](https://github.com/googleapis/release-please). See [documentation](https://github.com/googleapis/release-please#release-please). Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
kjohnsen
pushed a commit
to kjohnsen/snakemake
that referenced
this pull request
Dec 15, 2025
…mkdir) fails (snakemake#3309) <!--Add a description of your PR here--> ### QC <!-- Make sure that you can tick the boxes below. --> * [x] The PR contains a test case for the changes or the changes are already covered by an existing test case. * [x] The documentation (`docs/`) is updated to reflect the changes or this is not necessary (e.g. if the change does neither modify the language nor the behavior or functionalities of Snakemake).
kjohnsen
pushed a commit
to kjohnsen/snakemake
that referenced
this pull request
Dec 15, 2025
🤖 I have created a release *beep* *boop* --- ## [8.29.0](snakemake/snakemake@v8.28.0...v8.29.0) (2025-02-27) ### Features * provide mechanism to link between report items (snakemake.report_href, see docs) ([snakemake#3224](snakemake#3224)) ([a024e60](snakemake@a024e60)) * toggles for binary labels in report ([snakemake#3296](snakemake#3296)) ([7690998](snakemake@7690998)) ### Bug Fixes * add missing [@conda](https://github.com/conda) annotations ([snakemake#3298](snakemake#3298)) ([0b541cc](snakemake@0b541cc)) * properly handle remote storage when waiting for pipes ([snakemake#3317](snakemake#3317)) ([9f7e092](snakemake@9f7e092)) * provide proper error messages if output file preparation (pipe, mkdir) fails ([snakemake#3309](snakemake#3309)) ([77ef176](snakemake@77ef176)) * record file extension (e.g. .tsv) in between workflow cache records in order to avoid that files of the wrong format are erroneously returned by the cache. This will lead to some cache misses. But avoiding errors induced by the previous behavior of ignoring file extensions when seeking for cache records is more important. ([snakemake#3314](snakemake#3314)) ([4912f00](snakemake@4912f00)) * sort results lexicographically by labels in their order of appearance ([snakemake#3293](snakemake#3293)) ([a19a0ac](snakemake@a19a0ac)) ### Documentation * update best practices ([7270eb3](snakemake@7270eb3)) --- This PR was generated with [Release Please](https://github.com/googleapis/release-please). See [documentation](https://github.com/googleapis/release-please#release-please). Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
QC
docs/) is updated to reflect the changes or this is not necessary (e.g. if the change does neither modify the language nor the behavior or functionalities of Snakemake).